138 results on '"Sahni G"'
Search Results
2. Design optimization of metal inert gas welding parameters for recuperating an ultimate tensile strength of AISI SS304 using L9 Taguchi orthogonal array
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Sharma, S., primary, Singh, G., additional, Jayarambabu, N., additional, and Sahni, G., additional
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- 2019
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3. Impact of Geographic Range on Genetic and Chemical Diversity of Indian Valerian (Valeriana jatamansi) from Northwestern Himalaya
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Sundaresan, V., Sahni, G., Verma, R. S., Padalia, R. C., Mehrotra, S., and Thul, Sanjog T.
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- 2012
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4. PDBe: Protein Data Bank in Europe
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Velankar, S., Alhroub, Y., Best, C., Caboche, S., Conroy, M. J., Dana, J. M., Fernandez Montecelo, M. A., van Ginkel, G., Golovin, A., Gore, S. P., Gutmanas, A., Haslam, P., Hendrickx, P. M. S., Heuson, E., Hirshberg, M., John, M., Lagerstedt, I., Mir, S., Newman, L. E., Oldfield, T. J., Patwardhan, A., Rinaldi, L., Sahni, G., Sanz-García, E., Sen, S., Slowley, R., Suarez-Uruena, A., Swaminathan, G. J., Symmons, M. F., Vranken, W. F., Wainwright, M., and Kleywegt, G. J.
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- 2012
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5. PDBe: Protein Data Bank in Europe
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Velankar, S., Best, C., Beuth, B., Boutselakis, C. H., Cobley, N., Sousa Da Silva, A. W., Dimitropoulos, D., Golovin, A., Hirshberg, M., John, M., Krissinel, E. B., Newman, R., Oldfield, T., Pajon, A., Penkett, C. J., Pineda-Castillo, J., Sahni, G., Sen, S., Slowley, R., Suarez-Uruena, A., Swaminathan, J., van Ginkel, G., Vranken, W. F., Henrick, K., and Kleywegt, G. J.
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- 2010
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6. Crystal structure of a novel Halo-Tolerant Cellulase from Soil Metagenome
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Garg, R., primary, Brahma, V., additional, Srivastava, R., additional, Verma, L., additional, Karthikeyan, S., additional, and Sahni, G., additional
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- 2017
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7. PDBe: Protein Data Bank in Europe
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Velankar, S, Alhroub, Y, Best, C, Caboche, S, Conroy, M, Dana, J, Fernandez Montecelo, M, Van Ginkel, G, Golovin, A, Gore, S, Gutmanas, A, Haslam, P, Hendrickx, P, Heuson, E, Hirshberg, M, John, M, Lagerstedt, I, Mir, S, Newman, L, Oldfield, T, Patwardhan, A, Rinaldi, L, Sahni, G, Sanz-Garcia, E, Sen, S, Slowley, R, Suarez-Uruena, A, Swaminathan, G, Symmons, M, Vranken, W, Wainwright, M, Kleywegt, G, European Bioinformatics Institute [Hinxton] (EMBL-EBI), EMBL Heidelberg, and Department of Bio-engineering Sciences
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Models, Molecular ,PDB ,0303 health sciences ,Protein Conformation ,030302 biochemistry & molecular biology ,Proteins ,Articles ,[SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM] ,03 medical and health sciences ,[SDV.BBM.BS]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Biomolecules [q-bio.BM] ,Sequence Analysis, Protein ,Computer Graphics ,Genetics ,protein structure ,Databases, Protein ,Nuclear Magnetic Resonance, Biomolecular ,Nucleic acid structure ,Software ,030304 developmental biology - Abstract
The Protein Data Bank in Europe (PDBe; pdbe.org) is actively involved in managing the international archive of biomacromolecular structure data as one of the partners in the Worldwide Protein Data Bank (wwPDB; wwpdb.org). PDBe also develops new tools to make structural data more widely and more easily available to the biomedical community. PDBe has developed a browser to access and analyze the structural archive using classification systems that are familiar to chemists and biologists. The PDBe web pages that describe individual PDB entries have been enhanced through the introduc- tion of plain-English summary pages and iconic rep- resentations of the contents of an entry (PDBprints). In addition, the information available for structures determined by means of NMR spectroscopy has been expanded. Finally, the entire web site has been redesigned to make it substantially easier to use for expert and novice users alike. PDBe works closely with other teams at the European Bioinformatics Institute (EBI) and in the international scientific community to develop new resources with value-added information. The SIFTS initiative is an example of such a collaboration--it provides exten- sive mapping data between proteins whose struc- tures are available from the PDB and a host of other biomedical databases. SIFTS is widely used by major bioinformatics resources.
