26,524 results
Search Results
2. Sanofi-Cell Research outstanding paper award of 2015.
- Subjects
- Animals, History, 21st Century, Mice, Awards and Prizes, Cell Biology history, Drug Industry economics, Research economics, Research standards
- Published
- 2016
- Full Text
- View/download PDF
3. Sanofi-Cell Research outstanding paper award of 2014.
- Author
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Li D
- Subjects
- Animals, Research Report, Awards and Prizes, Biomedical Research, Cell Biology
- Published
- 2015
- Full Text
- View/download PDF
4. Sanofi-Cell Research outstanding paper award of 2012.
- Author
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Li D
- Subjects
- Animals, Awards and Prizes, Cell Biology standards, Periodicals as Topic, Research standards
- Published
- 2013
- Full Text
- View/download PDF
5. Sanofi-cell research outstanding paper award of 2011.
- Author
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Li D
- Subjects
- History, 21st Century, Humans, Awards and Prizes, Cell Biology history
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- 2012
- Full Text
- View/download PDF
6. Bleeding on paper. By Caveman.
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- Cell Biology trends, Research Support as Topic trends, Writing
- Published
- 2003
- Full Text
- View/download PDF
7. Paper chromatography of cell fragments.
- Author
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WILSON AT
- Subjects
- Cell Biology, Chromatography, Chromatography, Paper
- Published
- 1959
- Full Text
- View/download PDF
8. Urinary Extracellular Vesicles: A Position Paper by the Urine Task Force of the International Society for Extracellular Vesicles
- Author
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Juan M. Falcón-Pérez, Dylan Burger, Aled Clayton, Lei Zheng, Uta Erdbrügger, Kerstin Junker, Luca Musante, Ewout J. Hoorn, I.V. Bijnsdorp, Kenneth W. Witwer, Harry Holthöfer, James W. Dear, Erik H. Koritzinsky, Benedetta Bussolati, Jason P. Webber, Elena S. Martens-Uzunova, Charles J. Blijdorp, Inge Mertens, Alicia Llorente, James M. Luther, Peter S.T. Yuen, Catherine Sánchez, Janne Leivo, Andrew F. Hill, Guido Jenster, Eline Oeyen, Visith Thongboonkerd, Cristina Grange, Metka Lenassi, Maija Puhka, Carolina Soekmadji, Volkert van Steijn, Francesc E. Borràs, James Brian Byrd, Martin E. van Royen, Gerald W. Verhaegh, Mark A. Knepper, John Klein, Connie R. Jimenez, Institute for Molecular Medicine Finland, University of Helsinki, Internal Medicine, Urology, Pathology, CCA - Cancer biology and immunology, CCA - Imaging and biomarkers, Medical oncology laboratory, and Amsterdam Neuroscience - Neurodegeneration
- Subjects
0301 basic medicine ,CLINICAL-APPLICATIONS ,Urine ,0302 clinical medicine ,Medicine ,Biomarker discovery ,Urinary Tract ,bladder ,biobank ,biomarkers ,extracellular vesicles ,kidney ,liquid biopsy ,prostate ,rigor and standardization ,urine ,DEEP SEQUENCING ANALYSIS ,Prostate ,TAMM-HORSFALL PROTEIN ,Reference Standards ,Extracellular vesicles ,BIOMARKER DISCOVERY ,Body Fluids ,3. Good health ,PROSTATE-CANCER ,Clinical Practice ,030220 oncology & carcinogenesis ,Position Paper ,PROTEOMIC ANALYSIS ,MESSENGER-RNA ,MEMBRANE-VESICLES ,Histology ,Urinary system ,Advisory Committees ,Scientific field ,Bladders ,DIABETIC-NEPHROPATHY ,03 medical and health sciences ,All institutes and research themes of the Radboud University Medical Center ,Urological cancers Radboud Institute for Molecular Life Sciences [Radboudumc 15] ,Humans ,Biology ,QH573-671 ,Task force ,business.industry ,Reproducibility of Results ,Kidneys ,Cell Biology ,Biobanks ,SODIUM-CHLORIDE COTRANSPORTER ,030104 developmental biology ,Clinical diagnosis ,Position paper ,1182 Biochemistry, cell and molecular biology ,Human medicine ,Societies ,business ,Cytology ,Position Papers ,Neuroscience ,Biomarkers - Abstract
Urine is commonly used for clinical diagnosis and biomedical research. The discovery of extracellular vesicles (EV) in urine opened a new fast-growing scientific field. In the last decade urinary extracellular vesicles (uEVs) were shown to mirror molecular processes as well as physiological and pathological conditions in kidney, urothelial and prostate tissue. Therefore, several methods to isolate and characterize uEVs have been developed. However, methodological aspects of EV separation and analysis, including normalization of results, need further optimization and standardization to foster scientific advances in uEV research and a subsequent successful translation into clinical practice. This position paper is written by the Urine Task Force of the Rigor and Standardization Subcommittee of ISEV consisting of nephrologists, urologists, cardiologists and biologists with active experience in uEV research. Our aim is to present the state of the art and identify challenges and gaps in current uEV-based analyses for clinical applications. Finally, recommendations for improved rigor, reproducibility and interoperability in uEV research are provided in order to facilitate advances in the field. ESM-U, CG, GV, GJ, IVB, MvR, and VvS, are members of the “IMMPROVE” consortium (Innovative Measurements and Markers for Prostate Cancer Diagnosis and Prognosis using Extracellular Vesicles), which is sponsored by an Alpe d'HuZes grant of the Dutch Cancer Society (grant #EMCR2015-8022). AL is supported by Norges Forskningsråd, Kreftforeningen and Helse Sør-Øst RHF (NO). UE is supported by the NIH, National Heart, Lung, and Blood Institute, Award number K23-HL-126101. CJB and EJH are supported by the Dutch Kidney Foundation (Nierstichting), Award number: CP18.05.
- Published
- 2021
9. Paper-based ELISA diagnosis technology for human brucellosis based on a multiepitope fusion protein
- Author
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Han Li, Hai Jiang, Mingjun Sun, Qiongqiong Bai, Dehui Yin, Jingpeng Zhang, Xiling Wu, and Jihong Shao
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Bacterial Diseases ,Serum Proteins ,B Cells ,RC955-962 ,Disease ,Pathology and Laboratory Medicine ,Biochemistry ,Epitope ,Cell Fusion ,Epitopes ,White Blood Cells ,Medical Conditions ,Filter Paper ,Animal Cells ,Zoonoses ,Arctic medicine. Tropical medicine ,Medicine and Health Sciences ,Enzyme-Linked Immunoassays ,biology ,Bacterial Pathogens ,Laboratory Equipment ,medicine.anatomical_structure ,Infectious Diseases ,Medical Microbiology ,Engineering and Technology ,Pathogens ,Cellular Types ,Public aspects of medicine ,RA1-1270 ,Bacterial Outer Membrane Proteins ,Research Article ,Neglected Tropical Diseases ,China ,Cell Physiology ,Immune Cells ,Immunology ,Equipment ,Enzyme-Linked Immunosorbent Assay ,Brucella ,Research and Analysis Methods ,Sensitivity and Specificity ,Microbiology ,Brucellosis ,Antigen ,Diagnostic Medicine ,medicine ,Humans ,Immunoassays ,Antibody-Producing Cells ,Microbial Pathogens ,B cell ,Antigens, Bacterial ,Blood Cells ,Bacteria ,business.industry ,Public Health, Environmental and Occupational Health ,Organisms ,Biology and Life Sciences ,Proteins ,Cell Biology ,medicine.disease ,biology.organism_classification ,Tropical Diseases ,Fusion protein ,Virology ,Infectious disease (medical specialty) ,Immunologic Techniques ,business - Abstract
Background Brucellosis, as a serious zoonotic infectious disease, has been recognized as a re-emerging disease in the developing countries worldwide. In china, the incidence of brucellosis is increasing each year, seriously threatening the health of humans as well as animal populations. Despite a quite number of diagnostic methods currently being used for brucellosis, innovative technologies are still needed for its rapid and accurate diagnosis, especially in area where traditional diagnostic is unavailable. Methodology/Principal findings In this study, a total of 22 B cell linear epitopes were predicted from five Brucella outer membrane proteins (OMPs) using an immunoinformatic approach. These epitopes were then chemically synthesized, and with the method of indirect ELISA (iELISA), each of them displayed a certain degree of capability in identifying human brucellosis positive sera. Subsequently, a fusion protein consisting of the 22 predicted epitopes was prokaryotically expressed and used as diagnostic antigen in a newly established brucellosis testing method, nano-ZnO modified paper-based ELISA (nano-p-ELISA). According to the verifying test using a collection of sera collected from brucellosis and non-brucellosis patients, the sensitivity and specificity of multiepitope based nano-p-ELISA were 92.38% and 98.35% respectively. The positive predictive value was 98.26% and the negative predictive value was 91.67%. The multiepitope based fusion protein also displayed significantly higher specificity than Brucella lipopolysaccharide (LPS) antigen. Conclusions B cell epitopes are important candidates for serologically testing brucellosis. Multiepitope fusion protein based nano-p-ELISA displayed significantly sensitivity and specificity compared to Brucella LPS antigen. The strategy applied in this study will be helpful to develop rapid and accurate diagnostic method for brucellosis in human as well as animal populations., Author summary Brucellosis is one of the most important zoonosis in the world and has caused tremendous economic losses in agriculture and animal husbandry in many countries. Developing rapid, sensitive and specific diagnostic methods is very important for early detection and treatment of brucellosis patients. In this study, a novel diagnostic technique, nano-ZnO modified paper ELISA, was established. The antigen used in this technique was a fusion protein containing multiple B cell epitopes, which were predicted from Brucella major outer membrane proteins such as Bp26, Omp31, Omp16, Omp2b and Omp25. Comparing to traditional LPS antigen, this multiepitope based antigen displayed considerably higher sensitivity and higher specificity in laboratory. With the strategy described in this paper, more efficient epitopes and protein antigen can be identified in the future. Currently, LPS antigen is only prepared from live Brucella, while protein antigen can be produced in large quantities in prokaryotic expression system. In addition to nano-p-ELISA, this protein antigen can also be used for development other methods such as fluorescent polarization assay (FPA) and immunochromatographic assay (ICA) to meet the varied demand for brucellosis testing.
- Published
- 2021
10. Survival of SARS-COV-2 under liquid medium, dry filter paper and acidic conditions
- Author
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Zhiping Sun, Xia Cai, Wendong Han, Yang Wu, Chenjian Gu, Rong Zhang, Youhua Xie, Zhenghong Yuan, Di Qu, Wei Xu, Xunjia Cheng, Yuyan Wang, and Yun Qian
- Subjects
2019-20 coronavirus outbreak ,Coronavirus disease 2019 (COVID-19) ,Filter paper ,business.industry ,lcsh:Cytology ,Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) ,Cell Biology ,Liquid medium ,Biochemistry ,Virology ,Correspondence ,Genetics ,Medicine ,lcsh:QH573-671 ,business ,Molecular Biology - Published
- 2020
11. Nucleic Acid Hybridization with RNA Immobilized on Filter Paper
- Author
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Saxinger, W. C., Ponnamperuma, C., and Gillespie, D.
