79,293 results
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52. The leading role of pathology in assessing the somatic molecular alterations of cancer: Position Paper of the European Society of Pathology
- Author
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Matias-Guiu, Xavier, Stanta, Giorgio, Carneiro, Fátima, Ryska, Ales, Hoefler, Gerald, Moch, Holger, European Society of Pathology (ESP), University of Zurich, and Matias-Guiu, Xavier
- Subjects
0301 basic medicine ,Pathology ,medicine.medical_specialty ,Pre-analytical issues ,Somatic cell ,Medical laboratory ,610 Medicine & health ,Context (language use) ,Pathology and Forensic Medicine ,1307 Cell Biology ,03 medical and health sciences ,0302 clinical medicine ,10049 Institute of Pathology and Molecular Pathology ,Neoplasms ,1312 Molecular Biology ,medicine ,Biomarkers, Tumor ,Molecular diagnostics ,Humans ,Patologia molecular ,Pathology, Molecular ,Precision Medicine ,Càncer ,Molecular Biology ,Cancer ,Molecular pathology ,business.industry ,Cell Biology ,General Medicine ,medicine.disease ,Molecular analysis ,2734 Pathology and Forensic Medicine ,Review and Perspectives ,Europe ,Pathologists ,030104 developmental biology ,030220 oncology & carcinogenesis ,Scientific domain ,Commentary ,Position paper ,business ,Integrative pathology - Abstract
Molecular pathology is an essential part of pathology complementing conventional morphological tools to obtain a correct integrated diagnosis with appropriate assessment of prognosis and prediction of response to therapy, particularly in cancer. There is a concern about the situation of molecular pathology in some areas of Europe, namely, regarding the central role of pathologists in assessing somatic genomic alterations in cancer. In some countries, there are attempts that other laboratory medicine specialists perform the molecular analysis of somatic alterations in cancer, particularly now when next generation sequencing (NGS) is incorporated into clinical practice. In this scenario, pathologists may play just the role of "tissue providers," and other specialists may take the lead in molecular analysis. Geneticists and laboratory medicine specialists have all background and skills to perform genetic analysis of germline alterations in hereditary disorders, including familial forms of cancers. However, interpretation of somatic alterations of cancer belongs to the specific scientific domain of pathology. Pathologists are necessary to guarantee the quality of the results, for several reasons: (1) The identified molecular alterations should be interpreted in the appropriate morphologic context, since most of them are context-specific; (2) pre-analytical issues must be taken into consideration; (3) it is crucial to check the proportion of tumor cells in the sample subjected to analysis and presence of inflammatory infiltrate and necrosis should be monitored; and 4) the role of pathologists is crucial to select the most appropriate methods and to control the turnaround time in which the molecular results are delivered in the context of an integrated diagnosis. Obviously, there is the possibility of having core facilities for NGS in a hospital to perform the sequence analysis that are open to other specialties (microbiologists, geneticists), but also in this scenario, pathologists should have the lead in assessing somatic alterations of cancer. In this article, we emphasize the importance of interpreting somatic molecular alterations of the tumors in the context of morphology. In this Position Paper of the European Society of Pathology, we strongly support a central role of pathology departments in the process of analysis and interpretation of somatic molecular alterations in cancer. The proposal for this position paper was approved by the Publication Task Force of the European Society of Pathology (ESP), and this approval was subsequently verified by the Council of ESP. We thank Mar Varela, Dolors Cuevas, Ana Velasco and Jordi Temprana for help in writing the manuscript.
- Published
- 2019
53. Development of a low-cost paper-based ELISA method for rapid Escherichia coli O157:H7 detection
- Author
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Kaiyue Fu, Xiuling Song, Kun Xu, Hao Bao, Dandan Song, Juan Li, Xiaofeng Qu, Xiangjun Meng, Li Li, Zhuping Zhang, Juan Wang, Chao Zhao, Bo Pang, and Yushen Liu
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Paper ,Detection limit ,Chromatography ,Chemistry ,010401 analytical chemistry ,Biophysics ,Enzyme-Linked Immunosorbent Assay ,Pathogenic bacteria ,02 engineering and technology ,Cell Biology ,Paper based ,Escherichia coli O157 ,021001 nanoscience & nanotechnology ,medicine.disease_cause ,01 natural sciences ,Biochemistry ,0104 chemical sciences ,medicine ,Lower cost ,Elisa method ,0210 nano-technology ,Molecular Biology ,Escherichia coli - Abstract
Escherichia coli O157: H7 (E. coli O157: H7) has become one of the most dangerous foodborne pathogenic bacteria around the world. Currently, because of the tedious, high-cost and stringent laboratory conditions required, the conventional E. coli O157: H7 detection methods, such as culture-based methods and polymerase chain reaction (PCR), have much limitation. Thus, we developed a novel paper-based enzyme-linked immunosorbent assay (p-ELISA) with shorter operation duration, lower cost, relatively higher sensitivity and wider application. This method required less than 3 h and 5 μL of sample to complete the detection. The limit of detection (LOD) for E. coli O157: H7 reached 1 × 104 CFU/mL with high specificity. To be more suitable for on-site testing, the readout could be rapidly obtained without any expensive instruments. In this study, we chose E. coli O157:H7 as the representative, and our method could provide a platform for determination of other pathogenic bacteria.
- Published
- 2018
54. 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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- *
TOXOPLASMA gondii , *PARASITES , *PARASITE life cycles , *CYTOLOGY , *INTRACELLULAR pathogens , *TOXOPLASMA , *SCIENTIFIC community - Abstract
[Display omitted] • Seminal papers in Toxoplasma research are revisited. • We focus on a paper that contributed to uncovering the complete life-cycle of Toxoplasma. • A paper that revealed some of the unique cellular biology of the parasite is examined. • A study that elucidated the nature of the compartment in which Toxoplasma resides is described. • We revisit a seminal paper in understanding the immune responses to Toxoplasma infection. 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. [ABSTRACT FROM AUTHOR]
- Published
- 2021
- Full Text
- View/download PDF
55. The raw truth about paper mills
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Jana Christopher
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Publishing ,0303 health sciences ,Biomedical Research ,Computer science ,030302 biochemistry & molecular biology ,Biophysics ,ComputerApplications_COMPUTERSINOTHERSYSTEMS ,Cell Biology ,Biochemistry ,Data science ,03 medical and health sciences ,Structural Biology ,Genetics ,Humans ,Periodicals as Topic ,Raw data ,Molecular Biology ,Relevant information ,030304 developmental biology - Abstract
In 2018, the community first observed scientific papers in the biomedical literature that seemed to display systematically fabricated data, pointing to the existence of paper mills: unofficial, potentially illegal organizations selling fake scientific manuscripts. In the present article, we share relevant information specifically about the 'raw data' associated with paper mill manuscripts. If a submitted manuscript displays clear indicators of potential paper mill involvement, we found that the raw data at close inspection often raise doubts about their authenticity. In the absence of real data, paper mills may need to fabricate raw data images when responding to requests from journals. Given the necessity to streamline production of fake manuscripts, the alleged raw data might be created using templates. Some potential methods for generating fake Western blot images are discussed. Paying close attention to image data, including graphs, diagrams, plots and tables, ideally at pre-publication stage, can clearly help prevent publication of incorrect and fabricated information.