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- 2011
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8. Small molecule annotation for the Protein Data Bank
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Sen, S., primary, Young, J., additional, Berrisford, J. M., additional, Chen, M., additional, Conroy, M. J., additional, Dutta, S., additional, Di Costanzo, L., additional, Gao, G., additional, Ghosh, S., additional, Hudson, B. P., additional, Igarashi, R., additional, Kengaku, Y., additional, Liang, Y., additional, Peisach, E., additional, Persikova, I., additional, Mukhopadhyay, A., additional, Narayanan, B. C., additional, Sahni, G., additional, Sato, J., additional, Sekharan, M., additional, Shao, C., additional, Tan, L., additional, and Zhuravleva, M. A., additional
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- 2014
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9. Large interventricular septal aneurysm with thrombo-embolism in a healthy woman
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Sy, A., primary and Sahni, G., additional
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- 2011
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10. EMDataBank.org: unified data resource for CryoEM
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Lawson, C. L., primary, Baker, M. L., additional, Best, C., additional, Bi, C., additional, Dougherty, M., additional, Feng, P., additional, van Ginkel, G., additional, Devkota, B., additional, Lagerstedt, I., additional, Ludtke, S. J., additional, Newman, R. H., additional, Oldfield, T. J., additional, Rees, I., additional, Sahni, G., additional, Sala, R., additional, Velankar, S., additional, Warren, J., additional, Westbrook, J. D., additional, Henrick, K., additional, Kleywegt, G. J., additional, Berman, H. M., additional, and Chiu, W., additional
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- 2010
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11. PDBe: Protein Data Bank in Europe
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Velankar, S., primary, Best, C., additional, Beuth, B., additional, Boutselakis, C. H., additional, Cobley, N., additional, Sousa Da Silva, A. W., additional, Dimitropoulos, D., additional, Golovin, A., additional, Hirshberg, M., additional, John, M., additional, Krissinel, E. B., additional, Newman, R., additional, Oldfield, T., additional, Pajon, A., additional, Penkett, C. J., additional, Pineda-Castillo, J., additional, Sahni, G., additional, Sen, S., additional, Slowley, R., additional, Suarez-Uruena, A., additional, Swaminathan, J., additional, van Ginkel, G., additional, Vranken, W. F., additional, Henrick, K., additional, and Kleywegt, G. J., additional
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- 2009
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12. Antiserum Against Inhibin: Effect of Inhibin and Anti-Inhibin Serum on the Fertility and Compensatory Gonadal Hypertrophy in Rats
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SAHNI, G., primary and DASGUPTA, P.R., additional
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- 2009
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13. Crystal structure of an immunogen specific anti-mannopyranoside monoclonal antibody Fab fragment
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Krishnan, L., primary, Sahni, G., additional, Kaur, K.J., additional, and Salunke, D.M., additional
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- 2008
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14. Autodep 4.1: a web-based deposition and archival system
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Sen, S., primary, Van Ginkel, G., additional, Kapopoulou, A., additional, Sahni, G., additional, Swaminathan, G. J., additional, Newman, R. H., additional, Velankar, S., additional, and Henrick, K., additional
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- 2007
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15. Studies on the response of the TLD badge for high-energy photons
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Kumar, M., primary, Kher, R. K., additional, Sahni, G., additional, and Chhokra, K., additional
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- 2007
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16. CLONING, CHARACTERIZATION, AND EXPRESSION STUDIES INESCHERICHIA COLIOF GROWTH HORMONE cDNAs FROM INDIAN ZEBU CATTLE, REVERINE BUFFALO, AND BEETAL GOAT
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Mukhopadhyay, U. K., primary and Sahni, G., additional
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- 2002
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17. Streptokinase: Direct evidence for β-domain's role in substrate PG interaction
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Vasudha, S., primary, Choudhary, A., additional, Komath, S. S., additional, Rajagopal, K., additional, Garg, N., additional, Yadav, M., additional, Mande, S., additional, and Sahni, G., additional
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- 2000
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18. Streptokinase Contains Two Independent Plasminogen-Binding Sites
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Nihalani, D., primary and Sahni, G., additional
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- 1995
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19. STUDIES ON THE RESPONSE OF THE TLD BADGE FOR HIGH-ENERGY PHOTONS.
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Kumar, Munish, Kher, R. K., Sahni, G., and Chhokra, Kanta
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THERMOLUMINESCENCE dosimetry ,PHOTONS ,PHOTON beams ,RADIOTHERAPY ,PROTON accelerators ,IONIZATION chambers - Abstract
Absorbed tissue dose measurements are carried out for high-energy photon beams using CaSO4:Dy thermo-luminescence dosemeter (TLD) badge and the results are also verified using ionisation chamber used in radiation therapy. The photon beams generated using linear accelerator at 6 and 18 MV photon beam energies have been used and the absorbed doses are measured at the surface as well as at various depths. It has been found that the depth at which maximum dose is delivered increases with the increase in photon energy and the depth of maximum absorbed dose in tissue occurs beyond 10 mm. It has also been found that the evaluation of the absorbed dose (or Hp(10) as well) using thermoluminescence readout of disc D1 clearly shows that the current TLD badge provides a reasonable estimate of the effective dose for photon fields from 6 to 18 MV linacs for anterior-posterior incidence. The paper also provides information regarding the misinterpretation of radiation pattern in multi-element/filter TLD badge. [ABSTRACT FROM AUTHOR]
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- 2008
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20. CLONING, CHARACTERIZATION, AND EXPRESSION STUDIES IN ESCHERICHIA COLI OF GROWTH HORMONE cDNAs FROM INDIAN ZEBU CATTLE, REVERINE BUFFALO, AND BEETAL GOAT.
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Mukhopadhyay, U.K. and Sahni, G.
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BACTERIAL genetics , *ESCHERICHIA coli , *CIRCULAR DNA , *BOVINE somatotropin - Abstract
The growth hormone cDNAs from three different economically important animal species of indian origin viz., indian zebu cattle (Bos indicus), indian reverine buffalo (Bubalus bubalis), and beetal goat (Capra hircus) were isolated by the RT-PCR technique. The amplified product was then cloned into phagemid pBluescriptIIKS[sup -] and the nucleotide sequence of the entire 573 base coding region for each product was determined. The genetic sequences as well as the translated protein sequence of these ruminant species were compared to that of closely related species like taurine cattle (Bos taurus) and sheep (Ovis aries). A very high degree of nucleotide sequence homology, ranging between 97-98%, was observed. Subsequently, the buffalo and goat cDNAs were used for expression studies in Escherichia coli. Very low levels of expression resulted when the growth hormone cDNAs were directly placed under the strong E. coli (trc) or phage (T7) promoters with the approximate level being less than 0.1% and 1% of the intracellular E. coli proteins, respectively. The nearly 10-fold enhancement of the level of expression as observed was attributable to the nature of the untranslated leader sequence donated by the individual expression element. High level (about 20% of soluble E. coli protein) expression of buffalo/goat growth hormone was achieved as a fusion protein with glutathione-s-transferase (GST) in pGEX-KT. Further, although attempts at converting the GST-GH fusion protein system to a two-cistronic gene expression system were unsuccessful, the utilization of a short synthetic first cistron in the two-cistronic mode of expression resulted in high levels (approximately 30% of soluble protein cell fraction) of GH polypeptide with a native N-terminus in E. coli for all three cDNAs. [ABSTRACT FROM AUTHOR]
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- 2002
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21. Production of phenyl acetyl carbinol by yeasts.
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Gupta, K. G., Singh, Jasbir, Sahni, G., and Dhawan, S.
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- 1979
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22. Purification and characterization of novel toxin produced by Vibrio cholerae O1.