- Published
- 1972
12. Paper-based plasmonic substrates as surface-enhanced Raman scattering spectroscopy platforms for cell culture applications
- Author
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L. Guerrini, Yanan Kang, K. Juarez-Moreno, José M. Romo-Herrera, R.A. Alvarez-Puebla, Wolfgang J. Parak, N. Feliu, and Publica
- Subjects
Medicine (General) ,Materials science ,Biocompatibility ,QH301-705.5 ,Biomedical Engineering ,Nanoparticle ,Bioengineering ,Nanotechnology ,Review Article ,Nanomaterials ,Biomaterials ,R5-920 ,Biology (General) ,Plasmonic nanoparticles ,Molecular Biology ,Plasmon ,SERS ,Paper-based substrates ,Cell Biology ,Plasmonic papers ,Colloidal gold ,Cell culture ,Biosensor ,Biotechnology - Abstract
The engineering of advanced materials capable of mimicking the cellular micro-environment while providing cells with physicochemical cues is central for cell culture applications. In this regard, paper meets key requirements in terms of biocompatibility, hydrophilicity, porosity, mechanical strength, ease of physicochemical modifications, cost, and ease of large-scale production, to be used as a scaffold material for biomedical applications. Most notably, paper has demonstrated the potential to become an attractive alternative to conventional biomaterials for creating two-dimensional (2D) and three-dimensional (3D) biomimetic cell culture models that mimic the features of in vivo tissue environments for improving our understanding of cell behavior (e.g. growth, cell migration, proliferation, differentiation and tumor metastasis) in their natural state. On the other hand, integration of plasmonic nanomaterials (e.g. gold nanoparticles) within the fibrous structure of paper opens the possibility to generate multifunctional scaffolds equipped with biosensing tools for monitoring different cell cues through physicochemical signals. Among different plasmonic based detection techniques, surface-enhanced Raman scattering (SERS) spectroscopy emerged as a highly specific and sensitive optical tool for its extraordinary sensitivity and the ability for multidimensional and accurate molecular identification. Thus, paper-based plasmonic substrates in combination with SERS optical detection represent a powerful future platform for monitoring cell cues during cell culture processes. To this end, in this review, we will describe the different methods for fabricating hybrid paper-plasmonic nanoparticle substrates and their use in combination with SERS spectroscopy for biosensing and, more specifically, in cell culture applications., Graphical abstract Image 1
- Published
- 2021
13. Growing a circular economy with fungal biotechnology: a white paper
- Author
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Meyer, Vera, Basenko, Evelina Y, Benz, J Philipp, Braus, Gerhard H, Caddick, Mark X, Csukai, Michael, de Vries, Ronald P, Endy, Drew, Frisvad, Jens C, Gunde-Cimerman, Nina, Haarmann, Thomas, Hadar, Yitzhak, Hansen, Kim, Johnson, Robert I, Keller, Nancy P, Kraševec, Nada, Mortensen, Uffe H, Perez, Rolando, Ram, Arthur F J, Record, Eric, Ross, Phil, Shapaval, Volha, Steiniger, Charlotte, van den Brink, Hans, van Munster, Jolanda, Yarden, Oded, Wösten, Han A B, Sub Molecular Plant Physiology, Sub Molecular Microbiology, Molecular Microbiology, Molecular Plant Physiology, Department of Molecular Microbiology and Biotechnology, Leiden University, Institute of Biology Leiden, Georg-August-University [Göttingen], School of Biological Sciences, University of Liverpool, Science Faculty, Mohamed V University in Rabat, Chercheur indépendant, Technical University of Denmark [Lyngby] (DTU), Centre of Excellence for Integrated Approaches in Chemistry and Biology of Proteins, University of Virginia [Charlottesville], Centre of Molecular Immunology, Antibody engineering Department, Leiden University, Unité de microbiologie et technologie céréalières, Institut National de la Recherche Agronomique (INRA), Norwegian University of Life Sciences (NMBU), Department of Plant Pathology and Microbiology, The Hebrew University of Jerusalem (HUJ), Utrecht University [Utrecht], Sub Molecular Plant Physiology, Sub Molecular Microbiology, Molecular Microbiology, Molecular Plant Physiology, Westerdijk Fungal Biodiversity Institute - Fungal Physiology, and Westerdijk Fungal Biodiversity Institute
- Subjects
0106 biological sciences ,[SDV.BIO]Life Sciences [q-bio]/Biotechnology ,lcsh:Biotechnology ,[SDV]Life Sciences [q-bio] ,Population ,Automotive industry ,Review ,01 natural sciences ,Applied Microbiology and Biotechnology ,12. Responsible consumption ,03 medical and health sciences ,White paper ,lcsh:TP248.13-248.65 ,010608 biotechnology ,11. Sustainability ,SDG 13 - Climate Action ,education ,Molecular Biology ,Ecology, Evolution, Behavior and Systematics ,ComputingMilieux_MISCELLANEOUS ,030304 developmental biology ,2. Zero hunger ,Sustainable development ,0303 health sciences ,education.field_of_study ,business.industry ,Circular economy ,SDG 8 - Decent Work and Economic Growth ,Cell Biology ,[SDE.ES]Environmental Sciences/Environmental and Society ,Biotechnology ,Climate change mitigation ,13. Climate action ,Greenhouse gas ,Sustainability ,Business ,SDG 12 - Responsible Consumption and Production - Abstract
Fungi have the ability to transform organic materials into a rich and diverse set of useful products and provide distinct opportunities for tackling the urgent challenges before all humans. Fungal biotechnology can advance the transition from our petroleum-based economy into a bio-based circular economy and has the ability to sustainably produce resilient sources of food, feed, chemicals, fuels, textiles, and materials for construction, automotive and transportation industries, for furniture and beyond. Fungal biotechnology offers solutions for securing, stabilizing and enhancing the food supply for a growing human population, while simultaneously lowering greenhouse gas emissions. Fungal biotechnology has, thus, the potential to make a significant contribution to climate change mitigation and meeting the United Nation’s sustainable development goals through the rational improvement of new and established fungal cell factories. The White Paper presented here is the result of the 2nd Think Tank meeting held by the EUROFUNG consortium in Berlin in October 2019. This paper highlights discussions on current opportunities and research challenges in fungal biotechnology and aims to inform scientists, educators, the general public, industrial stakeholders and policymakers about the current fungal biotech revolution.
- Published
- 2020
14. An American Physiological Society cross-journal Call for Papers on 'The Physiology of Obesity'
- Author
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Sue C. Bodine, Heddwen L. Brooks, Hilary A. Coller, Ana I. Domingos, Mark R. Frey, Barbara E. Goodman, Thomas R. Kleyman, Merry L. Lindsey, Rory E. Morty, Ole H. Petersen, Jan-Marino Ramírez, Liliana Schaefer, Morten B. Thomsen, and Gina L. C. Yosten
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Pulmonary and Respiratory Medicine ,Editorial ,Physiology ,Physiology (medical) ,Humans ,Cell Biology ,Obesity ,United States - Published
- 2022
15. Papers presented at the forty-first annual meeting of the Japan Society for Cell Biology. Nagoya, 17-19 November 1988. Abstracts.
- Subjects
- Animals, Humans, Cell Biology
- Published
- 1988
16. Abstracts of papers presented at the eighteenth annual meeting the American Society for Cell Biology.
- Subjects
- Cell Cycle, Cell Differentiation, Cells, Cultured, Congresses as Topic, Organoids physiology, Societies, Scientific, United States, Cell Biology, Cell Physiological Phenomena
- Published
- 1978
17. Abstracts of papers presented at the twentieth annual meeting. The American Society for Cell Biology. Cincinnati, Ohio 14-18 November 1980.
- Subjects
- Cell Cycle, Cell Differentiation, Cytoplasm physiology, Extracellular Space physiology, Fertilization, Genetics, Proteins genetics, Receptors, Drug physiology, United States, Virus Physiological Phenomena, Cell Biology, Societies, Scientific
- Published
- 1980
18. HISTORICAL PAPER. CONTRIBUTIONS TO THE KNOWLEDGE OF THE CELL AND ITS VITAL PROCESSES.
- Author
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FLEMMING W
- Subjects
- Humans, Cell Biology, History
- Published
- 1965
19. Sterility of Gauze Packed in One and Three Layer Layer Parchment Paper
- Author
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Vincentia Rizke Ciptaningtyas, Endang Sri Lestari, and Saskia Biyakto Putri
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Embryology ,lcsh:R5-920 ,Materials science ,Parchment ,Sterility ,sterility ,Significant difference ,Cell Biology ,Sterilization (microbiology) ,sterile gauze ,Anatomy ,Composite material ,lcsh:Medicine (General) ,Developmental Biology ,parchment paper - Abstract
Intoduction: Sterile gauze is one of the medical devices that are often used to prevent infection. Several things, one of them is materials for packaging, can affect the sterility of gauze. Parchment paper is one of the packaging materials for sterilization. The study was done to analyze the sterility of gauze packed with parchment paper one layer and three layers on the growth of microorganism.Method: This study was an experimental study with a quasi-experimental design. Samples were 60 gauze packed with one layer parchment paper and 60 gauze packed with three layers of parchment paper. The sterility of sterile gauze tested at weeks 0, 2 and 4. Results: There was no significant difference in the sterility of gauze packed with 1 layer of parchment paper on the growth of microorganisms at 0, 2, 4 weeks (p = 0.126). No significant difference in the sterility of sterile gauze packed with 3 layers of parchment paper at 0, 2, 4 weeks (p = 0.675). There was a significant difference in the sterility of sterile gauze packed with parchment paper 1 layer and 3 layers on the growth of microorganisms (p = 0.002).Conclusion There is a significant difference of sterile gauze packed with parchment paper 1 layer and 3 layers against the growth of microorganisms. The sterility of the packaged sterile gauze with a layer of parchment paper is better than the three layers.
- Published
- 2017
20. De Novo Assembly of Expressed Transcripts and Global Transcriptomic Analysis from Seedlings of the Paper Mulberry (Broussonetia kazinoki x Broussonetia papyifera).
- Author
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Xianjun, Peng, Linhong, Teng, Xiaoman, Wang, Yucheng, Wang, and Shihua, Shen
- Subjects
- *
GENE expression in plants , *PAPER mulberry , *SEEDLINGS , *PLANT species , *PLANT genetics , *GENETIC transcription in plants - Abstract
The paper mulberry is one of the multifunctional tree species in agroforestry systems and is also commonly utilized in traditional medicine in China and other Asian countries. However, little is known about its molecular genetics, which hinders research on and exploitation of this valuable resource. To discern the correlation between gene expression and the essential properties of the paper mulberry, we performed a transcriptomics analysis, assembling a total of 37,725 unigenes from 54,638,676 reads generated by RNA-seq. Among these, 22,692 unigenes showed greater than 60% similarity with genes from other species. The lengths of 13,566 annotated unigenes were longer than 1,000 bp. Functional clustering analysis with COG (Cluster of Orthologous Groups) revealed that 17,184 unigenes are primarily involved in transcription, translation, signal transduction, carbohydrate metabolism, secondary metabolism, and energy metabolism. GO (Gene Ontology) annotation suggests enrichment of genes encoding antioxidant activity, transporter activity, biosynthesis, metabolism and stress response, with a total of 30,659 unigenes falling in these categories. KEGG (Kyoto Encyclopedia of Genes and Genomes) metabolic pathway analysis showed that 7,199 unigenes are associated with 119 metabolic pathways. In addition to the basic metabolism, these genes are enriched for plant pathogen interaction, flavonoid metabolism and other secondary metabolic processes. Furthermore, differences in the transcriptomes of leaf, stem and root tissues were analyzed and 7,233 specifically expressed unigenes were identified. This global expression analysis provided novel insights about the molecular mechanisms of the biosynthesis of flavonoid, lignin and cellulose, as well as on the response to biotic and abiotic stresses including the remediation of contaminated soil by the paper mulberry. [ABSTRACT FROM AUTHOR]
- Published
- 2014
- Full Text
- View/download PDF
21. A practical algorithmic approach to mature aggressive B cell lymphoma diagnosis in the double/triple hit era. Selecting cases, matching clinical benefit. A position paper from the Italian Group of Haematopathology (G.I.E.)
- Author
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Maurilio Ponzoni, Fabio Facchetti, Claudio Tripodo, Maria Raffaella Ambrosio, Alberto Zamo, Stefano Lazzi, Arianna Di Napoli, Domenico Novero, Marco Lucioni, Marco Paulli, Claudio Agostinelli, Elena Sabattini, Alessia Carbone, Stefano Ascani, Stefano Pileri, Luigi Ruco, Lorenzo Leoncini, D. Remotti, Di Napoli, A., Remotti, D., Agostinelli, C., Ambrosio, M. R., Ascani, S., Carbone, A., Facchetti, F., Lazzi, S., Leoncini, L., Lucioni, M., Novero, D., Pileri, S., Ponzoni, M., Sabattini, E., Tripodo, C., Zamo, A., Paulli, M., Ruco, L., Di Napoli A., Remotti D., Agostinelli C., Ambrosio M.R., Ascani S., Carbone A., Facchetti F., Lazzi S., Leoncini L., Lucioni M., Novero D., Pileri S., Ponzoni M., Sabattini E., Tripodo C., Zamo A., Paulli M., and Ruco L.