- Published
- 2021
56. Paper-Based Preconcentration and Isolation of Microvesicles and Exosomes
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Dohwan Lee, Jeong Hoon Lee, Hyerin Kim, Kyung Wook Wee, Sung Il Han, Seungmin Kwak, and Dae Sung Yoon
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chemistry.chemical_classification ,Paper ,General Immunology and Microbiology ,Biomolecule ,Microvesicle ,Vesicle ,General Chemical Engineering ,General Neuroscience ,010401 analytical chemistry ,Cytological Techniques ,02 engineering and technology ,Ion concentration polarization ,021001 nanoscience & nanotechnology ,Isolation (microbiology) ,Exosomes ,01 natural sciences ,Exosome ,Microvesicles ,General Biochemistry, Genetics and Molecular Biology ,0104 chemical sciences ,Cell biology ,chemistry ,Cell-Derived Microparticles ,Ultracentrifuge ,0210 nano-technology - Abstract
Microvesicles and exosomes are small membranous vesicles released to the extracellular environment and circulated throughout the body. Because they contain various parental cell-derived biomolecules such as DNA, mRNA, miRNA, proteins, and lipids, their enrichment and isolation are critical steps for their exploitation as potential biomarkers for clinical applications. However, conventional isolation methods (e.g., ultracentrifugation) cause significant loss and damage to microvesicles and exosomes. These methods also require multiple repetitive steps of ultracentrifugation, loading, and wasting of reagents. This article describes a detailed method to fabricate an origami-paper-based device (Exo-PAD) designed for the effective enrichment and isolation of microvesicles and exosomes in a simple manner. The unique design of the Exo-PAD, consisting of accordion-like multifolded layers with convergent sample areas, is integrated with the ion concentration polarization technique, thereby enabling fivefold enrichment of the microvesicles and exosomes on specific layers. In addition, the enriched microvesicles and exosomes are isolated by simply unfolding the Exo-PAD.
- Published
- 2020
57. Call for Papers: 'In It for the Long Haul: Understanding the Lasting Impact of COVID-19 on Lung Health and Disease'
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Nathan W. Bartlett, Julie A. Bastarache, Wolfgang M. Kuebler, and Eric P. Schmidt
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Pulmonary and Respiratory Medicine ,Time Factors ,Physiology ,Physiology (medical) ,Humans ,COVID-19 ,Cell Biology ,Lung - Published
- 2022
58. An American Physiological Society cross-journal Call for Papers on 'The Physiology of Obesity'
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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
59. A four-channel paper microfluidic device with gold nanoparticles and aptamers for seized drugs
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Ling Wang and Bruce McCord
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Paper ,Analyte ,Channel (digital image) ,Aptamer ,Microfluidics ,Biophysics ,Metal Nanoparticles ,Nanotechnology ,01 natural sciences ,Biochemistry ,Methamphetamine ,03 medical and health sciences ,Cocaine ,Lab-On-A-Chip Devices ,Molecular Biology ,030304 developmental biology ,0303 health sciences ,Chemistry ,Codeine ,010401 analytical chemistry ,Cell Biology ,Aptamers, Nucleotide ,0104 chemical sciences ,Colloidal gold ,Colorimetry ,Gold - Abstract
In this note we describe a four-channel paper microfluidic device (μPAD) that utilizes gold nanoparticles (AuNPs) as colorimetric sensors and specifically tailored aptamers to capture a set of targeted drugs, including cocaine, codeine and methamphetamine. The design utilizes salt-induced aggregation of AuNPs to produce a color change that indicates the presence of target analytes. In the absence of the targets, the aptamers bind to AuNPs, preventing aggregation. This μPAD was developed by optimizing the concentrations of aggregating agents, AuNPs and aptamers. The resultant device is sensitive and specific, producing a positive result upon detection of the target analyte.
- Published
- 2019
60. Graphene paper supported MoS2 nanocrystals monolayer with Cu submicron-buds: High-performance flexible platform for sensing in sweat
- Author
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Wei Wang, Hongfang Liu, Muhammad Asif, Meng-Xi Gui, Shuang Dong, Zhengyun Wang, and Feng Wang
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Bioelectronics ,Materials science ,Graphene ,Biophysics ,Nanotechnology ,02 engineering and technology ,Cell Biology ,010402 general chemistry ,021001 nanoscience & nanotechnology ,Electrochemistry ,01 natural sciences ,Biochemistry ,Amperometry ,0104 chemical sciences ,law.invention ,law ,Electrode ,Monolayer ,0210 nano-technology ,Molecular Biology ,Biosensor ,Graphene oxide paper - Abstract
Flexible sweat biosensors are of considerable current interest for the development of wearable smart miniature devices. In this work, we report a novel type of flexible and electrochemical sweat platform fabricated by depositing Cu submicron buds on freestanding graphene paper (GP) carrying MoS2 nanocrystals monolayer for bio-functional detection of glucose and lactate. Quantitative analysis of glucose and lactate was carried out by using amperometric i-t method. Linear ranges were obtained between 5 and 1775 μM for glucose and 0.01-18.4 mM for lactate, and their corresponding limits of detection were 500 nM and 0.1 μM, respectively. The platform demonstrates fast response, good selectivity, superb reproducibility and outstanding flexibility, which enable its use for monitoring glucose and lactate in human perspiration. The strategy of structurally integrating 3D transition metal, 0D transition metal sulfide and 2D graphene will provide new insight into the design of flexible electrodes for sweat glucose and lactate monitoring and a wider range of applications in biosensing, bioelectronics, and lab-on-a-chip devices.
- Published
- 2018
61. Filter paper disks as a matrix for manipulation of recombinant proteins
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Eric H. Ball and Nicoletta T. Basilone
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Clostridium thermocellum ,Bacterial Proteins ,Recombinant Fusion Proteins ,Biophysics ,Cell Biology ,Cellulose ,Molecular Biology ,Biochemistry ,Chromatography, Affinity ,Recombinant Proteins - Abstract
Filter paper provides an excellent matrix for retention of proteins containing a cellulose binding domain. To use this capability for manipulating recombinant fusion proteins, binding and elution parameters were explored and procedures developed for small scale purification, modification and assay. Proteins were tagged with the cellulose binding domain from theC thermocellumCipB gene via a cleavable linker. Filter paper disks of 6mm diameter were able to bind up to 80 μg protein although there was a substantial dependence on molecular size. Different means of introducing fusion proteins to the disks allow either binding within 20 minutes from microliter volumes or slower binding from milliliter volumes. Elution with protease in small volumes yielded greater than 10 μg amounts with concentrations in the 1-2 mg/ml range. To demonstrate their utility, disks were used for small scale protein purification, covalent modification of protein, immunoprecipitation, and in a binding assay. These versatile methods allow parallel processing of multiple samples and may find many uses when only small amounts of protein are needed.
- Published
- 2022
62. Papers presented at the forty-first annual meeting of the Japan Society for Cell Biology. Nagoya, 17-19 November 1988. Abstracts.
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- Animals, Humans, Cell Biology
- Published
- 1988
63. Abstracts of papers presented at the eighteenth annual meeting the American Society for Cell Biology.
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- Cell Cycle, Cell Differentiation, Cells, Cultured, Congresses as Topic, Organoids physiology, Societies, Scientific, United States, Cell Biology, Cell Physiological Phenomena
- Published
- 1978
64. Abstracts of papers presented at the twentieth annual meeting. The American Society for Cell Biology. Cincinnati, Ohio 14-18 November 1980.