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Walia, K, Ghosh, S, Singh, H, Nair, G B, Ghosh, A, Sahni, G, Vohra, H, and Ganguly, N K
- Abstract
Vibrio cholerae WO7 (serogroup O1) isolated from patients with diarrhea produces an extracellular toxin despite the absence of ctx, zot, and ace genes from its genome. The toxin elongates Chinese hamster ovary cells, produces fluid accumulation in ligated rabbit ileal loops, and agglutinates freshly isolated rabbit erythrocytes. Maximal production of this toxin (WO7 toxin) was seen in AKI medium with the pH adjusted to 8.5 at 37 degrees C under shaking conditions. We purified this toxin to homogeneity by sequential ammonium sulfate precipitation, affinity chromatography using a fetuin-Sepharose CL-4B column, and gel filtration chromatography, which increased the specific activity of the toxin by 1.6 x 10(6)-fold. The toxin is heat labile and sensitive to proteases and has a subunit structure consisting of two subunits with molecular masses of about 58 and 40 kDa as estimated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis. Agglutination of GM1-coated sheep erythrocytes by toxin suggests that GM1 might be the physiologic receptor for WO7 toxin on the enterocytes. An immunodiffusion test between the antiserum raised against the purified WO7 toxin and the purified toxin gave a well-defined precipitation band. In the immunoblot assay, two bands were observed in the 58- and 40-kDa region. At the same time, antiserum against WO7 toxin failed to show any cross-reactivity with cholera toxin or Escherichia coli heat-labile toxin (LT1) in an immunodiffusion test or immunoblot assay. The enterotoxic activity of WO7 toxin could be inhibited by antiserum against purified WO7 toxin. Our results indicate that WO7 toxin is structurally and functionally distinct from other cholera toxins and that the enterotoxic activities expressed by WO7 toxin appear to contribute to the pathogenesis of disease associated with V. cholerae O1 strains.
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- 1999
23. Mechanism of interferon action. Expression of vesicular stomatitis virus G gene in transfected COS cells is inhibited by interferon at the level of protein synthesis.
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Sahni, G and Samuel, C E
- Abstract
The effect of interferon on the expression of the vesicular stomatitis virus glycoprotein G gene was examined in simian COS cells transfected with the expression vector pSVGL containing the G gene under the control of the SV40 late promoter. When COS cells were treated with interferon 24 h after transfection, the synthesis of vesicular stomatitis virus G protein was inhibited by about 80% as compared to that in untreated controls. By contrast, under the same conditions, neither the plasmid copy number nor the G gene mRNA levels were detectably affected by interferon treatment. Likewise, the synthesis of simian virus 40 large T-antigen was not inhibited by interferon treatment of transfected COS cells even though the synthesis of vesicular stomatitis virus G protein was markedly inhibited. The residual G protein synthesized in transfected, interferon-treated COS cells appeared to be normally glycosylated.
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- 1986
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24. A microtitration procedure for quantitative determination of staphylocoagulase using fibrinogen-coated red blood cells
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Sahni, G., primary, Tiwari, R., additional, Kaur, Daljit, additional, Seiffge, D., additional, and Gupta, K. G., additional
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- 1981
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25. Electrocardiographic features of immune checkpoint inhibitor associated myocarditis
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Justine V. Cohen, Dahlia Banerji, Anant Mandawat, Syed S. Mahmood, Maeve Jones-O'Connor, Malek Z.O. Hassan, Eric H. Yang, Alexander R. Lyon, Franck Thuny, Carlo G. Tocchetti, Brian J. Forrestal, Sarju Ganatra, Ryan J. Sullivan, Carol L. Chen, Lili Zhang, Michael G. Fradley, Eduardo Zatarain-Nicolás, Daniel A. Zlotoff, Merna Armanious, Sean P. Murphy, Magid Awadalla, Dipti Gupta, Gagan Sahni, Paaladinesh Thavendiranathan, Sarah Hartmann, Hannah K Gilman, Raza M. Alvi, Leyre Zubiri, Kerry L. Reynolds, Muhammad A. Rizvi, Lucie Heinzerling, Ana Barac, Otavio R. Coelho-Filho, John D. Groarke, Michael Mahmoudi, Amna Zafar, Michael C. Kirchberger, Stéphane Ederhy, Tomas G. Neilan, Anju Nohria, Zlotoff, D. A., Hassan, M. Z. O., Zafar, A., Alvi, R. M., Awadalla, M., Mahmood, S. S., Zhang, L., Chen, C. L., Ederhy, S., Barac, A., Banerji, D., Jones-O'connor, M., Murphy, S. P., Armanious, M., Forrestal, B. J., Kirchberger, M. C., Coelho-Filho, O. R., Rizvi, M. A., Sahni, G., Mandawat, A., Tocchetti, C. G., Hartmann, S., Gilman, H. K., Zatarain-Nicolas, E., Mahmoudi, M., Gupta, D., Sullivan, R., Ganatra, S., Yang, E. H., Heinzerling, L. M., Thuny, F., Zubiri, L., Reynolds, K. L., Cohen, J. V., Lyon, A. R., Groarke, J., Thavendiranathan, P., Nohria, A., Fradley, M. G., Neilan, T. G., Centre recherche en CardioVasculaire et Nutrition = Center for CardioVascular and Nutrition research (C2VN), and Aix Marseille Université (AMU)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)
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Male ,Cancer Research ,immune tolerance ,Time Factors ,[SDV]Life Sciences [q-bio] ,Immune checkpoint inhibitors ,Action Potentials ,030204 cardiovascular system & hematology ,Electrocardiography ,0302 clinical medicine ,Heart Rate ,Risk Factors ,Multiple time ,Immunology and Allergy ,Registries ,Immune Checkpoint Inhibitors ,RC254-282 ,Aged, 80 and over ,Clinical/Translational Cancer Immunotherapy ,autoimmunity ,Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,Middle Aged ,Myocarditis ,Oncology ,030220 oncology & carcinogenesis ,Cardiology ,Molecular Medicine ,Female ,immunotherapy ,medicine.medical_specialty ,Immunology ,QT interval ,Risk Assessment ,03 medical and health sciences ,QRS complex ,Heart Conduction System ,Predictive Value of Tests ,Internal medicine ,medicine ,Humans ,cardiovascular diseases ,Aged ,Retrospective Studies ,Pharmacology ,business.industry ,medicine.disease ,inflammation ,self tolerance ,Complication ,business ,Mace - Abstract
BackgroundMyocarditis is a highly morbid complication of immune checkpoint inhibitor (ICI) use that remains inadequately characterized. The QRS duration and the QTc interval are standardized electrocardiographic measures that are prolonged in other cardiac conditions; however, there are no data on their utility in ICI myocarditis.MethodsFrom an international registry, ECG parameters were compared between 140 myocarditis cases and 179 controls across multiple time points (pre-ICI, on ICI prior to myocarditis, and at the time of myocarditis). The association between ECG values and major adverse cardiac events (MACE) was also tested.ResultsBoth the QRS duration and QTc interval were similar between cases and controls prior to myocarditis. When compared with controls on an ICI (93±19 ms) or to baseline prior to myocarditis (97±19 ms), the QRS duration prolonged with myocarditis (110±22 ms, pConclusionsThe QRS duration is increased in ICI myocarditis and is associated with increased MACE risk. Use of this widely available ECG parameter may aid in ICI myocarditis diagnosis and risk-stratification.