- Subjects
0301 basic medicine ,medicine.medical_specialty ,Matching (statistics) ,Lymphoma, B-Cell ,Lymphoma ,double hit ,Computer science ,MYC ,Double hit ,Fluorescence ,Pathology and Forensic Medicine ,Immunophenotyping ,03 medical and health sciences ,0302 clinical medicine ,FISH ,Diagnosis ,medicine ,Practical algorithm ,Humans ,Intensive care medicine ,B-cell lymphoma ,Molecular Biology ,In Situ Hybridization ,In Situ Hybridization, Fluorescence ,HGBL ,Brief Report ,B-Cell ,Treatment options ,Correction ,DLBCL ,Algorithms ,Cell Biology ,General Medicine ,Diagnosis, DLBCL, Double hit, FISH, HGBL, MYC ,medicine.disease ,Optimal management ,Molecular analysis ,030104 developmental biology ,030220 oncology & carcinogenesis ,Position paper ,Proper treatment ,Diagnosi ,Human - Abstract
An accurate diagnosis of clinically distinct subgroups of aggressive mature B cell lymphomas is crucial for the choice of proper treatment. Presently, precise recognition of these disorders relies on the combination of morphological, immunophenotypical, and cytogenetic/molecular features. The diagnostic workup in such situations implies the application of costly and time-consuming analyses, which are not always required, since an intensified treatment option is reasonably reserved to fit patients. The Italian Group of Haematopathology proposes herein a practical algorithm for the diagnosis of aggressive mature B cell lymphomas based on a stepwise approach, aimed to select cases deserving molecular analysis, in order to optimize time and resources still assuring the optimal management for any patient.
- Published
- 2019
22. A commentary on the paper: 'Evaluation of spice and herb as phytoderived selective modulators of human retinaldehyde dehydrogenases using a simple in vitro method'
- Author
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Anna Bilska-Wilkosz
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Molecular Interactions ,Plant Extracts ,Biophysics ,retinal dehydrogenases ,Enzyme Activators ,Retinal Dehydrogenase ,Sequence Homology ,Cell Biology ,Bioenergetics ,Biochemistry ,Therapeutics & Molecular Medicine ,class 2 of aldehyde dehydrogenases ,Recombinant Proteins ,star anise ,Metabolism ,Commentaries ,Chemical Biology ,retinoic acid ,Escherichia coli ,cancer therapy ,Humans ,Enzyme Inhibitors ,Molecular Biology ,Enzyme Assays - Abstract
Selective modulation of retinaldehyde dehydrogenases (RALDHs)-the main aldehyde dehydrogenase (ALDH) enzymes converting retinal into retinoic acid (RA), is very important not only in the RA signaling pathway but also for the potential regulatory effects on RALDH isozyme-specific processes and RALDH-related cancers. However, very few selective modulators for RALDHs have been identified, partly due to variable overexpression protocols of RALDHs and insensitive activity assay that needs to be addressed. In the present study, deletion of the N-terminal disordered regions is found to enable simple preparation of all RALDHs and their closest paralog ALDH2 using a single protocol. Fluorescence-based activity assay was employed for enzymatic activity investigation and screening for RALDH-specific modulators from extracts of various spices and herbs that are well-known for containing many phyto-derived anti-cancer constituents. Under the established conditions, spice and herb extracts exhibited differential regulatory effects on RALDHs/ALDH2 with several extracts showing potential selective inhibition of the activity of RALDHs. In addition, the presence of magnesium ions was shown to significantly increase the activity for the natural substrate retinal of RALDH3 but not the others, while His-tag cleavage considerably increased the activity of ALDH2 for the non-specific substrate retinal. Altogether we propose a readily reproducible workflow to find selective modulators for RALDHs and suggest potential sources of selective modulators from spices and herbs.
- Published
- 2022
23. A Hybrid Nanofiber/Paper Cell Culture Platform for Building a 3D Blood-brain Barrier Model
- Author
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Ram Podicheti, R. Scott Martin, Andre D Castiaux, Lane A. Baker, Douglas B. Rusch, and Kaixiang Huang
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Basement membrane ,Tight junction ,Chemistry ,General Chemistry ,Blood–brain barrier ,Article ,law.invention ,Cell biology ,3D cell culture ,medicine.anatomical_structure ,Vasculogenesis ,Confocal microscopy ,law ,Cell culture ,medicine ,General Materials Science ,Induced pluripotent stem cell - Abstract
The blood brain barrier (BBB) protects the central nervous system from toxins and pathogens in the blood by regulating permeation of molecules through the barrier interface. In vitro BBB models described to date reproduce some aspects of BBB functionality, but also suffer from incomplete phenotypic expression of brain endothelial traits, difficulty in reproducibility and fabrication, or overall cost. To address these limitations, we describe a three-dimensional (3D) BBB model based on a hybrid paper/nanofiber scaffold. The cell culture platform utilizes lens paper as a framework to accommodate 3D culture of astrocytes. An electrospun nanofiber layer is coated onto one face of the paper to mimic the basement membrane and support growth of an organized two-dimensional layer of endothelial cells (ECs). Human induced pluripotent stem cell-derived ECs and astrocytes are co-cultured to develop a human BBB model. Morphological and spatial organization of model are validated with confocal microscopy. Measurements of transendothelial resistance and permeability demonstrate the BBB model develops a high-quality barrier and responds to hyperosmolar treatments. RNA-sequencing shows introduction of astrocytes both regulates EC tight junction proteins and improves endothelial phenotypes related to vasculogenesis. This model shows promise as a model platform for future in vitro studies of the BBB.
- Published
- 2021
24. Collagen scaffold for mesencyhmal stem cell from stromal vascular fraction (biocompatibility and attachment study): Experimental paper
- Author
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Umi Kalsum, I.G.M.O. Rahaditya, Edi Mustamsir, Marvin Anthony Putera, Sri Andarini, Respati Suryanto Dradjat, Mohamad Ibnu Imadudin, and Panji Sananta
- Subjects
Scaffold ,Experimental Research ,Biocompatibility ,business.industry ,Stromal vascular fraction ,Mesenchymal stem cell ,General Medicine ,Matrix (biology) ,Collagen scaffold ,Cell biology ,03 medical and health sciences ,0302 clinical medicine ,Tissue engineering ,030220 oncology & carcinogenesis ,Extracellular ,Medicine ,030211 gastroenterology & hepatology ,Surgery ,Stem cell ,business - Abstract
Background One of the most important part of tissue engineering (TE) is a matrix called scaffold. A good scaffold integrates with the host tissue and support the growth and differentiation of the cells. Collagen is the most abundant protein in the ECM and has been considered to be a group of proteins with a characteristic molecular structure—fibrillar structure, which contributes to the extracellular scaffolding. Objective In this research we study the biocompatibility and attachment of collagen scaffold by measuring the level of availability of mesenchymal stem cell (MSC) cluster from stromal vascular fraction (SVF). Method This study was experimental invitro on MSC culture derived from SVF, with post-test control group design. Biocompatibility was measured by viability of MSC from SVF with marker Propidium Iodine through flowcytometry and electron microscope was used to assess the population density of MSC from SVF by measuring the number of cluster cells seen. Result Oxidize cellulose has the greatest value of MSC cluster with average number of 2003 cell cluster. This result was significant with p, Highlights • Biocompatibility and attachment of collagen scaffold. • Measuring the level of availability of mesenchymal stem cell (MSC) cluster from stromal vascular fraction (SVF). • Experimental in vitro study on MSC culture derived from SVF. • Biocompatibility was measured by viability of MSC from SVF with marker Propidium Iodine through flowcytometry. • Electron microscope was used to assess the population density of MSC from SVF.
- Published
- 2020
25. Special Issue '2020 Feature Papers by JDB’ Editorial Board Members'
- Author
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Simon J. Conway
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Focus (computing) ,Computer science ,QH301-705.5 ,Cell Biology ,Editorial board ,Original research ,Data science ,Multicellular organism ,Editorial ,n/a ,Feature (computer vision) ,Biology (General) ,Molecular Biology ,Developmental Biology - Abstract
For this Special Issue “2020 Feature Papers by JDB’ Editorial Board Members,” we present a collection of studies, including original research papers, and review articles by our distinguished editorial board members that focus on advances in understanding multicellular organisms’ growth, differentiation, and remodeling [...]
- Published
- 2021
26. Code of practice for medical autopsies : a minimum standard position paper for pathology departments performing medical (hospital) autopsies in adults
- Author
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Alfsen, G. Cecilie, Gulczyński, Jacek, Kholová, Ivana, Latten, Bart, Martinez, Javier, Metzger, Myriam, Michaud, Katarzyna, Pontinha, Carlos M., Rakislova, Natalia, Rotman, Samuel, Varga, Zsuzsanna, Wassilew, Katharina, Zinserling, Vsevolod, on behalf of Working group Autopsy Pathology, European Society of Pathology, Tampere University, Clinical Medicine, Department of Pathology, University of Zurich, Alfsen, G Cecilie, and Working group Autopsy Pathology, European Society of Pathology
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Adult ,Standards ,Pathologists ,610 Medicine & health ,Guideline ,Pathology and Forensic Medicine ,1307 Cell Biology ,10049 Institute of Pathology and Molecular Pathology ,Pathology ,1312 Molecular Biology ,Humans ,CHLC ANPAT ,Child ,Molecular Biology ,319 Forensic science and other medical sciences ,Cell Biology ,General Medicine ,Quality ,Turnaround time ,Hospitals ,2734 Pathology and Forensic Medicine ,Original Article ,Autopsy - Abstract
The medical autopsy (also called hospital or clinical autopsy) is a highly specialised medical procedure, which requires professional expertise and suitably equipped facilities. To ensure high standards of performance, the Working Group of Autopsy Pathology of the European Society of Pathology (ESP) suggests a code of practice as a minimum standard for centres performing medical autopsies. The proposed standards exclusively address autopsies in adults, and not forensic autopsies, perinatal/or paediatric examinations. Minimum standards for organisation, standard of premises, and staffing conditions, as well as minimum requirements for level of expertise of the postmortem performing specialists, documentation, and turnaround times of the medical procedure, are presented. Medical autopsies should be performed by specialists in pathology, or by trainees under the supervision of such specialists. To maintain the required level of expertise, autopsies should be performed regularly and in a number that ensures the maintenance of good practice of all participating physicians. A minimum number of autopsies per dedicated pathologist in a centre should be at least 50, or as an average, at least one autopsy per working week. Forensic autopsies, but not paediatric/perinatal autopsies may be included in this number. Turnaround time for final reports should not exceed 3 weeks (14 working days) for autopsies without fixation of brain/spinal cord or other time-consuming additional examinations, and 6 weeks (30 working days) for those with fixation of brain/spinal cord or additional examinations.
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- 2021
27. De Novo Assembly of Expressed Transcripts and Global Transcriptomic Analysis from Seedlings of the Paper Mulberry (Broussonetia kazinoki x Broussonetia papyifera).