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- 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
65. Assessing chemotherapeutic effectiveness using a paper-based tumor model
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Matthew W. Boyce, Gabriel J. LaBonia, Amanda B. Hummon, and Matthew R. Lockett
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Paper ,0301 basic medicine ,Fluorescence-lifetime imaging microscopy ,Scaffold ,Oxygen gradient ,Cell ,Cell Culture Techniques ,Cell Count ,Nanotechnology ,Models, Biological ,Biochemistry ,Article ,Analytical Chemistry ,Diffusion ,03 medical and health sciences ,0302 clinical medicine ,Neoplasms ,Cell density ,Electrochemistry ,medicine ,Humans ,Environmental Chemistry ,Spectroscopy ,Prolonged incubation ,Chemistry ,Paper based ,HCT116 Cells ,Cell biology ,Oxygen ,030104 developmental biology ,medicine.anatomical_structure ,030220 oncology & carcinogenesis - Abstract
In vitro models for screening new cancer chemotherapeutics often rely on two-dimensional cultures to predict therapeutic potential. Unfortunately, the predictive power of these models is limited, as they fail to recapitulate the complex three-dimensional environments in tumors that promote the development of a chemoresistant phenotype. In this study, we describe the preparation and characterization of paper-based cultures (PBC) engineered to assess chemotherapeutic effectiveness in three dimensional, diffusion-limited environments. Similar environments are found within poorly vascularized tumors. These cultures, which are assembled by stacking together cell-laden paper scaffolds to yield thick tissue-like structures, generate monotonic gradients vertically through the culture and provide distinct chemical environments for each scaffold. After prolonged incubation, the scaffolds can simply be peeled apart and analyzed to relate cellular responses to the chemical environment experienced at that scaffold. Through fluorescence imaging, viable and proliferative cell populations were mapped within a stacked culture and found to be most abundant in scaffolds close to the nutrient-rich medium. By adjusting the cell density, we modulated the spatiotemporal evolution of oxygen gradients across the cultures and correlated these environmental changes with cellular sensitivity to SN-38 exposure. From these results, we showed that differences in the oxygen gradients produced cellular populations with significantly different chemosensitivities. Through this work, we highlight PBCs ability to serve as an analytical model capable of determining chemotherapeutic effectiveness under a range of chemical environments.
- Published
- 2017
66. HISTORICAL PAPER. CONTRIBUTIONS TO THE KNOWLEDGE OF THE CELL AND ITS VITAL PROCESSES.
- Author
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FLEMMING W
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- Humans, Cell Biology, History
- Published
- 1965
67. Goldschmidt Papers, University of California, Berkeley.
- Author
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Allen GE
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- History, Modern 1601-, United States, Cell Biology history, Genetics history
- Published
- 1971
68. List of scientific papers contributed by the late Dr. Kono Yasui.
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- History, 20th Century, Japan, Bibliographies as Topic, Cell Biology
- Published
- 1971
69. Cellulose paper sorptive extraction (CPSE): A simple and affordable microextraction method for analysis of basic drugs in blood as a proof of concept
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Bharti Jain, Rajeev Jain, Rakesh Roshan Jha, Abhishek Ghosh, Debasish Basu, Mohammad A.S. Abourehab, Atul Bajaj, Vimukti Chauhan, Sukhminder Kaur, and Shweta Sharma
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Clinical Biochemistry ,Cell Biology ,General Medicine ,Biochemistry ,Analytical Chemistry - Abstract
Aiming towards simplifying sample preparation procedure, the present work explores use of unmodified laboratory filter paper as sorbent for extraction of nine basic drugs (five antidepressants, four benzodiazepines, and ketamine) from human blood samples and their analysis by gas chromatography-mass spectrometry (GC-MS). The procedure termed as cellulose paper sorptive extraction (CPSE) is straightforward. It involves adsorption of target analytes from deproteinized diluted blood samples on the unmodified cellulose paper followed by elution into 2 mL of methanol. Multivariate optimization, consisting of Placket-Burman design (PBD) and central composite design (CCD), was used to screen and optimize significant factors for CPSE. The proposed method follows the principles of green analytical chemistry (GAC), as the unmodified filter paper used as the sorbent is inexpensive and biodegradable. The technique is easy to perform and requires only 2 mL of MeOH during the entire extraction procedure. Under the optimized conditions, the limit of detection and quantification for the target analytes were estimated to be in the range of 0.003-0.035 and 0.010-0.117 µg mL
- Published
- 2023
70. October Highlights/Papers by Junior Investigators/NIH News
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Biomedical Research ,National Institutes of Health (U.S.) ,Cell Biology ,United States - Published
- 2022
71. Generational Message. Helena Radlińska’s Papers in 'Pismo Młodych' (1943)
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Izabela Kamińska-Jatczak, Uniwersytet Łódzki, and izabela.kaminska@now.uni.lodz.pl
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Embryology ,II wojna światowa ,II World War ,Helena Radlińska ,Gray Ranks Assault Groups ,Grupy Szturmowe Szarych Szeregów ,war journalism ,Cell Biology ,generational message ,Anatomy ,przekaz pokoleniowy ,publicystyka wojenna ,Developmental Biology - Abstract
The article presents the main themes of journalistic texts probably written by Helena Radlińska, and published on the pages of the underground magazine ‘Pismo Młodych’ addressed to the Gray Ranks Assault Groups. The selected topics, referring to the main concepts of Radlińska’s social pedagogy, were distinguished as a result of a qualitative content analysis. The synthesis of the content addressed to the fighting youth and their instructors, leads to a conclusion regarding the generational message that Radlińska directed to the younger generation fighting against the invader during World War II. The text reveals a less known part of the journalistic work of the scientist from the war period. Artykuł prezentuje główne tematy tekstów publicystycznych, napisanych prawdopodobnie przez Helenę Radlińską na łamach pisma konspiracyjnego „Pismo Młodych”, adresowanego do Grup Szturmowych Szarych Szeregów. Wyłonione tematy, odwołujące się do głównych pojęć pedagogiki społecznej Radlińskiej, zostały wyodrębnione w efekcie przeprowadzonej jakościowej analizy treści. Synteza treści adresowanych do młodzieży walczącej i ich instruktorów prowadzi do konkluzji dotyczącej przekazu pokoleniowego, jaki Radlińska kierowała do młodszej generacji walczącej z okupantem podczas II wojny światowej. Tekst odsłania mniej znaną kartę twórczości publicystycznej uczonej z okresu wojennego.