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- 2021
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26. Major Adverse Cardiovascular Events and the Timing and Dose of Corticosteroids in Immune Checkpoint Inhibitor-Associated Myocarditis
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Eduardo Zatarain-Nicolás, Anant Mandawat, Muhammad A. Rizvi, Sarju Ganatra, Ana Barac, Justine V. Cohen, Michael G. Fradley, Brian J. Forrestal, Magid Awadalla, Lucie Heinzerling, Syed S. Mahmood, Lili Zhang, Leyre Zubiri, Alexander R. Lyon, Stéphane Ederhy, Gagan Sahni, Carol L. Chen, Maeve Jones-O'Connor, Malek Z.O. Hassan, Paaladinesh Thavendiranathan, Ryan J. Sullivan, Anju Nohria, Eric H. Yang, Adam Rokicki, Michael C. Kirchberger, Daniel A. Zlotoff, Dipti Gupta, Sean P. Murphy, Raza M. Alvi, Sachin P. Shah, Tomas G. Neilan, Kerry L. Reynolds, John D. Groarke, Michael Mahmoudi, Franck Thuny, Carlo G. Tocchetti, Zhang, L., Zlotoff, D. A., Awadalla, M., Mahmood, S. S., Nohria, A., Hassan, M. Z. O., Thuny, F., Zubiri, L., Chen, C. L., Sullivan, R. J., Alvi, R. M., Rokicki, A., Murphy, S. P., Jones-O'Connor, M., Heinzerling, L. M., Barac, A., Forrestal, B. J., Yang, E. H., Gupta, D., Kirchberger, M. C., Shah, S. P., Rizvi, M. A., Sahni, G., Mandawat, A., Mahmoudi, M., Ganatra, S., Ederhy, S., Zatarain-Nicolas, E., Groarke, J. D., Tocchetti, C. G., Lyon, A. R., Thavendiranathan, P., Cohen, J. V., Reynolds, K. L., Fradley, M. G., and Neilan, T. G.
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corticosteroid ,Myocarditis ,Dose-Response Relationship, Drug ,business.industry ,Immune checkpoint inhibitors ,030204 cardiovascular system & hematology ,medicine.disease ,Drug Administration Schedule ,Article ,03 medical and health sciences ,0302 clinical medicine ,Adrenal Cortex Hormones ,Cardiovascular Diseases ,Physiology (medical) ,Medicine ,Humans ,immunotherapy ,030212 general & internal medicine ,Registries ,Theology ,Cardiology and Cardiovascular Medicine ,business ,Immune Checkpoint Inhibitors ,Retrospective Studies - Abstract
Introduction: myocarditis is a potentially fatal complication of immune checkpoint inhibitors (ICI). While corticosteroids are the cornerstones of the treatment, there are no data to guide the dose and timing. Methods: from an international registry of patients with ICI myocarditis diagnosed between 2013 and 2019, data on the type, dose (in methylprednisolone equivalent dose) and timing of steroids were extracted. Major cardiovascular events (MACE) were a composite of cardiovascular death, cardiogenic shock, cardiac arrest, and hemodynamically-significant complete heart block. Results: in total, 143 ICI myocarditis patients (67±13 years old, 29% women) were included. Among them, 125 received corticosteroids (87%), with the initial agent being either methylprednisolone (95, 76%), prednisone (25, 20%), hydrocortisone (2, 1.6%) or dexamethasone (3, 2.4%). The rates of overall MACE (by admission time tertile 1: 45.8%, tertile 2: 43.8%, tertile 3: 38.3%, P=0.746) and individual elements of MACE were unchanged from 2013 to 2019. The initial corticosteroid dose was categorized as low (500mg). There was an inverse relationship between the occurrence of MACE and initial dose of corticosteroid, where MACE declined with increasing doses (low 61.9%, intermediate 54.6%, high 20.4%, P72 hours (85.7%, P
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- 2020
27. Worldwide Protein Data Bank biocuration supporting open access to high-quality 3D structural biology data
- Author
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Marina Zhuravleva, Raul Sala, Lora Mak, Stephen K. Burley, Monica Sekharan, Oliver S. Smart, Brian P. Hudson, Ardan Patwardhan, Gerard J. Kleywegt, Alice R. Clark, Guanghua Gao, Kumaran Baskaran, Sutapa Ghosh, David R. Armstrong, Kayoko Nishiyama, John M. Berrisford, Ezra Peisach, Abhik Mukhopadhyay, G. Jawahar Swaminathan, Huanwang Yang, Minyu Chen, Catherine L. Lawson, Thomas J. Oldfield, Junko Sato, Zukang Feng, Helen M. Berman, Yumiko Kengaku, Chenghua Shao, Glen van Ginkel, Irina Persikova, John L. Markley, Genji Kurisu, Yasuyo Ikegawa, Jasmine Young, Pieter M. S. Hendrickx, Luigi Di Costanzo, Aleksandras Gutmanas, John D. Westbrook, Reiko Igarashi, Buvaneswari Coimbatore Narayanan, Li Chen, Eduardo Sanz-García, Vladimir Guranovic, Yu-He Liang, Haruki Nakamura, Gaurav Sahni, Sameer Velankar, Sanchayita Sen, Lihua Tan, Swanand Gore, Dimitris Dimitropoulos, Young, J. Y., Westbrook, J. D., Feng, Z., Peisach, E., Persikova, I., Sala, R., Sen, S., Berrisford, J. M., Swaminathan, G. J., Oldfield, T. J., Gutmanas, A., Igarashi, R., Armstrong, D. R., Baskaran, K., Chen, L., Chen, M., Clark, A. R., DI COSTANZO, Luigi, Dimitropoulos, D., Gao, G., Ghosh, S., Gore, S., Guranovic, V., Hendrickx, P. M. S., Hudson, B. P., Ikegawa, Y., Kengaku, Y., Lawson, C. L., Liang, Y., Mak, L., Mukhopadhyay, A., Narayanan, B., Nishiyama, K., Patwardhan, A., Sahni, G., Sanz-Garcia, E., Sato, J., Sekharan, M. R., Shao, C., Smart, O. S., Tan, L., Van Ginkel, G., Yang, H., Zhuravleva, M. A., Markley, J. L., Nakamura, H., Kurisu, G., Kleywegt, G. J., Velankar, S., Berman, H. M., and Burley, S. K.