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Xianjun, Peng, Linhong, Teng, Xiaoman, Wang, Yucheng, Wang, and Shihua, Shen
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GENE expression in plants ,PAPER mulberry ,SEEDLINGS ,PLANT species ,PLANT genetics ,GENETIC transcription in plants - Abstract
The paper mulberry is one of the multifunctional tree species in agroforestry systems and is also commonly utilized in traditional medicine in China and other Asian countries. However, little is known about its molecular genetics, which hinders research on and exploitation of this valuable resource. To discern the correlation between gene expression and the essential properties of the paper mulberry, we performed a transcriptomics analysis, assembling a total of 37,725 unigenes from 54,638,676 reads generated by RNA-seq. Among these, 22,692 unigenes showed greater than 60% similarity with genes from other species. The lengths of 13,566 annotated unigenes were longer than 1,000 bp. Functional clustering analysis with COG (Cluster of Orthologous Groups) revealed that 17,184 unigenes are primarily involved in transcription, translation, signal transduction, carbohydrate metabolism, secondary metabolism, and energy metabolism. GO (Gene Ontology) annotation suggests enrichment of genes encoding antioxidant activity, transporter activity, biosynthesis, metabolism and stress response, with a total of 30,659 unigenes falling in these categories. KEGG (Kyoto Encyclopedia of Genes and Genomes) metabolic pathway analysis showed that 7,199 unigenes are associated with 119 metabolic pathways. In addition to the basic metabolism, these genes are enriched for plant pathogen interaction, flavonoid metabolism and other secondary metabolic processes. Furthermore, differences in the transcriptomes of leaf, stem and root tissues were analyzed and 7,233 specifically expressed unigenes were identified. This global expression analysis provided novel insights about the molecular mechanisms of the biosynthesis of flavonoid, lignin and cellulose, as well as on the response to biotic and abiotic stresses including the remediation of contaminated soil by the paper mulberry. [ABSTRACT FROM AUTHOR]
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- 2014
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28. The boundary-spanning mechanisms of Nobel Prize winning papers
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Chaomei Chen and Yakub Sebastian
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FOS: Computer and information sciences ,Computer and Information Sciences ,Cell Physiology ,Entropy ,Autophagic Cell Death ,Science ,Boundary spanning ,Space (commercial competition) ,Bibliometrics ,Research and Analysis Methods ,Betweenness centrality ,Citation analysis ,Medicine and Health Sciences ,Centrality ,Digital Libraries (cs.DL) ,Sociology ,Multidisciplinary ,Cell Death ,Physics ,Publications ,Biology and Life Sciences ,Computer Science - Digital Libraries ,Cell Biology ,Research Assessment ,Nobel Prize ,Databases as Topic ,Cell Processes ,Citation Analysis ,Physical Sciences ,Thermodynamics ,Medicine ,Bibliographies as Topic ,Mathematical economics ,Network Analysis ,Research Article - Abstract
The breakthrough potentials of research papers can be explained by their boundary-spanning qualities. Here, for the first time, we apply the structural variation analysis (SVA) model and its affiliated metrics to investigate the extent to which such qualities characterize a group of Nobel Prize winning papers. We find that these papers share remarkable boundary-spanning traits, marked by exceptional abilities to connect disparate and topically-diverse clusters of research papers. Further, their publications exert structural variations on the scale that significantly alters the betweenness centrality distributions of existing intellectual space. Overall, SVA not only provides a set of leading indicators for describing future Nobel Prize winning papers, but also broadens our understanding of the similar prize-winning properties that may have been overlooked among other regular publications., 27 pages, 8 figures, 9 tables. Submitted to Frontiers in Research Metrics and Analytics
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- 2021
29. Nanos gigantium humeris insidentes: old papers informing new research into Toxoplasma gondii
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Lodoen, Melissa B., Smith, Nicholas C., Soldati-Favre, Dominique, Ferguson, David J.P., and van Dooren, Giel G.
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ddc:616 ,Innate immunity ,Cell biology ,Life cycle ,Electron microscopy ,Toxoplasma gondii - Abstract
Since Nicolle, Manceaux and Splendore first described Toxoplasma gondii as a parasite of rodents and rabbits in the early 20th century, a diverse and vigorous research community has been built around studying this fascinating intracellular parasite. In addition to its importance as a pathogen of humans, livestock and wildlife, modern researchers are attracted to T. gondii as a facile experimental system to study many aspects of evolutionary biology, cellular biology, host-microbe interactions, and host immunity. For new researchers entering the field, the extensive literature describing the biology of the parasite, and the interactions with its host, can be daunting. In this review, we examine four foundational studies that describe various aspects of T. gondii biology, presenting a ‘journal club'-style analysis of each. We have chosen a paper that established the beguiling life cycle of the parasite (Hutchison et al., 1971), a paper that described key features of its cellular biology that the parasite shares with related organisms (Gustafson et al., 1954), a paper that characterised the origin of the unique compartment in which the parasite resides within host cells (Jones and Hirsch, 1972), and a paper that established a key mechanism in the host immune response to parasite infection (Pfefferkorn, 1984). These interesting and far-reaching studies set the stage for subsequent research into numerous facets of parasite biology. As well as providing new researchers with an entry point into the literature surrounding the parasite, revisiting these studies can remind us of the roots of our discipline, how far we have come, and the new directions in which we might head.
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- 2021
30. A comprehensive examination of the lysine acetylation targets in paper mulberry based on proteomics analyses
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Ping Li, Chao Chen, and Yibo Dong
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Proteomics ,Chloroplasts ,Lysine ,Amino Acid Motifs ,Enzyme Metabolism ,Plant Science ,Biochemistry ,Serine ,Tandem Mass Spectrometry ,Nanotechnology ,Threonine ,Post-Translational Modification ,Amino Acids ,Photosynthesis ,Enzyme Chemistry ,Chromatography, High Pressure Liquid ,Protein Metabolism ,Multidisciplinary ,Chemistry ,Organic Compounds ,Plant Biochemistry ,Chemical Reactions ,Acetylation ,Physical Sciences ,Amino Acid Analysis ,Medicine ,Basic Amino Acids ,Cellular Structures and Organelles ,Cellular Types ,Research Article ,Plant Cell Biology ,Science ,Protein domain ,Research and Analysis Methods ,Protein Domains ,Plant Cells ,HSP70 Heat-Shock Proteins ,Secondary metabolism ,Molecular Biology Techniques ,Molecular Biology ,Histidine ,Phenylalanine Ammonia-Lyase ,Molecular Biology Assays and Analysis Techniques ,Organic Chemistry ,Chemical Compounds ,Biology and Life Sciences ,Proteins ,Cell Biology ,Gene Ontology ,Metabolism ,Enzymology ,Morus - Abstract
Rocky desertification is a bottleneck that reduces ecological and environmental security in karst areas. Paper mulberry, a unique deciduous tree, shows good performance in rocky desertification areas. Its resistance mechanisms are therefore of high interest. In this study, a lysine acetylation proteomics analysis of paper mulberry seedling leaves was conducted in combination with the purification of acetylated protein by high-precision nano LC-MS/MS. We identified a total of 7130 acetylation sites in 3179 proteins. Analysis of the modified sites showed a predominance of nine motifs. Six positively charged residues: lysine (K), arginine (R), and histidine (H), serine (S), threonine (T), and tyrosine (Y) occurred most frequently at the +1 position, phenylalanine (F) was both detected both upstream and downstream of the acetylated lysines; and the sequence logos showed a strong preference for lysine and arginine around acetylated lysines. Functional annotation revealed that the identified enzymes were mainly involved in translation, transcription, ribosomal structure and biological processes, showing that lysine acetylation can regulate various aspects of primary carbon and nitrogen metabolism and secondary metabolism. Acetylated proteins were enriched in the chloroplast, cytoplasm, and nucleus, and many stress response-related proteins were also discovered to be acetylated, including PAL, HSP70, and ERF. HSP70, an important protein involved in plant abiotic and disease stress responses, was identified in paper mulberry, although it is rarely found in woody plants. This may be further examined in research in other plants and could explain the good adaptation of paper mulberry to the karst environment. However, these hypotheses require further verification. Our data can provide a new starting point for the further analysis of the acetylation function in paper mulberry and other plants.
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- 2021
31. White paper on plasma for medicine and hygiene: Future in plasma health sciences
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Thomas von Woedtke, Pietro Favia, Sander Bekeschus, Eric Robert, University of Bari Aldo Moro (UNIBA), CNR Istituto di Nanotecnologia (NANOTEC), Consiglio Nazionale delle Ricerche [Roma] (CNR), Groupe de recherches sur l'énergétique des milieux ionisés (GREMI), and Université d'Orléans (UO)-Centre National de la Recherche Scientifique (CNRS)
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010302 applied physics ,Polymers and Plastics ,media_common.quotation_subject ,plasma parameters ,decontamination ,Condensed Matter Physics ,01 natural sciences ,3. Good health ,Human health ,White paper ,Hygiene ,[PHYS.PHYS.PHYS-PLASM-PH]Physics [physics]/Physics [physics]/Plasma Physics [physics.plasm-ph] ,Political science ,smart materials ,0103 physical sciences ,cell biology ,plasma oncology ,Engineering ethics ,[SDV.IB]Life Sciences [q-bio]/Bioengineering ,media_common ,Biomedical sciences - Abstract
International audience; Plasma Science and Technology offer their valuable contribution to human health since more than 50 years, after decades of experiences in the field of biomaterials; and more than a decade in using plasmas for therapeutic uses in medicine. Current knowledge as well as key challenges and opportunities for the human health have been intensely discussed during the Future in Plasma Science II (FIPS II) workshop in February 2016 in Greifswald, Germany. This contribution summarizes the major outcomes of the meeting and the current literature and consensus with an emphasis on major challenges in the fields of Plasma Science and Technology for improving human health.
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- 2018
32. Novel targets and future strategies for acute cardioprotection : Position Paper of the European Society of Cardiology Working Group on Cellular Biology of the Heart
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Fabrice Prunier, Cinzia Perrino, Joost P.G. Sluijter, Robert B. Jennings, David Garcia-Dorado, Rosalinda Madonna, Jonathan Leor, Linda W. van Laake, Derek M. Yellon, Michel Ovize, Kirsti Ytrehus, Jakob Vinten-Johansen, Derek J. Hausenloy, Sean M. Davidson, Felix B. Engel, James M. Downey, Gerd Heusch, Péter Ferdinandy, Hans Erik Bøtker, Rainer Schulz, Sandrine Lecour, Cardiovasculaire, métabolisme, diabétologie et nutrition (CarMeN), Institut National de la Recherche Agronomique (INRA)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Hospices Civils de Lyon (HCL)-Institut National de la Santé et de la Recherche Médicale (INSERM), Hospices Civils de Lyon (HCL), Hospices Civils de Lyon (HCL)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Institut National de la Recherche Agronomique (INRA), Hausenloy, Derek J, Garcia Dorado, David, Bøtker, Hans Erik, Davidson, Sean M, Downey, Jame, Engel, Felix B, Jennings, Robert, Lecour, Sandrine, Leor, Jonathan, Madonna, Rosalinda, Ovize, Michel, Perrino, Cinzia, Prunier, Fabrice, Schulz, Rainer, Sluijter, Joost P. G, Van Laake, Linda W, Vinten Johansen, Jakob, Yellon, Derek M, Ytrehus, Kirsti, Heusch, Gerd, and Ferdinandy, Péter
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0301 basic medicine ,Physiology ,[SDV]Life Sciences [q-bio] ,Medizin ,Myocardial Infarction ,ISCHEMIA-REPERFUSION INJURY ,Cardioprotection ,030204 cardiovascular system & hematology ,Ischaemia ,MITOCHONDRIAL ,0302 clinical medicine ,Risk Factors ,Myocardial infarction ,Coronary Artery Bypass ,Ischemic Postconditioning ,Ischemic Preconditioning ,Translational Medical Research ,ATRIAL-NATRIURETIC-PEPTIDE ,BYPASS GRAFT-SURGERY ,RANDOMIZED CONTROLLED-TRIAL ,3. Good health ,Cell biology ,LONG-TERM BENEFIT ,Treatment Outcome ,medicine.anatomical_structure ,Cardiology ,Cardiology and Cardiovascular Medicine ,Artery ,medicine.medical_specialty ,PERMEABILITY TRANSITION ,INDUCED VENTRICULAR-FIBRILLATION ,Ischemia ,PERCUTANEOUS CORONARY INTERVENTION ,Myocardial Reperfusion Injury ,03 medical and health sciences ,Internal medicine ,Physiology (medical) ,medicine ,Journal Article ,Animals ,Humans ,Myocardial ,Ischaemic conditioning ,Reperfusion ,Cardiovascular Agents ,Disease Models, Animal ,Heart Failure ,Ischemic Preconditioning, Myocardial ,Percutaneous Coronary Intervention ,Protective Factors ,ST Elevation Myocardial Infarction ,In patient ,PROTEIN-KINASE-C ,Animal ,business.industry ,ELEVATION MYOCARDIAL-INFARCTION ,medicine.disease ,030104 developmental biology ,Heart failure ,Disease Models ,Position paper ,business ,Reperfusion injury - Abstract
International audience; Ischaemic heart disease and the heart failure that often results, remain the leading causes of death and disability in Europe and worldwide. As such, in order to prevent heart failure and improve clinical outcomes in patients presenting with an acute ST-segment elevation myocardial infarction and patients undergoing coronary artery bypass graft surgery, novel therapies are required to protect the heart against the detrimental effects of acute ischaemia/reperfusion injury (IRI). During the last three decades, a wide variety of ischaemic conditioning strategies and pharmacological treatments have been tested in the clinic-however, their translation from experimental to clinical studies for improving patient outcomes has been both challenging and disappointing. Therefore, in this Position Paper of the European Society of Cardiology Working Group on Cellular Biology of the Heart, we critically analyse the current state of ischaemic conditioning in both the experimental and clinical settings, provide recommendations for improving its translation into the clinical setting, and highlight novel therapeutic targets and new treatment strategies for reducing acute myocardial IRI.