- Published
- 2022
72. Sterility of Gauze Packed in One and Three Layer Layer Parchment Paper
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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
73. Validation of the paper-disc soil method using soil alga Chlorococcum infusionum to quantitatively determine the toxicity of heavy metals
- Author
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Sun-Hwa Nam, Dokyung Kim, Sanghee An, and Youn-Joo An
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China ,Physiology ,Health, Toxicology and Mutagenesis ,Water ,Cell Biology ,General Medicine ,Toxicology ,Biochemistry ,Risk Assessment ,Soil ,Metals, Heavy ,Soil Pollutants ,Cadmium ,Environmental Monitoring - Abstract
The paper-disc soil method is a soil algal bioassay used to assess soil water transfer in polluted soils. Although this ecotoxicological method was first established in 2016 to assess soil pollution, quantitative toxicity assessments of Cu- or Ni-treated soil and in situ or ex situ soils polluted with other heavy metals (HMs) have not been widely conducted. In this study, the paper-disc soil method was validated under different test conditions. The validated paper-disc soil method was used to quantitatively investigate the toxicity of four HMs (As, Cd, Cr, and Zn). Based on the results, the test species, initial inoculation concentration in the algal-dispersed solution, water content, light intensity, and exposure duration were proposed as Chlorococcum infusionum, 3 × 10
- Published
- 2022
74. Can citation metrics predict the true impact of scientific papers?
- Author
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Aroeira, Rita I., Castanho, Miguel A. R. B., and Repositório da Universidade de Lisboa
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0301 basic medicine ,Paper ,Computer science ,Biochemistry ,03 medical and health sciences ,0302 clinical medicine ,Humans ,Molecular Biology ,Scientific evaluation ,Impact factor ,Research ,Scientific production ,Experimental data ,Cell Biology ,Data science ,Research Personnel ,Impact ,030104 developmental biology ,Work (electrical) ,Bibliometrics ,030220 oncology & carcinogenesis ,Test set ,Number of citations ,Criticism ,Metrics ,Citation ,Value (mathematics) - Abstract
© 2020 Federation of European Biochemical Societies, Bibliometric quantification is frequently used as metrics for the evaluation of the scientific performance of researchers and institutions. The researchers’ merit is usually assessed by the analysis of quantitative parameters such as the number of publications, the impact factor of journals, the total number of citations, or the h-index, although the limitations in translating these indicators into the impact of the outcome of scientific production are a matter of harsh criticism. To assess, based on factual evidences, the validity of traditional bibliometric analyses to conclude on the impact of papers to advance the state of the art, we carried out an innovative methodology on selected publications (test set). This methodology is based on identifying those citations of the test set papers that truly embed the methods, concepts, or hypotheses to build new knowledge and formulate conclusions. The results show that the percentage of citations that reflect the real impact of the papers of the test set has an average value of 12.4% of total citations and is not related to the impact factor of the journal where the test set papers were published. In conclusion, our analysis demonstrates factually, using experimental data, the total failure of using quantitative bulk citation analyses to conclude on the scientific impact of publications. Only a careful analysis of how the work described in papers was embedded on the subsequent work and/or conclusions of others can tell about the real contribution of a published work to the development of new knowledge and advancement of science., This work was supported by ‘La Caixa’ Foundation (grant reference: IMM/BPD/107-2018).
- Published
- 2019
75. Biological membranes in EV biogenesis, stability, uptake, and cargo transfer: an ISEV position paper arising from the ISEV membranes and EVs workshop
- Author
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Russell, Ashley E, Sneider, Alexandra, Witwer, Kenneth W, Bergese, Paolo, Bhattacharyya, Suvendra N, Cocks, Alexander, Cocucci, Emanuele, Erdbrügger, Uta, Falcon-Perez, Juan M, Freeman, David W, Gallagher, Thomas M, Hu, Shuaishuai, Huang, Yiyao, Jay, Steven M, Kano, Shin-Ichi, Lavieu, Gregory, Leszczynska, Aleksandra, Llorente, Alicia M, Lu, Quan, Mahairaki, Vasiliki, Muth, Dillon C, Noren Hooten, Nicole, Ostrowski, Matias, Prada, Ilaria, Sahoo, Susmita, Schøyen, Tine Hiorth, Sheng, Lifu, Tesch, Deanna, Van Niel, Guillaume, Vandenbroucke, Roosmarijn E, Verweij, Frederik J, Villar, Ana V, Wauben, Marca, Wehman, Ann M, Yin, Hang, Carter, David Raul Francisco, Vader, Pieter, LS Celbiologie-Algemeen, dB&C I&I, Sub General Pharmaceutics, Universidad de Cantabria, LS Celbiologie-Algemeen, dB&C I&I, and Sub General Pharmaceutics
- Subjects
0301 basic medicine ,fusion ,Biogenesis ,Exosomes ,Extracellular vesicles ,Fusion ,Membranes ,Uptake ,Nanoparticles ,purl.org/becyt/ford/1 [https] ,0302 clinical medicine ,IMMERSION DEPTH ,Medicine and Health Sciences ,MEDIATED ENDOCYTOSIS ,GENE-EXPRESSION ,lcsh:Cytology ,3. Good health ,ISEV workshop ,Membrane ,membranes ,030220 oncology & carcinogenesis ,uptake ,technology ,Position Paper ,position paper ,Histology ,Membrane biology ,Nanotechnology ,DENDRITIC CELLS ,03 medical and health sciences ,VDP::Medisinske Fag: 700 ,lcsh:QH573-671 ,purl.org/becyt/ford/1.6 [https] ,Biology ,paper ,MULTIVESICULAR BODIES ,Biology and Life Sciences ,Biological membrane ,Cell Biology ,biogenesis ,EMERGING ROLE ,biogenesisfusion ,EXOSOME SECRETION ,FAS LIGAND ,position ,030104 developmental biology ,PLASMA-MEMBRANE ,Position paper ,Business - Abstract
Paracrine and endocrine roles have increasingly been ascribed to extracellular vesicles (EVs) generated by multicellular organisms. Central to the biogenesis, content, and function of EVs are their delimiting lipid bilayer membranes. To evaluate research progress on membranes and EVs, the International Society for Extracellular Vesicles (ISEV) conducted a workshop in March 2018 in Baltimore, Maryland, USA, bringing together key opinion leaders and hands-on researchers who were selected on the basis of submitted applications. The workshop was accompanied by two scientific surveys and covered four broad topics: EV biogenesis and release; EV uptake and fusion; technologies and strategies used to study EV membranes; and EV transfer and functional assays. In this ISEV position paper, we synthesize the results of the workshop and the related surveys to outline important outstanding questions about EV membranes and describe areas of consensus. The workshop discussions and survey responses reveal that while much progress has been made in the field, there are still several concepts that divide opinion. Good consensus exists in some areas, including particular aspects of EV biogenesis, uptake and downstream signalling. Areas with little to no consensus include EV storage and stability, as well as whether and how EVs fuse with target cells. Further research is needed in these key areas, as a better understanding of membrane biology will contribute substantially towards advancing the field of extracellular vesicles. Fil: Russell, Ashley E.. University Johns Hopkins; Estados Unidos Fil: Sneider, Alexandra. University Johns Hopkins; Estados Unidos Fil: Witwer, Kenneth W.. University Johns Hopkins; Estados Unidos Fil: Bergese, Paolo. Università Degli Studi Di Brescia; Italia Fil: Bhattacharyya, Suvendra N.. Indian Institute of Chemical Biology; India Fil: Cocks, Alexander. Cardiff University; Reino Unido Fil: Cocucci, Emanuele. Ohio State University; Estados Unidos Fil: Erdbrügger, Uta. University of Virginia; Estados Unidos Fil: Falcon Perez, Juan M.. Ikerbasque Basque Foundation for Science; España Fil: Freeman, David W.. National Institute On Aging National Institute for Helth ; Estados Unidos Fil: Gallagher, Thomas M.. Loyola University Of Chicago; Estados Unidos Fil: Hu, Shuaishuai. Technological University Dublin; Irlanda Fil: Huang, Yiyao. University Johns Hopkins; Estados Unidos. Southern Medical University; China Fil: Jay, Steven M.. University of Maryland; Estados Unidos Fil: Kano, Shin-ichi. The University of Alabama at Birmingham School of Medicine; Estados Unidos Fil: Lavieu, Gregory. Institut Curie; Francia Fil: Leszczynska, Aleksandra. University of California at San Diego; Estados Unidos Fil: Llorente, Alicia M.. Oslo University Hospital; Noruega Fil: Lu, Quan. Harvard University. Harvard School of Public Health; Estados Unidos Fil: Mahairaki, Vasiliki. University Johns Hopkins; Estados Unidos Fil: Muth, Dillon C.. University Johns Hopkins; Estados Unidos Fil: Noren Hooten, Nicole. National Institute On Aging National Institute for Helth ; Estados Unidos Fil: Ostrowski, Matias. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Houssay. Instituto de Investigaciones Biomédicas en Retrovirus y Sida. Universidad de Buenos Aires. Facultad de Medicina. Instituto de Investigaciones Biomédicas en Retrovirus y Sida; Argentina Fil: Prada, Ilaria. Consiglio Nazionale delle Ricerche; Italia Fil: Sahoo, Susmita. Icahn School of Medicine at Mount Sinai ; Estados Unidos Fil: Schøyen, Tine Hiorth. Uit The Arctic University Of Norway; Noruega. University Johns Hopkins; Estados Unidos Fil: Sheng, Lifuy. University of Washington. School of Medicine; Estados Unidos Fil: Tesch, Deanna. Shaw University; Estados Unidos Fil: Van Niel, Guillaume. No especifíca; Fil: Vandenbroucke, Roosmarijn E.. University of Ghent; Bélgica Fil: Verweij, Frederik J.. No especifíca; Fil: Villar, Ana V.. Universidad de Cantabria; España Fil: Wauben, Marca. University of Utrecht; Países Bajos Fil: Wehman, Ann M.. Universität Würzburg; Alemania Fil: Ardavan, Arzhang. Peking University; ; China Fil: Carter, David Raul Francisco. Oxford Brookes University; Reino Unido Fil: Vader, Pieter. University Medical Center Utrecht; Países Bajos