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0301 basic medicine ,Vocabulary ,Data curation ,Protein Conformation ,Extramural ,Computer science ,media_common.quotation_subject ,MEDLINE ,computer.file_format ,Protein Data Bank ,Data science ,General Biochemistry, Genetics and Molecular Biology ,03 medical and health sciences ,030104 developmental biology ,Vocabulary, Controlled ,Structural biology ,Original Article ,Quality (business) ,Databases, Protein ,General Agricultural and Biological Sciences ,computer ,Data Curation ,Information Systems ,media_common - Abstract
The Protein Data Bank (PDB) is the single global repository for experimentally determined 3D structures of biological macromolecules and their complexes with ligands. The worldwide PDB (wwPDB) is the international collaboration that manages the PDB archive according to the FAIR principles: Findability, Accessibility, Interoperability and Reusability. The wwPDB recently developed OneDep, a unified tool for deposition, validation and biocuration of structures of biological macromolecules. All data deposited to the PDB undergo critical review by wwPDB Biocurators. This article outlines the importance of biocuration for structural biology data deposited to the PDB and describes wwPDB biocuration processes and the role of expert Biocurators in sustaining a high-quality archive. Structural data submitted to the PDB are examined for self-consistency, standardized using controlled vocabularies, cross-referenced with other biological data resources and validated for scientific/technical accuracy. We illustrate how biocuration is integral to PDB data archiving, as it facilitates accurate, consistent and comprehensive representation of biological structure data, allowing efficient and effective usage by research scientists, educators, students and the curious public worldwide. Database URL: https://www.wwpdb.org/
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- 2018
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28. Small molecule annotation for the Protein Data Bank
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Brian P. Hudson, Gaurav Sahni, John M. Berrisford, Matthew J. Conroy, Abhik Mukhopadhyay, Ezra Peisach, Irina Persikova, Junko Sato, Sutapa Ghosh, Yumiko Kengaku, Yu-He Liang, Luigi Di Costanzo, Buvaneswari Coimbatore Narayanan, Monica Sekharan, Marina Zhuravleva, Sanchayita Sen, Lihua Tan, Shuchismita Dutta, Reiko Igarashi, Jasmine Young, Guanghua Gao, Chenghua Shao, Minyu Chen, Sen, S., Young, J., Berrisford, J. M., Chen, M., Conroy, M. J., Dutta, S., DI COSTANZO, Luigi, Gao, G., Ghosh, S., Hudson, B. P., Igarashi, R., Kengaku, Y., Liang, Y., Peisach, E., Persikova, I., Mukhopadhyay, A., Narayanan, B. C., Sahni, G., Sato, J., Sekharan, M., Shao, C., Tan, L., and Zhuravleva, M. A.
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Models, Molecular ,Computer science ,Protein Data Bank (RCSB PDB) ,Computational biology ,Ligands ,General Biochemistry, Genetics and Molecular Biology ,Small Molecule Libraries ,Molecule ,Data Mining ,Binding site ,Databases, Protein ,chemistry.chemical_classification ,Information retrieval ,Binding Sites ,Glycopeptides ,Reproducibility of Results ,computer.file_format ,Protein Data Bank ,Small molecule ,Amino acid ,Anti-Bacterial Agents ,Glucose ,chemistry ,Nucleic acid ,Original Article ,General Agricultural and Biological Sciences ,computer ,Databases, Chemical ,Information Systems ,Macromolecule - Abstract
The Protein Data Bank (PDB) is the single global repository for three-dimensional structures of biological macromolecules and their complexes, and its more than 100 000 structures contain more than 20 000 distinct ligands or small molecules bound to proteins and nucleic acids. Information about these small molecules and their interactions with proteins and nucleic acids is crucial for our understanding of biochemical processes and vital for structure-based drug design. Small molecules present in a deposited structure may be attached to a polymer or may occur as a separate, non-covalently linked ligand. During curation of a newly deposited structure by wwPDB annotation staff, each molecule is cross-referenced to the PDB Chemical Component Dictionary (CCD). If the molecule is new to the PDB, a dictionary description is created for it. The information about all small molecule components found in the PDB is distributed via the ftp archive as an external reference file. Small molecule annotation in the PDB also includes information about ligand-binding sites and about covalent and other linkages between ligands and macromolecules. During the remediation of the peptide-like antibiotics and inhibitors present in the PDB archive in 2011, it became clear that additional annotation was required for consistent representation of these molecules, which are quite often composed of several sequential subcomponents including modified amino acids and other chemical groups. The connectivity information of the modified amino acids is necessary for correct representation of these biologically interesting molecules. The combined information is made available via a new resource called the Biologically Interesting molecules Reference Dictionary, which is complementary to the CCD and is now routinely used for annotation of peptide-like antibiotics and inhibitors.
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- 2014
29. Cardiovascular Toxicity Associated With Androgen Receptor Axis-Targeted Agents in Patients With Prostate Cancer: A Meta-analysis of Randomized Controlled Trials.