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- 2017
33. SciPy 1.0: fundamental algorithms for scientific computing in Python: 24 February 2020 : An amendment to this paper has been published and can be accessed via a link at the top of the paper
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Virtanen, P., Gommers, R., Oliphant, T.E., Haberland, M., Reddy, T., Cournapeau, D., Burovski, E., Peterson, P., Weckesser, W., Bright, J., Walt, S.J., Brett, M., Wilson, J., Millman, K.J., Mayorov, N., Nelson, A.R.J., Jones, E., Kern, R., Larson, E., Carey, C.J., Polat, I., Feng, Y., Moore, E.W., VanderPlas, J., Laxalde, D., Perktold, J., Cimrman, R., Henriksen, I., Quintero, E.A., Harris, C.R., Archibald, A.M., Ribeiro, A.H., Pedregosa, F., Mulbregt, P., Vijaykumar, A., Bardelli, A.P., Rothberg, A., Hilboll, A., Kloeckner, A., Scopatz, A., Lee, A., Rokem, A., Woods, C.N., Fulton, C., Masson, C., Häggström, C., Fitzgerald, C., Nicholson, D.A., Hagen, D.R., Pasechnik, D.V., Olivetti, E., Martin, E., Wieser, E., Lenders, F., Silva, Fabrice, Wilhelm, F., Young, G., Price, G.A., Ingold, G.-L., Allen, G.E., Lee, G.R., Audren, H., Probst, Irvin, Dietrich, J.P., Silterra, J., Webber, J.T., Slavič, J., Nothman, J., Buchner, J., Kulick, J., Schönberger, J.L., Miranda Cardoso, J.V., Reimer, J., Harrington, J., Rodríguez, J.L.C., Nunez-Iglesias, J., Kuczynski, J., Tritz, K., Thoma, M., Newville, M., Kümmerer, M., Bolingbroke, M., Tartre, M., Pak, M., Smith, N.J., Nowaczyk, N., Shebanov, N., Pavlyk, O., Brodtkorb, P.A., Lee, P., McGibbon, R.T., Feldbauer, R., Lewis, S., Tygier, S., Sievert, S., Vigna, S., Peterson, S., More, S., Pudlik, T., Oshima, T., Pingel, T.J., Robitaille, T.P., Spura, T., Jones, T.R., Cera, T., Leslie, T., Zito, T., Krauss, T., Upadhyay, U., Halchenko, Y.O., Vázquez-Baeza, Y., SciPy 1.0, Contributors, Low Temperature Laboratory, TKK Helsinki University of Technology (TKK), Centre Interdisciplinaire de Nanoscience de Marseille (CINaM), Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS), Laboratoire de Tribologie et Dynamique des Systèmes (LTDS), École Centrale de Lyon (ECL), Université de Lyon-Université de Lyon-École Nationale des Travaux Publics de l'État (ENTPE)-Ecole Nationale d'Ingénieurs de Saint Etienne-Centre National de la Recherche Scientifique (CNRS), SNECMA Villaroche [Moissy-Cramayel], Safran Group, New Technologies Research Centre [Plzeň] (NTC), University of West Bohemia [Plzeň ], Institute of Environmental Physics [Bremen] (IUP), University of Bremen, Istituto Nazionale di Ricerca Metrologica (INRiM), Laboratoire Chrono-environnement - CNRS - UBFC (UMR 6249) (LCE), Centre National de la Recherche Scientifique (CNRS)-Université de Franche-Comté (UFC), Université Bourgogne Franche-Comté [COMUE] (UBFC)-Université Bourgogne Franche-Comté [COMUE] (UBFC), Laboratoire de Mécanique et d'Acoustique [Marseille] (LMA ), Aix Marseille Université (AMU)-École Centrale de Marseille (ECM)-Centre National de la Recherche Scientifique (CNRS), Sons, Aix Marseille Université (AMU)-École Centrale de Marseille (ECM)-Centre National de la Recherche Scientifique (CNRS)-Aix Marseille Université (AMU)-École Centrale de Marseille (ECM)-Centre National de la Recherche Scientifique (CNRS), European Synchrotron Radiation Facility (ESRF), Lab-STICC_ENSTAB_CID_PRASYS, Laboratoire des sciences et techniques de l'information, de la communication et de la connaissance (Lab-STICC), École Nationale d'Ingénieurs de Brest (ENIB)-Université de Bretagne Sud (UBS)-Université de Brest (UBO)-École Nationale Supérieure de Techniques Avancées Bretagne (ENSTA Bretagne)-Institut Mines-Télécom [Paris] (IMT)-Centre National de la Recherche Scientifique (CNRS)-Université Bretagne Loire (UBL)-IMT Atlantique Bretagne-Pays de la Loire (IMT Atlantique), Institut Mines-Télécom [Paris] (IMT)-École Nationale d'Ingénieurs de Brest (ENIB)-Université de Bretagne Sud (UBS)-Université de Brest (UBO)-École Nationale Supérieure de Techniques Avancées Bretagne (ENSTA Bretagne)-Institut Mines-Télécom [Paris] (IMT)-Centre National de la Recherche Scientifique (CNRS)-Université Bretagne Loire (UBL)-IMT Atlantique Bretagne-Pays de la Loire (IMT Atlantique), Institut Mines-Télécom [Paris] (IMT), Max Planck Institute for Solar System Research (MPS), Max-Planck-Gesellschaft, University of Chicago, Consortium of Advanced Radiation Sciences, Advanced Photon Source, GSECARS, University of Chicago, Laboratoire de physique des gaz et des plasmas (LPGP), Université Paris-Sud - Paris 11 (UP11)-Centre National de la Recherche Scientifique (CNRS), The Open University [Milton Keynes] (OU), Nobeyama Radio Observatory, Gommers, Ralf [0000-0002-0300-3333], Haberland, Matt [0000-0003-4806-3601], Reddy, Tyler [0000-0003-2364-6157], van der Walt, Stéfan J. [0000-0001-9276-1891], Millman, K. Jarrod [0000-0002-5263-5070], Nelson, Andrew R. J. [0000-0002-4548-3558], Laxalde, Denis [0000-0002-5540-4825], Ribeiro, Antônio H. [0000-0003-3632-8529], van Mulbregt, Paul [0000-0002-2382-8308], Apollo - University of Cambridge Repository, van der Walt, Stéfan J [0000-0001-9276-1891], Millman, K Jarrod [0000-0002-5263-5070], Nelson, Andrew RJ [0000-0002-4548-3558], Ribeiro, Antônio H [0000-0003-3632-8529], Quansight LLC, California Polytechnic State University [San Luis Obispo] (CAL POLY), Los Alamos National Laboratory (LANL), AUTRES, National Research University Higher School of Economics [St. Petersburg], Tallinn Technical University, University of California [Berkeley] (UC Berkeley), University of California (UC), University of Birmingham [Birmingham], Skolkovo Innovation Center, Australian Nuclear Science and Technology Organisation [Australie] (ANSTO), Enthought Inc, University of Washington [Seattle], University of Massachusetts [Amherst] (UMass Amherst), University of Massachusetts System (UMASS), Bruker BioSpin Corporation, Université de Lyon-Université de Lyon-École Nationale des Travaux Publics de l'État (ENTPE)-Ecole Nationale d'Ingénieurs de Saint Etienne (ENISE)-Centre National de la Recherche Scientifique (CNRS), University of Texas at Austin [Austin], Astronomical Institute Anton Pannekoek (AI PANNEKOEK), University of Amsterdam [Amsterdam] (UvA), Universidade Federal de Minas Gerais [Belo Horizonte] (UFMG), Google LLC, Laboratoire Chrono-environnement (UMR 6249) (LCE), École Nationale d'Ingénieurs de Brest (ENIB)-Université de Bretagne Sud (UBS)-Université de Brest (UBO)-École Nationale Supérieure de Techniques Avancées Bretagne (ENSTA Bretagne)-Institut Mines-Télécom [Paris] (IMT)-Centre National de la Recherche Scientifique (CNRS)-Université Bretagne Loire (UBL)-IMT Atlantique (IMT Atlantique), Institut Mines-Télécom [Paris] (IMT)-École Nationale d'Ingénieurs de Brest (ENIB)-Université de Bretagne Sud (UBS)-Université de Brest (UBO)-École Nationale Supérieure de Techniques Avancées Bretagne (ENSTA Bretagne)-Institut Mines-Télécom [Paris] (IMT)-Centre National de la Recherche Scientifique (CNRS)-Université Bretagne Loire (UBL)-IMT Atlantique (IMT Atlantique), and Max-Planck-Institut für Sonnensystemforschung = Max Planck Institute for Solar System Research (MPS)
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FOS: Computer and information sciences ,Computer science ,01 natural sciences ,Biochemistry ,Computer Science - Software Engineering ,631/45/56 ,Data Structures and Algorithms (cs.DS) ,010303 astronomy & astrophysics ,computer.programming_language ,0303 health sciences ,Signal processing ,Signal Processing, Computer-Assisted ,Computational Physics (physics.comp-ph) ,ddc ,Linear algebra ,Perspective ,Minification ,Physics - Computational Physics ,Algorithm ,Algorithms ,Biotechnology ,De facto standard ,FOS: Physical sciences ,Image processing ,History, 21st Century ,Models, Biological ,706/703/559 ,Python (Computer program language) ,Computational science ,03 medical and health sciences ,Computer Science - Data Structures and Algorithms ,0103 physical sciences ,Computer Simulation ,[INFO]Computer Science [cs] ,ddc:530 ,Cluster analysis ,Molecular Biology ,Scientific computing ,030304 developmental biology ,Sparse matrix ,software ,Computational Biology ,Cell Biology ,Python (programming language) ,History, 20th Century ,[INFO.INFO-NA]Computer Science [cs]/Numerical Analysis [cs.NA] ,Software Engineering (cs.SE) ,Nonlinear Dynamics ,Linear Models ,Computer Science - Mathematical Software ,Programming Languages ,631/114 ,computer ,Mathematical Software (cs.MS) ,Python - Abstract
SciPy is an open source scientific computing library for the Python programming language. SciPy 1.0 was released in late 2017, about 16 years after the original version 0.1 release. SciPy has become a de facto standard for leveraging scientific algorithms in the Python programming language, with more than 600 unique code contributors, thousands of dependent packages, over 100,000 dependent repositories, and millions of downloads per year. This includes usage of SciPy in almost half of all machine learning projects on GitHub, and usage by high profile projects including LIGO gravitational wave analysis and creation of the first-ever image of a black hole (M87). The library includes functionality spanning clustering, Fourier transforms, integration, interpolation, file I/O, linear algebra, image processing, orthogonal distance regression, minimization algorithms, signal processing, sparse matrix handling, computational geometry, and statistics. In this work, we provide an overview of the capabilities and development practices of the SciPy library and highlight some recent technical developments., Comment: Article source data is available here: https://github.com/scipy/scipy-articles
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- 2020
34. Reply to a comment paper on the published paper by canta, a. Et al: 'calmangafodipir reduces sensory alterations and prevents intraepidermal nerve fibers loss in a mouse model of oxaliplatin induced peripheral neurotoxicity'—antioxidants 2020, 9, 594
- Author
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Annalisa Canta, Alessia Chiorazzi, Valentina Alda Carozzi, Virginia Rodriguez-Menendez, Norberto Oggioni, Laura Monza, Cristina Meregalli, Jacques Näsström, Paola Marmiroli, Eleonora Pozzi, Guido Cavaletti, G Fumagalli, Canta, A, Chiorazzi, A, Pozzi, E, Fumagalli, G, Monza, L, Meregalli, C, Carozzi, V, Rodriguez-Menendez, V, Oggioni, N, Nasstrom, J, Marmiroli, P, and Cavaletti, G
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0301 basic medicine ,Physiology ,business.industry ,Clinical Biochemistry ,Neurotoxicity ,Sensory system ,Nerve fiber ,Cell Biology ,medicine.disease ,Biochemistry ,Oxaliplatin ,Peripheral ,03 medical and health sciences ,030104 developmental biology ,0302 clinical medicine ,Calmangafodipir ,medicine.anatomical_structure ,medicine ,neuropathy, calmangafodipir ,business ,Molecular Biology ,Neuroscience ,030217 neurology & neurosurgery ,medicine.drug - Abstract
The comments sent by Stehr, Lundstom and Karlsson with reference to our article “Calmangafodipir reduces sensory alterations and prevents intraepidermal nerve fiber loss in a mouse model of oxaliplatin-induced peripheral neurotoxicity“ are very interesting, since they suggest possible mechanisms of action of the compound, which might contribute to its protective action [...]