- Published
- 2019
- Full Text
- View/download PDF
76. Nucleic acid sample preparation from whole blood in a paper microfluidic device using isotachophoresis
- Author
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Andrew T. Bender, Duy N. Ngyuen, Benjamin Sullivan, Jonathan D. Posner, and Jane Yuqian Zhang
- Subjects
Paper ,Protein digestion ,Clinical Biochemistry ,Blood fractionation ,Recombinase Polymerase Amplification ,030226 pharmacology & pharmacy ,01 natural sciences ,Biochemistry ,Article ,Analytical Chemistry ,03 medical and health sciences ,0302 clinical medicine ,Lab-On-A-Chip Devices ,Nucleic Acids ,Humans ,Nucleic Acid Amplification Tests ,Sample preparation ,Chromatography ,Isotachophoresis ,Chemistry ,010401 analytical chemistry ,Proteolytic enzymes ,Equipment Design ,Cell Biology ,General Medicine ,Microfluidic Analytical Techniques ,0104 chemical sciences ,Nucleic acid ,Electrophoresis, Polyacrylamide Gel ,Nucleic Acid Amplification Techniques - Abstract
Nucleic acid amplification tests (NAATs) are a crucial diagnostic and monitoring tool for infectious diseases. A key procedural step for NAATs is sample preparation: separating and purifying target nucleic acids from crude biological samples prior to nucleic acid amplification and detection. Traditionally, sample preparation has been performed with liquid- or solid-phase extraction, both of which require multiple trained user steps and significant laboratory equipment. The challenges associated with sample preparation have limited the dissemination of NAAT point-of-care diagnostics in low resource environments, including low- and middle-income countries. We report on a paper-based device for purification of nucleic acids from whole blood using isotachophoresis (ITP) for point-of-care NAATs. We show successful extraction and purification of target nucleic acids from large volumes (33 µL) of whole human blood samples with no moving parts and few user steps. Our device utilizes paper-based buffer reservoirs to fully contain the liquid ITP buffers and does not require complex filling procedures, instead relying on the natural wicking of integrated paper membranes. We perform on-device blood fractionation via filtration to remove leukocytes and erythrocytes from our sample, followed by integrated on-paper proteolytic digestion of endogenous plasma proteins to allow for successful isotachophoretic extraction. Paper-based isotachophoresis purifies and concentrates target nucleic acids that are added directly to recombinase polymerase amplification (RPA) reactions. We show consistent amplification of input copy concentrations of as low as 3 × 103 copies nucleic acid per mL input blood with extraction and purification taking only 30 min. By employing a paper architecture, we are able to incorporate these processes in a single, robust, low-cost design, enabling the direct processing of large volumes of blood, with the only intermediate user steps being the removal and addition of tape. Our device represents a step towards a simple, fully integrated sample preparation system for nucleic acid amplification tests at the point-of-care.
- Published
- 2021
77. Paper-based Invasion Assays for Quantifying Cellular Movement in Three-dimensional Tissue-like Structures
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Matthew W. Boyce, C. Chad Lloyd, and Matthew R. Lockett
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0301 basic medicine ,03 medical and health sciences ,Tumor microenvironment ,030104 developmental biology ,Oxygen gradient ,fungi ,Cancer cell ,Chemotaxis ,General Medicine ,Paper based ,Biology ,Cell biology - Abstract
To elucidate the chemical and environmental conditions that promote invasion of cancer cells, an assay is needed in which the chemical landscape of a tumor-like environment can be experimentally manipulated and probed. The three-dimensional paper-based invasion assays described here simulate poorly vascularized tissue and allow the invasion of cancerous cells to be visualized and quantified. These cultures are easy to assemble and allow multiple invasion assays to be performed in parallel. By using different materials to control gradients formed across the culture, the chemotactic potential of small molecules can be evaluated in a more representative tissue microenvironment. © 2017 by John Wiley & Sons, Inc. Keywords: chemotaxis; hypoxia; invasion; oxygen gradients; tumor microenvironment
- Published
- 2017
78. Call for Special Issue Papers: Cellular Reprogramming 25th AnniversaryDeadline for Manuscript Submission: April 30, 2023
- Author
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Carlos-Filipe Pereira
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Cell Biology ,Developmental Biology ,Biotechnology - Published
- 2022
79. Paper-Based Microchip Electrophoresis Enabled First Point-of-Care Diagnostic Test for Beta-Thalassemia
- Author
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Ran An, Alireza Avanaki, Priyaleela Thota, Sai Nemade, Amrish Mehta, and Umut A. Gurkan
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Immunology ,Cell Biology ,Hematology ,Biochemistry - Published
- 2022
80. Call for Special Issue Papers: Interferon-Lambda (Type-3 Interferon)
- Author
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Ludmila Prokunina-Olsson
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Virology ,Immunology ,Cell Biology - Published
- 2022
81. Editorial - announcing the winners of the SEB-Wiley-TPJ awards for outstanding TPJ papers published in 2021
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Lee Sweetlove
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Publications ,Genetics ,Awards and Prizes ,Cell Biology ,Plant Science - Published
- 2022
82. What we are doing to help researchers publish their papers in our journal
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Gordon Mallarkey and Matthew Thorne
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Publishing ,Bibliometrics ,Biochemistry (medical) ,Humans ,Cell Biology ,General Medicine ,Biochemistry - Published
- 2022
83. Chronic neck pain and respiratory dysfunction: a review paper
- Author
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Shruti P. Nair, Chaitrali S. Panchabhai, and Vrushali Panhale
- Subjects
Embryology ,General Medicine ,Cell Biology ,Anatomy ,Developmental Biology - Abstract
Background Neck pain is one of the most frequently reported musculoskeletal complaints among adults; its prevalence in the world is ranging from 16.7 to 75.1%. It can have an impact on a person’s physical, psychological, and social well-being. Along with pain, disability, muscle weakness, and alterations in the posture, neck pain patients are likely to develop affection of the respiratory function as reported in numerous studies. However, these patients are primarily managed with a musculoskeletal perspective with little or no emphasis to the changes observed in the respiratory system. There is a paucity of literature evaluating the need for respiratory rehabilitation in these patients. Main body All relevant published literature related to respiratory dysfunction in patients with chronic neck pain were critically reviewed in this study. Patients having chronic neck pain were found to have alterations in respiratory function in terms of reduced lung volumes, reduced chest mobility, and decreased respiratory muscle strength. Various factors such as decreased cervical range of motion, decreased strength of deep neck flexors and extensors, forward head posture, and pain are known to cause these dysfunctions. Respiratory system intervention in the form of breathing re-education and respiratory exercises are significantly proven to improve treatment outcomes. Conclusion There is limited literature relating to respiratory dysfunction and its management in neck pain patients. Incorporation of both respiratory and musculoskeletal assessments can enhance their treatment outcomes. Additionally, it can be suggested to consider intervention in the form of respiratory rehabilitation while strategizing treatment goals for these patients.