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Zhou S, Alerasool P, Kishi N, Joshi H, Sahni G, and Tsao CK
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- Humans, Male, Cardiovascular Diseases chemically induced, Androgen Receptor Antagonists adverse effects, Androgen Receptor Antagonists therapeutic use, Androgen Receptor Antagonists administration & dosage, Receptors, Androgen metabolism, Phenylthiohydantoin adverse effects, Phenylthiohydantoin therapeutic use, Phenylthiohydantoin administration & dosage, Benzamides adverse effects, Clinical Trials, Phase III as Topic, Nitriles adverse effects, Thiohydantoins adverse effects, Thiohydantoins administration & dosage, Thiohydantoins therapeutic use, Androstenes adverse effects, Androstenes therapeutic use, Androstenes administration & dosage, Randomized Controlled Trials as Topic, Prostatic Neoplasms drug therapy
- Abstract
Introduction: Second-generation androgen receptor axis-targeting (ARAT) agents have become a standard treatment for patients with advanced prostate cancer (PC), however much remains unknown about the potential cardiovascular toxicities., Patients and Methods: We performed a systematic search of PubMed, Embase, Web of Science, and Cochrane library for randomized controlled trials of patients receiving ARAT agents for PC from inception to March 2023. The odds ratios (ORs) of all-grade and high-grade cardiovascular adverse events (CVAEs) for patients treated with and without ARAT agents were pooled for meta-analysis. Subgroup analyses based on PC type and treatment regimen were conducted., Results: A total of 15 double-blind placebo-controlled phase 3 trials comprising 15,842 patients were included. In addition to hot flush and hypertension of any degree of severity, inclusion of ARAT agents was associated with a significantly higher risk of acute myocardial infarction (OR: 1.96, 95% CI: 1.05-3.68, P = .04), myocardial infarction (OR: 2.44, 95% CI: 1.27-4.66, P = .007) and angina pectoris (OR: 2.00, 95% CI: 1.00-4.02, P = .05). With regard to individual ARAT agents, enzalutamide was associated with a significantly higher risk of acute myocardial infarction (OR: 3.11, 95% CI: 1.17-8.28, P = .02), coronary artery disease (OR: 8.33, 95% CI: 1.54-44.95, P = .01), and high-grade hypertension (OR: 4.94, 95% CI: 1.11-22.06, P = .04), while abiraterone and apalutamide were associated with a significantly higher risk of angina pectoris (OR: 5.48, 95% CI: 1.23-24.33, P = .03) and myocardial infarction (OR: 7.00, 95% CI: 1.60-30.62, P = .01), respectively., Conclusion: The inclusion of ARAT agents was associated with a significantly higher risk of several CVAEs. Clinicians should remain vigilant, both in pre-treatment screening and monitoring for clinical symptoms and signs, when considering ARAT agent particularly for patients with pre-existing risk factors., Competing Interests: Disclosure None of the authors disclose any potential conflicts of interest., (Copyright © 2024 Elsevier Inc. All rights reserved.)
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- 2024
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30. Onco-Hypertension: Changing Paradigm of Treating Hypertension in Patients With Cancer.
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Sahni G
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- Humans, Vascular Endothelial Growth Factor A, Cisplatin, Carcinoma, Renal Cell, Kidney Neoplasms, Hypertension
- Abstract
The Oncology Grand Rounds series is designed to place original reports published in the Journal into clinical context. A case presentation is followed by a description of diagnostic and management challenges, a review of the relevant literature, and a summary of the authors' suggested management approaches. The goal of this series is to help readers better understand how to apply the results of key studies, including those published in Journal of Clinical Oncology , to patients seen in their own clinical practice. Hypertension (HTN) in patients with cancer remains an underestimated yet complex clinical conundrum to merit its own marker of Onco-Hypertension. A myriad of antineoplastic drugs from vascular endothelial growth factor (VEGF) inhibitor antibodies such as bevacizumab, tyrosine kinase inhibitors (TKIs), cisplatin, and carfilzomib cause new or worsening HTN, and HTN is also a risk factor for certain cancers such as renal cell carcinoma. Untreated HTN before and during cancer treatment potentially increases the short-term and long-term risk of cardiotoxicity, such as heart failure, and affects both cancer and cardiovascular mortality. However, efficient and early management of HTN in patients with cancer is often challenging because of multiple drug interactions, noncompliance, and intolerance of medications because of the side effects of cancer treatments, labile nature of HTN, use of non-neoplastic drugs such as steroids and erythropoietin, and pharmacogenetic interactions between cancer treatment and HTN-related genes. The Oncology Grand Rounds aim to examine the bidirectional association and challenges of managing HTN in patients with cancer and the necessity for precision medicine to manage it.
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- 2023
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31. The ESC Cardio-Oncology Guidelines: A Roadmap for Clinical Practice and Generating Needed Evidence.
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Sparano JA and Sahni G
- Abstract
Competing Interests: This work was supported in part by grants from the Department of Health and Human Services and the National Institutes of Health, National Cancer Institute (P30CA196521). Dr Sparano has served as a paid consultant for AstraZeneca, Roche, and Seagen. Dr. Sahni has reported that she has no relationships relevant to the contents of this paper to disclose.
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- 2022
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32. Global Circumferential and Radial Strain Among Patients With Immune Checkpoint Inhibitor Myocarditis.
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Quinaglia T, Gongora C, Awadalla M, Hassan MZO, Zafar A, Drobni ZD, Mahmood SS, Zhang L, Coelho-Filho OR, Suero-Abreu GA, Rizvi MA, Sahni G, Mandawat A, Zatarain-Nicolás E, Mahmoudi M, Sullivan R, Ganatra S, Heinzerling LM, Thuny F, Ederhy S, Gilman HK, Sama S, Nikolaidou S, Mansilla AG, Calles A, Cabral M, Fernández-Avilés F, Gavira JJ, González NS, García de Yébenes Castro M, Barac A, Afilalo J, Zlotoff DA, Zubiri L, Reynolds KL, Devereux R, Hung J, Picard MH, Yang EH, Gupta D, Michel C, Lyon AR, Chen CL, Nohria A, Fradley MG, Thavendiranathan P, and Neilan TG
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- Humans, Male, Middle Aged, Aged, Aged, 80 and over, Stroke Volume, Ventricular Function, Left, Immune Checkpoint Inhibitors, Retrospective Studies, Predictive Value of Tests, Troponin T, Myocarditis chemically induced, Myocarditis diagnostic imaging, Myocarditis complications
- Abstract