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- 2020
35. Phytochemical Characterization of Dillenia indica L. Bark by Paper Spray Ionization-Mass Spectrometry and Evaluation of Its Antioxidant Potential Against t-BHP-Induced Oxidative Stress in RAW 264.7 Cells
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Sunghwan Kim, Syful Islam, Abdul Motin, Hee-Jeong Choi, Sang-Han Lee, Arif Ahmed, and Badrul Alam
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0301 basic medicine ,Antioxidant ,antioxidant ,Physiology ,medicine.medical_treatment ,Clinical Biochemistry ,Oxidative phosphorylation ,Dillenia ,medicine.disease_cause ,Biochemistry ,complex mixtures ,03 medical and health sciences ,0302 clinical medicine ,Dillenia indica ,nuclear factor erythroid 2-related factor 2 (Nrf2) ,parasitic diseases ,medicine ,RAW 264.7 cells ,Molecular Biology ,RAW 264.7 Cells ,chemistry.chemical_classification ,Reactive oxygen species ,biology ,Chemistry ,lcsh:RM1-950 ,food and beverages ,Cell Biology ,biology.organism_classification ,lcsh:Therapeutics. Pharmacology ,030104 developmental biology ,Phytochemical ,030220 oncology & carcinogenesis ,visual_art ,visual_art.visual_art_medium ,Bark ,heme oxygenase 1 (HO-1) ,Oxidative stress - Abstract
The antioxidant effects of the ethyl acetate fraction of Dillenia indica bark (DIBEt) and the underlying mechanisms were investigated in tert-butyl hydroperoxide (t-BHP)-stimulated oxidative stress in RAW 264.7 cells. Paper spray ionization-mass spectroscopy with positive-ion mode tentatively revealed 27 secondary metabolites in D. indica bark extract, predominant among them were alkaloids, phenolic acids, and flavonoids. A new triterpenoid (nutriacholic acid) was confirmed in DIBEt for the first time. DIBEt had strong free radical-scavenging capabilities and was also able to reduce t-BHP-induced cellular reactive oxygen species (ROS) generation in RAW 264.7 cells. DIBEt was found to prevent oxidative stress by boosting the levels of heme oxygenase-1 (HO-1) through the up-regulation of nuclear factor erythroid 2-related factor 2 (Nrf2) via the regulation of extracellular signal-regulated kinase (ERK) phosphorylation in RAW 264.7 cells. These results support the potential of DIBEt for defense against oxidative stress-stimulated diseases.
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- 2020
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36. The Priority position paper: protecting Europe's food chain from prions
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Tiziana Sonati, Krister Kristensson, Mario Nuvolone, Ludwig E. Hoelzle, Jesús R. Requena, Neil A. Mabbott, Giuseppe Legname, Albert Taraboulos, Juan María Torres, José Antonio del Río, Chiara Zurzolo, Carsten Korth, Alex Raeber, Olivier Andreoletti, Paul Laeven, Byron Calgua, Juan Carlos Espinosa, Andreas Müller-Schiffmann, Matthias Schmitz, Zheng-Xin Yan, Peter J. Peters, Rosina Girones, Inga Zerr, Adriano Aguzzi, Franziska Kuhn, Reinhard Böhm, S. Godsave, Eva Mitrova, Michael R. Knittler, Lothar Stitz, Klaus Roth, Karen L. Brown, Sylvie L. Benestad, Marion Simmons, Björn Schroeder, Patricia Aguilar-Calvo, CIMUS Biomedical Research Institute [Santiago de Compostela], Karolinska Institutet [Stockholm], Heinrich Heine Universität Düsseldorf = Heinrich Heine University [Düsseldorf], Trafic membranaire et Pathogénèse, Institut Pasteur [Paris], Animal and Plant Health Agency [Weybridge] (APHA), Centro de Investigacion en Sanidad Animal (INIA-CISA), Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria = National Institute for Agricultural and Food Research and Technology (INIA), Universität Zürich [Zürich] = University of Zurich (UZH), Interactions hôtes-agents pathogènes [Toulouse] (IHAP), Institut National de la Recherche Agronomique (INRA)-Ecole Nationale Vétérinaire de Toulouse (ENVT), Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées, Norwegian Veterinary Institute [Oslo], University of Hohenheim, University of Edinburgh, University of Barcelona, Institute for Bioengineering of Catalonia [Barcelona] (IBEC), Netherlands Cancer Institute (NKI), Antoni van Leeuwenhoek Hospital, Friedrich-Loeffler-Institut (FLI), Prionics [Zurich], Laboratory of Prion Biology, Scuola Internazionale Superiore di Studi Avanzati / International School for Advanced Studies (SISSA / ISAS), Maastricht University [Maastricht], Slovak Medical University of Bratislava (SMU), The Maastricht Multimodal Molecular Imaging Institute, SMP GmbH [Tübingen], Universitätmedizin Göttingen, The Hebrew University of Jerusalem (HUJ), DZNE Göttingen, Funding was provided by the EC through FP7 222887 'Priority.', European Project: 222887,EC:FP7:KBBE,FP7-KBBE-2007-2A,PRIORITY(2009), Requena, J. R., Kristensson, K., Korth, C., Zurzolo, C., Simmons, M., Aguilar-Calvo, P., Aguzzi, A., Andreoletti, O., Benestad, S. L., Bohm, R., Brown, K., Calgua, B., del Rio, J. A., Espinosa, J. C., Girones, R., Godsave, S., Hoelzle, L. E., Knittler, M. R., Kuhn, F., Legname, G., Laeven, P., Mabbott, N., Mitrova, E., Muller-Schiffmann, A., Nuvolone, M., Peters, P. J., Raeber, A., Roth, K., Schmitz, M., Schroeder, B., Sonati, T., Stitz, L., Taraboulos, A., Torres, J. M., Yan, Z. -X., Zerr, I., RS: M4I - Nanoscopy, Institute of Nanoscopy (IoN), Universidade de Santiago de Compostela [Spain] (USC ), Institut Pasteur [Paris] (IP), Université de Toulouse (UT)-Université de Toulouse (UT)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université de Toulouse (UT)-Université de Toulouse (UT), Heinrich-Heine-Universität Düsseldorf [Düsseldorf], CISA, Instituto Nacional de Investigaciones Agronomicas, University of Zürich [Zürich] (UZH), Norwegian Veterinary Institute, and Medical University of Slovakia [Bratislava]
- Subjects
0301 basic medicine ,Scrapie ,prevention & control [Encephalopathy, Bovine Spongiform] ,Settore BIO/09 - Fisiologia ,Biochemistry ,Prion Diseases ,prevention & control [Prion Diseases] ,BSE ,Early Diagnosi ,Applied research ,media_common ,2. Zero hunger ,epidemiology [Scrapie] ,epidemiology [Europe] ,atypical BSE ,atypical scrapie ,CJD ,prion ,scrapie ,diagnosis [Scrapie] ,3. Good health ,Encephalopathy, Bovine Spongiform ,Europe ,Infectious Diseases ,Perspective ,Small and medium-sized enterprises ,Risk assessment ,Human ,diagnosis [Encephalopathy, Bovine Spongiform] ,epidemiology [Prion Diseases] ,medicine.medical_specialty ,Food Chain ,Prions ,Bovine spongiform encephalopathy ,transmission [Scrapie] ,[SDV.BC]Life Sciences [q-bio]/Cellular Biology ,Biology ,03 medical and health sciences ,Cellular and Molecular Neuroscience ,adverse effects [Animal Feed] ,analysis [Prions] ,isolation & purification [Prions] ,ddc:570 ,transmission [Encephalopathy, Bovine Spongiform] ,Development economics ,medicine ,media_common.cataloged_instance ,Animals ,Humans ,European union ,pathogenicity [Prions] ,Animal ,Public health ,Cell Biology ,medicine.disease ,prevention & control [Scrapie] ,Virology ,Animal Feed ,diagnosis [Prion Diseases] ,Prion Disease ,030104 developmental biology ,Early Diagnosis ,transmission [Prion Diseases] ,metabolism [Prions] ,Position paper ,Cattle ,epidemiology [Encephalopathy, Bovine Spongiform] - Abstract
Bovine spongiform encephalopathy (BSE) created a global European crisis in the 1980s and 90s, with very serious health and economic implications. Classical BSE now appears to be under control, to a great extent as a result of a global research effort that identified the sources of prions in meat and bone meal (MBM) and developed new animal-testing tools that guided policy. Priority (www.prionpriority.eu) was a European Union (EU) Framework Program 7 (FP7)-funded project through which 21 European research institutions and small and medium enterprises (SMEs) joined efforts between 2009 and 2014, to conduct coordinated basic and applied research on prions and prion diseases. At the end of the project, the Priority consortium drafted a position paper (www.prionpriority.eu/Priority position paper) with its main conclusions. In the present opinion paper, we summarize these conclusions. With respect to the issue of re-introducing ruminant protein into the feed-chain, our opinion is that sustaining an absolute ban on feeding ruminant protein to ruminants is essential. In particular, the spread and impact of non-classical forms of scrapie and BSE in ruminants is not fully understood and the risks cannot be estimated. Atypical prion agents will probably continue to represent the dominant form of prion diseases in the near future in Europe. Atypical L-type BSE has clear zoonotic potential, as demonstrated in experimental models. Similarly, there are now data indicating that the atypical scrapie agent can cross various species barriers. More epidemiological data from large cohorts are necessary to reach any conclusion on the impact of its transmissibility on public health. Re-evaluations of safety precautions may become necessary depending on the outcome of these studies. Intensified searching for molecular determinants of the species barrier is recommended, since this barrier is key for important policy areas and risk assessment. Understanding the structural basis for strains and the basis for adaptation of a strain to a new host will require continued fundamental research, also needed to understand mechanisms of prion transmission, replication and how they cause nervous system dysfunction and death. Early detection of prion infection, ideally at a preclinical stage, also remains crucial for development of effective treatment strategies. © 2016 The Author(s). Published with license by Taylor & Francis Group, LLC.