- Published
- 2022
84. Fifteen years of publishing the papers on the impact of biological factors on hydrological processes in Biologia
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Kálmán Rajkai, Csilla Farkas, Ľubomír Lichner, Miroslav Tesař, and Katarína Hegedüšová
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Land use ,business.industry ,Environmental resource management ,Climate change ,Cell Biology ,Plant Science ,Biochemistry ,Water scarcity ,Water resources ,Greenhouse gas ,Scale (social sciences) ,Soil retrogression and degradation ,Vadose zone ,Genetics ,Environmental science ,Animal Science and Zoology ,business ,Molecular Biology ,Ecology, Evolution, Behavior and Systematics - Abstract
Special issue on the impact of biological factors on hydrological processes, edited by the authors of this Foreword, brings together 11 full-text papers on these complex interactions, ranging in scale from storing the water by lichen species to competing the nations for increasingly scarce water resources in securitized transboundary watersheds. In addition to these “boundary-scale” biohydrology papers, 4 papers assess the impact of land use on soil properties, 3 papers estimate the effect of biological factors on the downward and upward movements of water in the vadose zone of soil, and 2 papers evaluated the amount of greenhouse gas emissions from agriculturally utilized soil and forest fires. We would like to conclude by expressing our hope that the papers published in the present special issue will act as a stimulus for initiating new research projects and contribute to finding solutions to the global threats of water scarcity and soil degradation. It is absolutely crucial to increase our chances of surviving the current climate change and to reach a more sustainable society in the future.
- Published
- 2020
85. All-inkjet-printed MoS2 field-effect transistors on paper for low-cost and flexible electronics
- Author
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Jin Ju Chen, Zhe sheng Feng, Zhi Jiang, Evgeniya Sheremet, Enrico Sowade, Raul D. Rodriguez, Long Chen, Zhao quan Xu, Yan Wang, and Reinhard R. Baumann
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Materials science ,Materials Science (miscellaneous) ,Hardware_PERFORMANCEANDRELIABILITY ,02 engineering and technology ,Integrated circuit ,Substrate (printing) ,010402 general chemistry ,01 natural sciences ,law.invention ,law ,Hardware_INTEGRATEDCIRCUITS ,Electronics ,Electrical and Electronic Engineering ,Physical and Theoretical Chemistry ,business.industry ,Transistor ,Cell Biology ,021001 nanoscience & nanotechnology ,Atomic and Molecular Physics, and Optics ,Flexible electronics ,0104 chemical sciences ,Electrode ,Optoelectronics ,Field-effect transistor ,0210 nano-technology ,business ,Layer (electronics) ,Biotechnology - Abstract
All-inkjet-printing of transistors has received much attention for low cost and flexible integrated circuits. However, most flexible field-effect transistors (FETs) based on the emerging two-dimensional materials suffer from the high cost of substrate and electrode materials. The requirements for high-temperature synthesis and precise control in processing add another layer of complexity. To overcome these issues, low-cost flexible paper-based MoS2 FETs were fabricated by inkjet printing of MoS2 channel materials on paper. Additionally, we proposed and achieved the mask-less and low-temperature formation of source and drain electrodes on paper using in-situ selective-area copper reduction. A low sub-threshold swing of 80 mV/dec, high on/off ratio of 105, and very high turn-on current (Ion) of 200 μA of the paper-based flexible MoS2 FETs were demonstrated using the proposed low-cost and facile all-inkjet-printing technique. The all-inkjet-printing technique assisted by in-situ copper reduction opens new opportunities for low-cost and batch fabrication of paper-based electronic devices in ambient conditions.
- Published
- 2020
86. Digital magic, or the dark arts of the 21stcentury—how can journals and peer reviewers detect manuscripts and publications from paper mills?
- Author
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Jennifer A. Byrne and Jana Christopher
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0303 health sciences ,Magic (illusion) ,Computer science ,business.industry ,Scale (chemistry) ,media_common.quotation_subject ,030302 biochemistry & molecular biology ,Biophysics ,ComputerApplications_COMPUTERSINOTHERSYSTEMS ,Cell Biology ,Public relations ,Biochemistry ,The arts ,Product (business) ,03 medical and health sciences ,Structural Biology ,Genetics ,Quality (business) ,Contract cheating ,business ,Molecular Biology ,Publication ,030304 developmental biology ,Research data ,media_common - Abstract
In recent years, it has been proposed that unrealistic requirements for academics and medical doctors to publish in scientific journals, combined with monetary publication rewards, have led to forms of contract cheating offered by organizations known as paper mills. Paper mills are alleged to offer products ranging from research data through to ghostwritten fraudulent or fabricated manuscripts and submission services. While paper mill operations remain poorly understood, it seems likely that paper mills need to balance product quantity and quality, such that they produce or contribute to large numbers of manuscripts that will be accepted for publication. Producing manuscripts at scale may be facilitated by the use of manuscript templates, which could give rise to shared features such as textual and organizational similarities, the description of highly generic study hypotheses and experimental approaches, digital images that show evidence of manipulation and/or reuse, and/or errors affecting verifiable experimental reagents. Based on these features, we propose practical steps that editors, journal staff, and peer reviewers can take to recognize and respond to research manuscripts and publications that may have been produced with undeclared assistance from paper mills.