Background: Global circumferential strain (GCS) and global radial strain (GRS) are reduced with cytotoxic chemotherapy. There are limited data on the effect of immune checkpoint inhibitor (ICI) myocarditis on GCS and GRS., Objectives: This study aimed to detail the role of GCS and GRS in ICI myocarditis., Methods: In this retrospective study, GCS and GRS from 75 cases of patients with ICI myocarditis and 50 ICI-treated patients without myocarditis (controls) were compared. Pre-ICI GCS and GRS were available for 12 cases and 50 controls. Measurements were performed in a core laboratory blinded to group and time. Major adverse cardiovascular events (MACEs) were defined as a composite of cardiogenic shock, cardiac arrest, complete heart block, and cardiac death., Results: Cases and controls were similar in age (66 ± 15 years vs 63 ± 12 years; P = 0.20), sex (male: 73% vs 61%; P = 0.20) and cancer type (P = 0.08). Pre-ICI GCS and GRS were also similar (GCS: 22.6% ± 3.4% vs 23.5% ± 3.8%; P = 0.14; GRS: 45.5% ± 6.2% vs 43.6% ± 8.8%; P = 0.24). Overall, 56% (n = 42) of patients with myocarditis presented with preserved left ventricular ejection fraction (LVEF). GCS and GRS were lower in myocarditis compared with on-ICI controls (GCS: 17.5% ± 4.2% vs 23.6% ± 3.0%; P < 0.001; GRS: 28.6% ± 6.7% vs 47.0% ± 7.4%; P < 0.001). Over a median follow-up of 30 days, 28 cardiovascular events occurred. A GCS (HR: 4.9 [95% CI: 1.6-15.0]; P = 0.005) and GRS (HR: 3.9 [95% CI: 1.4-10.8]; P = 0.008) below the median was associated with an increased event rate. In receiver-operating characteristic (ROC) curves, GCS (AUC: 0.80 [95% CI: 0.70-0.91]) and GRS (AUC: 0.76 [95% CI: 0.64-0.88]) showed better performance than cardiac troponin T (cTnT) (AUC: 0.70 [95% CI: 0.58-0.82]), LVEF (AUC: 0.69 [95% CI: 0.56-0.81]), and age (AUC: 0.54 [95% CI: 0.40-0.68]). Net reclassification index and integrated discrimination improvement demonstrated incremental prognostic utility of GRS over LVEF (P = 0.04) and GCS over cTnT (P = 0.002)., Conclusions: GCS and GRS are lower in ICI myocarditis, and the magnitude of reduction has prognostic significance., Competing Interests: Funding Support and Author Disclosures This work was supported by the National Institutes of Health (P30CA008748 to DG and CLC; R01HL137562, R01HL130539; and T32HL007208-39 to DAZ). Dr Mahmood has received consultancy fees from Health and Wellness Partners, OMR Globus, Alpha Detail, and Opinion Research Team. Dr Zhang is consultant for MERCK. Dr Sullivan has served as a consultant for Merck and Novartis. Dr Heinzerling has received consultancy, advisory board, and speaker fees from Merck Sharp & Dohme, BMS, Roche, Novartis, Amgen, Sun Pharma, Pierre Fabre, and CureVac. Dr Gavira has received research support from Amgen. Dr Zubiri has served as a consultant to Merck and is supported by a SEOM (Sociedad Española de Oncología Médica) grant. Dr Yang has received research funding from CSL Behring. Dr Nohria has received research support from Amgen and has been a consultant for Takeda Oncology, Boehringer Ingelheim, and AstraZeneca; and he has received support from the Catherine Geoff Fitch fund and Gelb Master Clinician Fund. Dr Fradley has received consulting fees from AstraZeneca and Abbott and has received a research grant from Medtronic. Dr Neilan is supported by a gift from A. Curt Greer and Pamela Kohlberg and from Christina and Paul Kazilionis, the Michael and Kathryn Park Endowed Chair in Cardiology, and a Hassenfeld Scholar Award; has received advisory fees from AbbVie, Amgen, C4 Therapeutics, H3-Biomedicine, Genentech, Roche, BMS, and Intrinsic Imaging; has received grant funding from AstraZeneca; and he is also supported by grants from the National Institutes of Health/National Heart, Lung, and Blood Institute (R01HL130539, R01HL137562, K24HL150238). All other authors have reported that they have no relationships relevant to the contents of this paper to disclose., (Copyright © 2022 American College of Cardiology Foundation. All rights reserved.)
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- 2022
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33. A High-Throughput Platform for Culture and 3D Imaging of Organoids.
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Grenci G, Dilasser F, Mohamad Raffi SB, Marchand M, Suryana M, Sahni G, Viasnoff V, and Beghin A
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- Microscopy, Organoids diagnostic imaging, Imaging, Three-Dimensional methods
- Abstract
The characterization of a large number of three-dimensional (3D) organotypic cultures (organoids) at different resolution scales is currently limited by standard imaging approaches. This protocol describes a way to prepare microfabricated organoid culture chips, which enable multiscale, 3D live imaging on a user-friendly instrument requiring minimal manipulations and capable of up to 300 organoids/h imaging throughput. These culture chips are compatible with both air and immersion objectives (air, water, oil, and silicone) and a wide range of common microscopes (e.g., spinning disk, point scanner confocal, wide field, and brightfield). Moreover, they can be used with light-sheet modalities such as the single-objective, single-plane illumination microscopy (SPIM) technology (soSPIM). The protocol described here gives detailed steps for the preparation of the microfabricated culture chips and the culture and staining of organoids. Only a short length of time is required to become familiar with, and consumables and equipment can be easily found in normal biolabs. Here, the 3D imaging capabilities will be demonstrated only with commercial standard microscopes (e.g., spinning disk for 3D reconstruction and wide field microscopy for routine monitoring).
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- 2022
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34. Automated high-speed 3D imaging of organoid cultures with multi-scale phenotypic quantification.
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Beghin A, Grenci G, Sahni G, Guo S, Rajendiran H, Delaire T, Mohamad Raffi SB, Blanc D, de Mets R, Ong HT, Galindo X, Monet A, Acharya V, Racine V, Levet F, Galland R, Sibarita JB, and Viasnoff V
- Subjects
- Intestines, Imaging, Three-Dimensional, Organoids
- Abstract
Current imaging approaches limit the ability to perform multi-scale characterization of three-dimensional (3D) organotypic cultures (organoids) in large numbers. Here, we present an automated multi-scale 3D imaging platform synergizing high-density organoid cultures with rapid and live 3D single-objective light-sheet imaging. It is composed of disposable microfabricated organoid culture chips, termed JeWells, with embedded optical components and a laser beam-steering unit coupled to a commercial inverted microscope. It permits streamlining organoid culture and high-content 3D imaging on a single user-friendly instrument with minimal manipulations and a throughput of 300 organoids per hour. We demonstrate that the large number of 3D stacks that can be collected via our platform allows training deep learning-based algorithms to quantify morphogenetic organizations of organoids at multi-scales, ranging from the subcellular scale to the whole organoid level. We validated the versatility and robustness of our approach on intestine, hepatic, neuroectoderm organoids and oncospheres., (© 2022. The Author(s), under exclusive licence to Springer Nature America, Inc.)