- Published
- 2016
37. Biomineralization Guided by Paper Templates
- Author
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Ratmir Derda, Estrella Hong, George M. Whitesides, Gulden Camci-Unal, Anna Laromaine, Wyss Institute of Biologically Inspired Engineering, University of Texas, and National Science Foundation (US)
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Calcium Phosphates ,Paper ,Scaffold ,Cell biology ,Materials science ,Nanotechnology ,02 engineering and technology ,010402 general chemistry ,01 natural sciences ,Article ,Cell Line ,Mice ,Cell growth ,Calcification, Physiologic ,Tissue scaffolds ,Tissue engineering ,Animals ,Porosity ,Cell Proliferation ,Osteoblasts ,Multidisciplinary ,Tissue Engineering ,Tissue Scaffolds ,021001 nanoscience & nanotechnology ,3d shapes ,0104 chemical sciences ,Template ,0210 nano-technology ,Biomineralization - Abstract
This work demonstrates the fabrication of partially mineralized scaffolds fabricated in 3D shapes using paper by folding, and by supporting deposition of calcium phosphate by osteoblasts cultured in these scaffolds. This process generates centimeter-scale free-standing structures composed of paper supporting regions of calcium phosphate deposited by osteoblasts. This work is the first demonstration that paper can be used as a scaffold to induce template-guided mineralization by osteoblasts. Because paper has a porous structure, it allows transport of O2 and nutrients across its entire thickness. Paper supports a uniform distribution of cells upon seeding in hydrogel matrices, and allows growth, remodelling, and proliferation of cells. Scaffolds made of paper make it possible to construct 3D tissue models easily by tuning material properties such as thickness, porosity, and density of chemical functional groups. Paper offers a new approach to study mechanisms of biomineralization, and perhaps ultimately new techniques to guide or accelerate the repair of bone., This work was funded by the Wyss Institute of Biologically Inspired Engineering. Early work on this project was funded by a sub-award from the University of Texas Health Science Center at Houston, under DARPA grant # W911NF-09-1-0044. The project was performed in part at the Center for Nanoscale Systems (CNS), a member of the National Nanotechnology Infrastructure Network (NNIN), which is supported by the National Science Foundation under NSF award no. ECS-0335765. CNS is part of Harvard University. A patent application for this work has been filed but not yet published.
- Published
- 2016
38. Graphene-based papers as substrates for cell growth: Characterisation and impact on mammalian cells
- Author
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Dhifaf A. Jasim, Irina Barbolina, Cyrill Bussy, Neus Lozano, Artur Filipe Rodrigues, Kostas Kostarelos, and Kostya S. Novoselov
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Cell biology ,Materials science ,Oxide ,Graphite oxide ,02 engineering and technology ,010402 general chemistry ,01 natural sciences ,law.invention ,chemistry.chemical_compound ,Tissue engineering ,National Graphene Institute ,law ,Materials Chemistry ,Cell adhesion ,2D ,Films ,Membranes ,Substrates ,Graphene ,Cell growth ,021001 nanoscience & nanotechnology ,0104 chemical sciences ,Surfaces, Coatings and Films ,Electronic, Optical and Magnetic Materials ,Membrane ,Nanomedicine ,chemistry ,Chemical engineering ,Cell culture ,ResearchInstitutes_Networks_Beacons/national_graphene_institute ,Ceramics and Composites ,0210 nano-technology - Abstract
Graphene based material (GBM) substrates are promising candidates for tissue engineering and as cell scaffolds owing to their outstanding properties that favour cell adhesion and growth. In this study, we report the fabrication and use of different oxidised graphene-based ‘papers’ as substrates for cell culture, using starting materials of different thickness and lateral dimensions. Graphite oxide (GTO) consisted of thicker sheets than the thinner large graphene oxide (l-GO) and small graphene oxide (s-GO) sheets. The ‘papers’ were prepared by vacuum filtration of the material suspensions and characterised by an array of experimental techniques. The substrates were then evaluated for cellular adhesion and proliferation with two epithelial cell lines that differ in their morphologies, the human lung cell culture (A549) model and the human neural cell culture (SH-SY5Y) model using microscopic analysis. Release of lactate dehydrogenase (LDH) in cell supernatants was measured to assess any cytotoxic responses. Our results revealed that the GO papers had similar physicochemical properties but differing topographies. The papers supported cell growth and no cytotoxicity was observed. These results suggest that substrates based on graphite and graphene oxide papers are suitable biocompatible cellular supports for anchorage-dependent cell growth and can be further explored for tissue engineering, regenerative medicine, substrates for cell growth and bionic applications.
- Published
- 2018
39. Obstacles and opportunities in the functional analysis of extracellular vesicle RNA - an ISEV position paper
- Author
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Mateescu, B., Kowal, E., van Balkom, B., Bartel, S., Bhattacharyya, S., Buzá, E., Buck, A., de Candia, P., Chow, F., Das, S., Driedonks, T., Fernández-Messina, L., Haderk, F., Hil, L, A., Jones, J., Van Keuren-Jensen, K., Lai, C., Lässer, C., Liegro, D., I, Lunavat, T., Lorenowicz, M., Maas, S., Mäger, I., Mittelbrunn, M., Momma, S., Mukherjee, K., Nawaz, M., Pegtel, D., Pfaffl, M., Schiffelers, R., Tahara, H., Théry, C., Tosar, J., Wauben, M., Witwer, K., Nolte-'t Hoen, E., Mateescu, B, Kowal, EJ, van Balkom, BW, Bartel, S, Bhattacharyya, SN, Buzá, EI, Buck, AH, de Candia, P, Chow, FW, Das, S, Driedonks, TA, Fernández-Messina, L, Haderk, F, Hil,l AF, Jones, JC, Van Keuren-Jensen, KR, Lai, CP, Lässer, C, Di Liegro, I, Lunavat, TR, Lorenowicz, MJ, Maas, S, Mäger,I, Mittelbrunn, M, Momma, S, Mukherjee, K, Nawaz, M, Pegtel, DM, Pfaffl, MW, Schiffelers, RM, Tahara, H, Théry, C, Tosar, JP, Wauben, MH, Witwer, KW, Nolte-'t Hoen, EN., Mateescu, B., Kowal, E. J. K., van Balkom, B. W. M., Bartel, S., Bhattacharyya, S. N., Buzas, E. I., Buck, A. H., de Candia, P., Chow, F. W. N., Das, S., Driedonks, T. A. P., Fernandez-Messina, L., Haderk, F., Hill, A. F., Jones, J. C., Van Keuren-Jensen, K. R., Lai, C. P., Lasser, C., di Liegro, I., Lunavat, T. R., Lorenowicz, M. J., Maas, S. L. N., Mager, I., Mittelbrunn, M., Momma, S., Mukherjee, K., Nawaz, M., Pegtel, D. M., Pfaffl, M. W., Schiffelers, R. M., Tahara, H., Thery, C., Tosar, J. P., Wauben, M. H. M., Witwer, K. W., Nolte-'t Hoen, E. N. M., dB&C I&I, LS Celbiologie-Algemeen, CCA - Imaging and biomarkers, Amsterdam Neuroscience - Cellular & Molecular Mechanisms, and Pathology
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0301 basic medicine ,Histology ,media_common.quotation_subject ,mRNA ,non-coding RNA ,exosomes ,Biology ,Exosomes ,Article ,03 medical and health sciences ,Quantification ,Settore BIO/10 - Biochimica ,Journal Article ,MRNA ,exosome ,Original Research Article ,ddc:610 ,Function ,lcsh:QH573-671 ,Function (engineering) ,Non-coding RNA ,media_common ,function ,lcsh:Cytology ,Sorting ,RNA ,Extracellular vesicle ,Cell Biology ,Extracellular vesicles ,Data science ,RNA binding protein ,quantification ,RNA binding proteins ,sorting ,Cell biology ,Variety (cybernetics) ,030104 developmental biology ,Signalling ,Position paper ,Functional analysis (psychology) - Abstract
The release of RNA-containing extracellular vesicles (EV) into the extracellular milieu has been demonstrated in a multitude of different in vitro cell systems and in a variety of body fluids. RNA-containing EV are in the limelight for their capacity to communicate genetically encoded messages to other cells, their suitability as candidate biomarkers for diseases, and their use as therapeutic agents. Although EV-RNA has attracted enormous interest from basic researchers, clinicians, and industry, we currently have limited knowledge on which mechanisms drive and regulate RNA incorporation into EV and on how RNA-encoded messages affect signalling processes in EV-targeted cells. Moreover, EV-RNA research faces various technical challenges, such as standardisation of EV isolation methods, optimisation of methodologies to isolate and characterise minute quantities of RNA found in EV, and development of approaches to demonstrate functional transfer of EV-RNA in vivo. These topics were discussed at the 2015 EV-RNA workshop of the International Society for Extracellular Vesicles. This position paper was written by the participants of the workshop not only to give an overview of the current state of knowledge in the field, but also to clarify that our incomplete knowledge – of the nature of EV(-RNA)s and of how to effectively and reliably study them – currently prohibits the implementation of gold standards in EV-RNA research. In addition, this paper creates awareness of possibilities and limitations of currently used strategies to investigate EV-RNA and calls for caution in interpretation of the obtained data., Journal of Extracellular Vesicles, 6 (1), ISSN:2001-3078
- Published
- 2017
40. ESC Working Group Cellular Biology of the Heart: Position Paper: improving the preclinical assessment of novel cardioprotective therapies
- Author
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Derek M. Yellon, Michel Ovize, Péter Ferdinandy, Derek J. Hausenloy, Rosalinda Madonna, Linda W. van Laake, Felix B. Engel, Hans Erik Bøtker, David Garcia-Dorado, Rainer Schulz, Marisol Ruiz-Meana, Gerd Heusch, Gianluigi Condorelli, Sandrine Lecour, Sean M. Davidson, Joost P.G. Sluijter, Cardiovasculaire, métabolisme, diabétologie et nutrition (CarMeN), Hospices Civils de Lyon (HCL)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université de Lyon-Institut National des Sciences Appliquées (INSA)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Institut National de la Recherche Agronomique (INRA), Institut National de la Recherche Agronomique (INRA)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National des Sciences Appliquées de Lyon (INSA Lyon), and Université de Lyon-Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Hospices Civils de Lyon (HCL)-Institut National de la Santé et de la Recherche Médicale (INSERM)
- Subjects
Myocardial ischemia ,Physiology ,[SDV]Life Sciences [q-bio] ,Treatment outcome ,Medizin ,Myocardial Ischemia ,Heart position ,Cardioprotection ,030204 cardiovascular system & hematology ,Ischaemia ,03 medical and health sciences ,0302 clinical medicine ,Medizinische Fakultät ,Physiology (medical) ,medicine ,Animals ,Myocardial infarction ,ddc:610 ,Translational Medical Research ,030304 developmental biology ,Cause of death ,0303 health sciences ,business.industry ,Animal ,Animal models ,Reperfusion ,Disease Models, Animal ,Evaluation Studies as Topic ,Experimental Animal Models ,medicine.disease ,3. Good health ,Cell biology ,Disease Models ,Topical Reviews ,Position paper ,Ischaemic heart disease ,Cardiology and Cardiovascular Medicine ,business - Abstract
International audience; Ischaemic heart disease (IHD) remains the leading cause of death and disability worldwide. As a result, novel therapies are still needed to protect the heart from the detrimental effects of acute ischaemia-reperfusion injury, in order to improve clinical outcomes in IHD patients. In this regard, although a large number of novel cardioprotective therapies discovered in the research laboratory have been investigated in the clinical setting, only a few of these have been demonstrated to improve clinical outcomes. One potential reason for this lack of success may have been the failure to thoroughly assess the cardioprotective efficacy of these novel therapies in suitably designed preclinical experimental animal models. Therefore, the aim of this Position Paper by the European Society of Cardiology Working Group Cellular Biology of the Heart is to provide recommendations for improving the preclinical assessment of novel cardioprotective therapies discovered in the research laboratory, with the aim of increasing the likelihood of success in translating these new treatments into improved clinical outcomes.
- Published
- 2014
41. Reviewing papers as you would like your papers to be reviewed
- Author
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Buzz Baum
- Subjects
Publishing ,0303 health sciences ,business.industry ,Cell Biology ,Biology ,03 medical and health sciences ,0302 clinical medicine ,Perspective ,Humans ,Engineering ethics ,business ,Molecular Biology ,Publication ,030217 neurology & neurosurgery ,030304 developmental biology - Abstract
Peer review can seem like a barrier we have to scale in order to publish. In this Perspective, we ask what would happen if, instead, the focus of peer review was to help everyone in the field improve the quality of their papers.