- Published
- 2020
87. sj-pdf-1-jcb-10.1177_0271678X221119760 - Supplemental material for Transfer function analysis of dynamic cerebral autoregulation: a CARNet white paper 2022 update
- Author
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Panerai, Ronney B, Brassard, Patrice, Burma, Joel S, Castro, Pedro, Claassen, Jurgen AHR, van Lieshout, Johannes J, Liu, Jia, Lucas, Samuel JE, Minhas, Jatinder S, Mitsis, Georgios D, Nogueira, Ricardo C, Ogoh, Shigehiko, Payne, Stephen J, Rickards, Caroline A, Robertson, Andrew D, Rodrigues, Gabriel D, Smirl, Jonathan D, and Simpson, David M
- Subjects
110320 Radiology and Organ Imaging ,FOS: Clinical medicine ,FOS: Biological sciences ,Medicine ,Cell Biology ,110305 Emergency Medicine ,110306 Endocrinology ,Biochemistry ,69999 Biological Sciences not elsewhere classified ,110904 Neurology and Neuromuscular Diseases ,Neuroscience - Abstract
Supplemental material, sj-pdf-1-jcb-10.1177_0271678X221119760 for Transfer function analysis of dynamic cerebral autoregulation: a CARNet white paper 2022 update by Ronney B Panerai, Patrice Brassard, Joel S Burma, Pedro Castro, Jurgen AHR Claassen, Johannes J van Lieshout, Jia Liu, Samuel JE Lucas, Jatinder S Minhas, Georgios D Mitsis, Ricardo C Nogueira, Shigehiko Ogoh, Stephen J Payne, Caroline A Rickards, Andrew D Robertson, Gabriel D Rodrigues, Jonathan D Smirl David M Simpson in Journal of Cerebral Blood Flow & Metabolism
- Published
- 2022
- Full Text
- View/download PDF
88. Direct and rapid quantitation of ephedrines in human urine by paper spray ionization/high resolution mass spectrometry
- Author
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Eunju Cha, Sangwon Cha, Eun Sook Jeong, Ki Hun Kim, Oh-Seung Kwon, and Jaeick Lee
- Subjects
Paper ,Accuracy and precision ,Phenylpropanolamine ,Clinical Biochemistry ,Analytical chemistry ,Methylephedrine ,Urine ,010402 general chemistry ,Mass spectrometry ,01 natural sciences ,Biochemistry ,Mass Spectrometry ,Analytical Chemistry ,Limit of Detection ,Ionization ,Humans ,Ephedrine ,Detection limit ,Chromatography ,Filter paper ,Chemistry ,010401 analytical chemistry ,Reproducibility of Results ,Cell Biology ,General Medicine ,Pseudoephedrine ,0104 chemical sciences ,Substance Abuse Detection ,Central Nervous System Stimulants ,Quantitative analysis (chemistry) - Abstract
A rapid and direct paper spray ionization/mass spectrometry (PSI/MS) method was developed for quantitative analysis of ephedrine, pseudoephedrine, norpseudoephedrine, and methylephedrine in human urine. This method involves the use of a triangular filter paper and high-resolution mass spectrometry, where the molecular ions of ephedrines were generated by applying high voltage after loading the spray solvent to the paper which urine sample was pre-loaded. Small amounts (2μL) of urine spiked with an internal standard were directly analyzed for ephedrines. The PSI/MS method was validated for linearity, within- and between-run precision, accuracy, and limit of detection. The results showed good linearity (R(2)≥0.9928) and acceptable precision and accuracy. Furthermore, the accuracy of the method was assessed by analyzing a blind urine sample from World Anti-Doping Agency and comparing the measured concentrations with the nominal concentrations. This test resulted in accuracies ranging from 96.4 to 106.1%, indicating that the PSI/MS method has the potential to be an alternative technique for the fast quantitation of ephedrines in doping control analysis.
- Published
- 2016
89. Production of endoglucanase from Trichoderma reesei RUT C30 and its application in deinking of printed office waste paper
- Author
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Ayman Salih Omer Idris, Rajeev K. Sukumaran, and Ashok Pandey
- Subjects
0106 biological sciences ,0301 basic medicine ,Central composite design ,Rut ,Plant Science ,Cellulase ,01 natural sciences ,Biochemistry ,law.invention ,03 medical and health sciences ,chemistry.chemical_compound ,law ,010608 biotechnology ,Genetics ,Cellulose ,Molecular Biology ,Ecology, Evolution, Behavior and Systematics ,Trichoderma reesei ,biology ,Filter paper ,business.industry ,Cell Biology ,Deinking ,biology.organism_classification ,Pulp and paper industry ,Biotechnology ,030104 developmental biology ,chemistry ,Trichoderma ,biology.protein ,Animal Science and Zoology ,business - Abstract
Media components were optimized using two-step statistical design of experiments for enhancing endoglucanase/carboxymethyl cellulase (CMCase) production by Trichoderma reesei RUT C30. A Placket-Burman design identified cellulose concentration and pH as the most significant variables, which influenced the CMCase activity. Central composite design was employed to optimize these selected parameters. The optimal activity was obtained at cellulose concentration 19.7 g/L and pH of 7.2. Under the optimized conditions, CMCase activity was 83.63 ± 1.86 IU/mL and filter paper activity was 2.58 ± 0.2 filter paper units per mL. Enzyme productivity was higher compared to previous reports. The enzyme produced from T. reesei was concentrated and was evaluated for deinking of printed paper, which demonstrated the suitability of the enzyme for this application.
- Published
- 2016
90. Paper-based microreactor array for rapid screening of cell signaling cascades
- Author
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Kin Fong Lei, Ngan-Ming Tsang, and Chia-Hao Huang
- Subjects
Paper ,0301 basic medicine ,Cell signaling ,Time Factors ,Biomedical Engineering ,Bioengineering ,Biology ,01 natural sciences ,Biochemistry ,03 medical and health sciences ,Bioreactors ,Cell Line, Tumor ,Neoplasms ,Humans ,Transcription factor ,Cell Proliferation ,Immunoassay ,Kinase ,Liver Neoplasms ,010401 analytical chemistry ,Hydrogels ,Equipment Design ,General Chemistry ,Paper based ,Microarray Analysis ,0104 chemical sciences ,Cell biology ,030104 developmental biology ,Cell culture ,Immunology ,Computer-Aided Design ,Microreactor ,Signal transduction ,Cell signaling pathways ,Signal Transduction - Abstract
Investigation of cell signaling pathways is important for the study of pathogenesis of cancer. However, the related operations used in these studies are time consuming and labor intensive. Thus, the development of effective therapeutic strategies may be hampered. In this work, gel-free cell culture and subsequent immunoassay has been successfully integrated and conducted in a paper-based microreactor array. Study of the activation level of different kinases of cells stimulated by different conditions, i.e., IL-6 stimulation, starvation, and hypoxia, was demonstrated. Moreover, rapid screening of cell signaling cascades after the stimulations of HGF, doxorubicin, and UVB irradiation was respectively conducted to simultaneously screen 40 kinases and transcription factors. Activation of multi-signaling pathways could be identified and the correlation between signaling pathways was discussed to provide further information to investigate the entire signaling network. The present technique integrates most of the tedious operations using a single paper substrate, reduces sample and reagent consumption, and shortens the time required by the entire process. Therefore, it provides a first-tier rapid screening tool for the study of complicated signaling cascades. It is expected that the technique can be developed for routine protocol in conventional biological research laboratories.
- Published
- 2016
91. An Activity-Staining Method on Filtration Paper Enables High-Throughput Screening of Temperature-Sensitive and Inactive Mutations of Rice α-Amylase for Improvement of Rice Grain Quality
- Author
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Masaru Nakata, Takeshi Yamaguchi, Yuriko Nakata, Masaharu Kuroda, Rieko Hirai-Kimura, and Hiromoto Yamakawa
- Subjects
Paper ,0106 biological sciences ,0301 basic medicine ,Physiology ,Starch ,Mutant ,Mutagenesis (molecular biology technique) ,Plant Science ,medicine.disease_cause ,Polymerase Chain Reaction ,01 natural sciences ,Endosperm ,03 medical and health sciences ,chemistry.chemical_compound ,Grain quality ,medicine ,Protein Isoforms ,Amylase ,Escherichia coli ,Plant Proteins ,chemistry.chemical_classification ,biology ,Chemistry ,business.industry ,Temperature ,food and beverages ,Oryza ,Cell Biology ,General Medicine ,Recombinant Proteins ,High-Throughput Screening Assays ,Biotechnology ,030104 developmental biology ,Enzyme ,Biochemistry ,Mutation ,Seeds ,biology.protein ,alpha-Amylases ,business ,Filtration ,010606 plant biology & botany - Abstract
α-Amylase is a starch-hydrolyzing enzyme (EC 3.2.1.1) indispensable for germination of cereal seeds, but it is also expressed during the ripening stage. Previous studies demonstrated that the enzyme is activated in developing rice seeds under extremely hot weather and triggers a loss of grain quality by hindering the accumulation of storage starch in the endosperm. Since inactive or, preferably, heat-labile α-amylases are preferable for breeding premium rice, we developed a method for rapid screening of inactive and temperature-sensitive mutants of the enzyme by combining the random mutagenesis by error-prone PCR and an on-filter activity test of the recombinant enzyme expressed by Escherichia coli. This technique was applied to a major α-amylase in the developing seed, Amy3D, and the activity of the isolated mutant enzymes was verified with both the bacteria-expressed recombinant proteins and the extract from the endosperm overexpressing each of them. Then, we identified several substitutions leading to loss of the activity of amino acid residues (Leu28, Asp112, Cys149, Trp201, Asp204, Gly295, Leu300 and Cys342), as well as a variety of heat-sensitive substitutions of Asp83, Asp187 and Glu252. Furthermore, variations of the heat-labile enzymes were created by combining these heat-sensitive mutations. The effects of the respective mutations and their relationship to the structure of the enzyme molecule are discussed.
- Published
- 2017
92. 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
93. Scientific Papers by Developmental Biologists in Japan
- Author
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Tsutomu Nohno and Hideyo Ohuchi
- Subjects
Cell Biology ,Molecular Biology ,Developmental Biology - Abstract
We have assembled ten interesting manuscripts submitted by developmental biologists in Japan [...]
- Published
- 2023
94. A novel paper-based lysis strip for SARS-CoV-2 RNA detection at low resource settings
- Author
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Songhyun Lee, SeJin Kim, and Sanghyo Kim
- Subjects
Biophysics ,Cell Biology ,Molecular Biology ,Biochemistry - Published
- 2023
95. Redesigning the Workflow Process to Upload Paper Consents into the Electronic Health Record
- Author
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Nancy Tang, Christopher Bourne, Pam Kostaras, Daniel Surette, Kaitlen Reyes, Bethany King, Kimberly Craig, Linda Ramsdell, and Julie Porter
- Subjects
Transplantation ,Molecular Medicine ,Immunology and Allergy ,Cell Biology ,Hematology - Published
- 2023
96. Where do we aspire to publish? A position paper on scientific communication in biochemistry and molecular biology
- Author
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Alicia J. Kowaltowski, Fabio Luis Forti, Roberto Kopke Salinas, S C Farah, Nicolas C. Hoch, Ricardo J. Giordano, Ohara Augusto, Glaucia Mendes Souza, A. M. Da-Silva, P. Di Mascio, Cypreste Oliveira, Walter R. Terra, Sayuri Miyamoto, Claudiana Lameu, M. J. M. Alves, Daniela S. Basseres, Alexandre Bruni-Cardoso, Sandro R. Marana, Hugo A. Armelin, Hernan Chaimovich, João C. Setubal, Deborah Schechtman, Marisa Helena Gennari de Medeiros, Sergio Verjovski-Almeida, Eduardo M. Reis, Maria Teresa Machini, Suely Lopes Gomes, Shirley Schreier, F J Gueiros Filho, Henning Ulrich, Bettina Malnic, Walter Colli, Mari Cleide Sogayar, P. Colepicolo Neto, Carlos Takeshi Hotta, Graziella E. Ronsein, Mauricio S. Baptista, Iolanda M. Cuccovia, Daniela R. Truzzi, Leticia Labriola, Flavia Vischi Winck, Carmen Veríssima Ferreira, Guilherme Menegon Arantes, Flavia Carla Meotti, Bianca Zingales, Regina L. Baldini, Nadja C. de Souza-Pinto, and Etelvino J. H. Bechara
- Subjects
0301 basic medicine ,Physiology ,media_common.quotation_subject ,Immunology ,Biophysics ,MEDLINE ,Ocean Engineering ,Biochemistry ,03 medical and health sciences ,Presentation ,0302 clinical medicine ,Political science ,PRÉ-IMPRESSOS ,Humans ,General Pharmacology, Toxicology and Pharmaceutics ,Composition (language) ,Publication ,lcsh:QH301-705.5 ,Molecular Biology ,media_common ,Publishing ,lcsh:R5-920 ,business.industry ,General Neuroscience ,Research ,Subject (documents) ,Cell Biology ,General Medicine ,Concepts and Comments ,Scientific journals ,Open access ,Molecular biology ,030104 developmental biology ,Scientific editing ,lcsh:Biology (General) ,030220 oncology & carcinogenesis ,Pre-prints ,Position paper ,Periodicals as Topic ,business ,lcsh:Medicine (General) ,Scientific communication ,Brazil - Abstract
The scientific publication landscape is changing quickly, with an enormous increase in options and models. Articles can be published in a complex variety of journals that differ in their presentation format (online-only or in-print), editorial organizations that maintain them (commercial and/or society-based), editorial handling (academic or professional editors), editorial board composition (academic or professional), payment options to cover editorial costs (open access or pay-to-read), indexation, visibility, branding, and other aspects. Additionally, online submissions of non-revised versions of manuscripts prior to seeking publication in a peer-reviewed journal (a practice known as pre-printing) are a growing trend in biological sciences. In this changing landscape, researchers in biochemistry and molecular biology must re-think their priorities in terms of scientific output dissemination. The evaluation processes and institutional funding for scientific publications should also be revised accordingly. This article presents the results of discussions within the Department of Biochemistry, University of Sao Paulo, on this subject.
- Published
- 2019
97. 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
-
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
98. Biosynthesis of silver nanoparticles from the nests of the paper wasp, ropalidia marginata and the mud wasp, sceliphron caementarium and their antimicrobial activities
- Author
-
Susheela P, Radha R, and Rosaline Mary
- Subjects
Paper wasp ,Sceliphron caementarium ,biology ,Botany ,Cell Biology ,biology.organism_classification ,Antimicrobial ,Molecular Biology ,Biochemistry ,Silver nanoparticle ,Ropalidia marginata ,Biotechnology - Published
- 2018
99. Letter to editor: Authorship of biomedical science papers
- Author
-
Marshall A. Lichtman
- Subjects
Biomedical Research ,Molecular Medicine ,Humans ,Cell Biology ,Hematology ,Molecular Biology ,Authorship - Published
- 2022
100. Ink-jet-printed CuO nanoparticle-enhanced miniaturized paper-based electrochemical platform for hypochlorite sensing
- Author
-
Ashirwad Ray, Jaligam Murali Mohan, Khairunnisa Amreen, Satish Kumar Dubey, Arshad Javed, R. N. Ponnalagu, and Sanket Goel
- Subjects
Materials Science (miscellaneous) ,Cell Biology ,Electrical and Electronic Engineering ,Physical and Theoretical Chemistry ,Atomic and Molecular Physics, and Optics ,Biotechnology - Published
- 2022
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