- Published
- 2019
42. On zombie papers
- Author
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Enrico M. Bucci
- Subjects
Cancer Research ,Cellular and Molecular Neuroscience ,lcsh:Cytology ,Immunology ,Zombie ,Comment ,MEDLINE ,Library science ,Cell Biology ,lcsh:QH573-671 ,Bibliometrics ,Biology ,Scientific misconduct - Published
- 2019
43. ISEV position paper: extracellular vesicle RNA analysis and bioinformatics
- Author
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Stefano Pluchino, Lorraine O'Driscoll, D. Michiel Pegtel, Tommaso Leonardi, Andrew F. Hill, Dmitry Ter-Ovanesyan, Esther N. M. Nolte-‘t Hoen, Ulrike Lambertz, Pathology, and CCA - Oncogenesis
- Subjects
Histology ,Biology ,Bioinformatics ,Extracellular vesicles ,Deep sequencing ,deep sequencing ,evRNA ,RNA ,bioinformatics ,03 medical and health sciences ,0302 clinical medicine ,RNA analysis ,Extracellular ,lcsh:QH573-671 ,030304 developmental biology ,0303 health sciences ,lcsh:Cytology ,Vesicle ,Cell Biology ,Extracellular vesicle ,Microvesicles ,030220 oncology & carcinogenesis ,Position Paper ,extracellular vesicles - Abstract
Extracellular vesicles (EVs) are the collective term for the various vesicles that are released by cells into the extracellular space. Such vesicles include exosomes and microvesicles, which vary by their size and/or protein and genetic cargo. With the discovery that EVs contain genetic material in the form of RNA (evRNA) has come the increased interest in these vesicles for their potential use as sources of disease biomarkers and potential therapeutic agents. Rapid developments in the availability of deep sequencing technologies have enabled the study of EV-related RNA in detail. In October 2012, the International Society for Extracellular Vesicles (ISEV) held a workshop on “evRNA analysis and bioinformatics.” Here, we report the conclusions of one of the roundtable discussions where we discussed evRNA analysis technologies and provide some guidelines to researchers in the field to consider when performing such analysis.Keywords: extracellular vesicles; deep sequencing; evRNA; RNA; bioinformatics(Published: 23 December 2013)Citation: Journal of Extracellular Vesicles 2013, 2: 22859 - http://dx.doi.org/10.3402/jev.v2i0.22859
- Published
- 2013
44. How much is my paper worth?
- Author
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Jonathan Chernoff
- Subjects
Publishing ,Communication ,Research Support as Topic ,Science ,Perspective ,Publications ,MEDLINE ,Cell Biology ,Biology ,Journal Impact Factor ,Molecular Biology ,Data science - Abstract
For scientific research to have an impact, its findings need to be communicated. Usually, such communications take the form of published papers in a journal. Given that most papers are rarely cited, yet consume a great deal of a scientist’s time, treasure, and talent, the value of scientific publication as an enterprise merits consideration. What is a paper really worth? In this Perspective, I consider three potential values: career, science, and society.
- Published
- 2019
45. Oral Free Paper Sessions
- Author
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Olteanu Emilian, Przemyslaw Przewratil, Yulia Zhuravleva, Yulia Dergunova, Katarzyna Taran, Sandra Zekic Tomas, Ioana Mihai, Sameh Abou-Beih, Józef Kobos, Pavel G Malkov, Marcos Antonio Lima, Nina Oleynikova, and Olga Kharlova
- Subjects
Physics ,Abstracts ,Optics ,business.industry ,Second-harmonic generation ,Cell Biology ,General Medicine ,business ,Molecular Biology ,Signal ,Pathology and Forensic Medicine - Published
- 2016
46. Paper-supported 3D cell culture for tissue-based bioassays
- Author
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Tadanori Mammoto, Sindy K. Y. Tang, Ratmir Derda, Anna Laromaine, Donald E. Ingber, Akiko Mammoto, and George M. Whitesides
- Subjects
Paper ,Cell signaling ,Cell Survival ,Cell ,Cell Culture Techniques ,Cell Separation ,Biology ,Permeability ,Cell Line ,Extracellular matrix ,3D cell culture ,Mice ,In vivo ,medicine ,Animals ,Humans ,Multidisciplinary ,Hydrogels ,Biological Sciences ,In vitro ,Cell biology ,Oxygen ,medicine.anatomical_structure ,Gene Expression Regulation ,Cell culture ,Self-healing hydrogels ,Biological Assay - Abstract
Fundamental investigations of human biology, and the development of therapeutics, commonly rely on 2D cell-culture systems that do not accurately recapitulate the structure, function, or physiology of living tissues. Systems for 3D cultures exist but do not replicate the spatial distributions of oxygen, metabolites, and signaling molecules found in tissues. Microfabrication can create architecturally complex scaffolds for 3D cell cultures that circumvent some of these limitations; unfortunately, these approaches require instrumentation not commonly available in biology laboratories. Here we report that stacking and destacking layers of paper impregnated with suspensions of cells in extracellular matrix hydrogel makes it possible to control oxygen and nutrient gradients in 3D and to analyze molecular and genetic responses. Stacking assembles the “tissue”, whereas destacking disassembles it, and allows its analysis. Breast cancer cells cultured within stacks of layered paper recapitulate behaviors observed both in 3D tumor spheroids in vitro and in tumors in vivo: Proliferating cells in the stacks localize in an outer layer a few hundreds of microns thick, and growth-arrested, apoptotic, and necrotic cells concentrate in the hypoxic core where hypoxia-sensitive genes are overexpressed. Altering gas permeability at the ends of stacks controlled the gradient in the concentration of the O 2 and was sufficient by itself to determine the distribution of viable cells in 3D. Cell cultures in stacked, paper-supported gels offer a uniquely flexible approach to study cell responses to 3D molecular gradients and to mimic tissue- and organ-level functions.
- Published
- 2009
47. Is there still room for novelty, in histochemical papers?
- Author
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Carlo Pellicciari
- Subjects
0301 basic medicine ,Pathology ,medicine.medical_specialty ,Histology ,Biophysics ,High resolution ,Biology ,03 medical and health sciences ,0302 clinical medicine ,medicine ,Animals ,Humans ,Histochemistry ,lcsh:QH301-705.5 ,Views and Comments ,Structural organization ,Histocytochemistry ,Novelty ,Cell Biology ,Data science ,histochemical methods ,030104 developmental biology ,lcsh:Biology (General) ,biomedical research ,030220 oncology & carcinogenesis ,Autofluorescence spectroscopy ,Periodicals as Topic ,Basic and applied histochemistry - Abstract
Histochemistry continues to be widely applied in biomedical research, being nowadays mostly addressed to detect and locate single molecules or molecular complexes inside cells and tissues, and to relate structural organization and function at the high resolution of the more advanced microscopical techniques. In the attempt to see whether histochemical novelties may be found in the recent literature, the articles published in the European Journal of Histochemistry in the period 2014-2016 have been reviewed. In the majority of the published papers, standardized methods have been preferred by scientists to make their results reliably comparable with the data in the literature, but many papers (approximately one fourth of the published articles) described novel histochemical methods and procedures. It is worth noting that there is a growing interest for minimally-invasive in vivo techniques (magnetic resonance imaging, autofluorescence spectroscopy) which may parallel conventional histochemical analyses to obtain information not only on the morphological features of living organs and tissues, but also on their functional, biophysical and molecular characteristics. Thanks to this unceasing methodological refinement, histochemistry will continue to provide innovative applications in the biomedical field.
- Published
- 2016
48. Circulating hemocytes from larvae of the paper wasp Polistes dominulus (Hymenoptera, Vespidae)
- Author
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Fabio Manfredini, Enzo Ottaviani, and Romano Dallai
- Subjects
Cytoplasm ,Hemocytes ,Cytoplasmic inclusion ,Wasps ,Hymenoptera ,Cytoplasmic Granules ,Phagocytosis ,Phagosomes ,medicine ,Cell Adhesion ,Animals ,Paper wasp ,Cell Nucleus ,Organelles ,Behavior ,Vespidae ,biology ,Ultrastructure ,Cell Biology ,General Medicine ,Anatomy ,biology.organism_classification ,Cell biology ,medicine.anatomical_structure ,Cell culture ,Larva ,Nucleus ,Developmental Biology - Abstract
Circulating hemocytes from larval stages of the paper wasp Polistes dominulus were characterized by light and transmission electron microscopy. Three types were identified: prohemocytes, plasmatocytes and granulocytes. The first two are agranular cells while the latter present typical cytoplasmic inclusions called granules. Plasmatocytes differ from prohemocytes being larger, showing lower nucleus/cytoplasm ratio and they possess many phagolysosomes. The substantial uniformity of most subcellular features and the presence of "intermediate forms" support the "single-cell theory" i.e., there is only one cell line that originates from the prohemocyte and leads to the granular cell passing through the plasmatocyte. This hypothesis seems to be confirmed by functional tests. Indeed, most part of cells adheres to the glass and is able to phagocytize fluorescent microspheres.
- Published
- 2008
49. Japan Society for Reproductive Medicine RMB Best Paper Award
- Author
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Minoru Irahara, Tadashi Kimura, and Hironori Sugino
- Subjects
Gerontology ,Medical education ,medicine.medical_specialty ,Reproductive Medicine ,business.industry ,Alternative medicine ,Reproductive medicine ,Renminbi ,Medicine ,Cell Biology ,business ,Award - Published
- 2017
50. Ultramorphological analysis of the venom glands and their histochemical relationship with the convoluted glands in the primitive social paper wasp Polistes versicolor (Hymenoptera: Vespidae)
- Author
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F. H. Caetano, F. B. Britto, and Universidade Estadual Paulista (Unesp)
- Subjects
lcsh:Arctic medicine. Tropical medicine ,Glycoconjugate ,lcsh:RC955-962 ,Venom ,Hymenoptera ,Toxicology ,complex mixtures ,stomatognathic system ,lcsh:RA1190-1270 ,lcsh:Zoology ,Secretion ,venom glands ,lcsh:QL1-991 ,lcsh:Toxicology. Poisons ,Paper wasp ,chemistry.chemical_classification ,biology ,Vespidae ,Anatomy ,wasps ,biology.organism_classification ,Cell biology ,Infectious Diseases ,Aculeata ,chemistry ,histochemistry ,Animal Science and Zoology ,Parasitology ,Polistes versicolor ,convoluted glands ,ultramorphology - Abstract
Made available in DSpace on 2021-07-14T10:30:42Z (GMT). No. of bitstreams: 0 Previous issue date: 2005-06. Added 1 bitstream(s) on 2021-07-14T11:31:52Z : No. of bitstreams: 1 S1678-91992005000200007.pdf: 240267 bytes, checksum: 7d9ed868a0d325f8cf8413feaecc45da (MD5) The venom glands are part of the most important defense weapon in Aculeata: the venom apparatus. The arrangement of these glands can vary among species, but in general they are composed of long secretory tubules connected to a muscular sac-like reservoir. Although the occurrence of these variations has been documented, many studies neglected the existence of a well-developed secretory portion in the lumen of the reservoir named convoluted gland. This study is an ultramorphological analysis of the venom glands and their histochemical relationship with the convoluted glands in the primitive social wasp Polistes versicolor. In this wasp, the venom glands are constituted by two tubular portions that penetrate individually in the venom reservoir, inside of which we can find the convoluted glands. Besides morphological differences in their cells, histochemical analysis of the venom and convoluted glands clearly show differences between them. While the venom glands indicate positive reaction only for proteins, the convoluted glands present positive reaction for proteins, neutral glycoconjugates, and lipids. The secretion of the convoluted gland cells may modify the compounds passing through the embedded tubular region. Universidade Estadual Paulista, Rio Claro Institute of Biosciences Universidade Estadual Paulista, Rio Claro Institute of Biosciences
- Published
- 2005
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