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- 2022
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35. Gut microbiota and Autism Spectrum Disorder: From pathogenesis to potential therapeutic perspectives.
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Mehra A, Arora G, Sahni G, Kaur M, Singh H, Singh B, and Kaur S
- Abstract
Autism is a complex neurodevelopmental disorder which disrupts communication, social and interactive skills followed by appearance of repetitive behavior. The underlying etiology remains incomprehensible but genetic and environmental factors play a key role. Accumulated evidence shows that alteration in level of gut microbes and their metabolites are not only linked to gastrointestinal problems but also to autism. So far the mix of microbes that is present in the gut affects human health in numerous ways through extensive bacterial-mammalian cometabolism and has a marked influence over health via gut-brain-microbial interactions. Healthy microbiota may even ease the symptoms of autism, as microbial balance influences brain development through the neuroendocrine, neuroimmune, and autonomic nervous systems. In this article, we focused on reviewing the correlation between gut microbiota and their metabolites on symptoms of autism by utilizing prebiotics, probiotics and herbal remedies to target gut microflora hence autism., (© 2022 Center for Food and Biomolecules, National Taiwan University. Production and hosting by Elsevier Taiwan LLC.)
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- 2022
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36. Evaluation of Results of Ponseti Technique in Idiopathic Clubfoot using Clinical Evaluation and Radiological Assessment.
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Jain AK, Kohli N, Bansal N, Sahni G, Aggarwal HO, and Mathur M
- Abstract
Background: Congenital clubfoot (congenital talipes equinovarus) occurs in approximately one in 1000 live births and is one of the most common congenital birth defects. The Ponseti method is at present a well-established method of treatment for idiopathic clubfoot deformities., Aim: The aim of the present study was to evaluate the results of serial casting in clubfoot deformity with Ponseti method on the basis of Pirani's scoring and radiological findings before and after completion of treatment., Materials and Methods: A total of 30 patients were enrolled in the study and were treated with Ponseti's casting after grading the severity of deformity clinically by Pirani's scoring and radiological assessment by calculating the talo-first metatarsal angle in anteroposterior (AP) view and talocalcaneal angle in AP and lateral views. The same clinical and radiological assessment was done at the end of treatment before putting a patient on foot abduction orthosis (FAO)., Results: The average number of casts applied before full correction was 5.56 (range: 5-8). The average duration of treatment was about 6.65 weeks before the patient was put on FAO. Pirani score significantly improved from an average of 5.50 (range: 4-6) on presentation to 0.24 (range: 0-2) after correction of deformity., Conclusion: The Ponseti method is an excellent method for the correction of all four deformities associated with congenital idiopathic clubfoot, and we found that the addition of radiographic to clinical evaluation helps in the better assessment of correction. It provides statistically significant results both clinically as measured by Pirani severity score and radiologically assessed by talocalcaneal and talo-first metatarsal angle., Competing Interests: There are no conflicts of interest., (Copyright: © 2022 International Journal of Applied and Basic Medical Research.)
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- 2022
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37. Abundance and Diversity of Phages, Microbial Taxa, and Antibiotic Resistance Genes in the Sediments of the River Ganges Through Metagenomic Approach.
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Kumar N, Gupta AK, Sudan SK, Pal D, Randhawa V, Sahni G, Mayilraj S, and Kumar M
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- Anti-Bacterial Agents pharmacology, India, Metagenomics, Rivers microbiology, Bacteriophages genetics, Drug Resistance, Microbial genetics, Genes, Bacterial genetics, Genes, Viral genetics, Geologic Sediments microbiology, Microbiota genetics
- Abstract
In this study, we have analyzed the metagenomic DNA from the pooled sediment sample of the river Ganges to explore the abundance and diversity of phages, microbial community, and antibiotic resistance genes (ARGs). Utilizing data from Illumina platform, 4,174 (∼0.0013%) reads were classified for the 285 different DNA viruses largely dominated by the group of 260 distinctive phages (3,602 reads, ∼86.3%). Among all, Microcystis (782 hits), Haemophilus (403), Synechococcus (386), Pseudomonas (279), Enterococcus (232), Bacillus (196), Rhodococcus (166), Caulobacter (163), Salmonella (146), Enterobacteria (143), Mycobacterium and (128) phages show the highest abundance and account for ∼90% of the total identified phages. In addition, we have also identified corresponding host pertaining to these phages. Mainly, Proteobacteria (∼69.3%) dominates the microbial population structure. Primarily, orders such as Caulobacterales (∼28%), Burkholderiales (∼13.9%), Actinomycetales (∼13.7%), and Pseudomonadales (∼7.5%) signify the core section. Furthermore, 21,869 (∼0.00695%) reads were classified in 20 ARG types (classes) and 240 ARGs (subtypes), among which 4 ARG types, namely multidrug resistance (12,041 reads, ∼55%), bacitracin (3,202 reads, ∼15%), macrolide-lincosamide-streptogramin (1,744 reads, ∼7.98%), and fosmidomycin (990 reads, ∼4.53%), have the highest abundance. Simultaneously, six resistance mechanisms were also recognized with the dominance of antibiotic efflux (72.8%, 15,919 reads). The results unveil the distribution of (pro)-phages; microbial community; and various ARGs in the Ganges river sediments.
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- 2021
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38. To Analyze the Role of Intravenous Tranexamic Acid in Hip Fracture surgeries in Orthopedic Trauma.
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Sahni G, Sood M, Girdhar D, Sahni P, Jain AK, and Kumar S
- Abstract
Introduction: Hip fractures in orthopedic trauma cases are increasing. Majority of such patients undergoing surgery require blood transfusion of one or more units. Intravenous (I. V.) Tranexamic acid (TXA) may decrease loss of blood, decrease need of blood transfusion, and improve postoperative hemoglobin (Hb) along with lesser adverse effects. Risk of thromboembolic phenomena remains a concern. A study was done to analyze the role of I. V. TXA in hip fracture surgeries in trauma cases., Materials and Methods: Sixty patients were included in the study; in two groups (37 males and 23 females), Group A in which two doses of I. V. TXA 15 mg/kg were given and Group B in which two doses of I. V. placebo were given., Results: Total number of randomized hip arthroplasty cases was 22 (11 in Group A and 11 in Group B) whereas randomized osteosynthesis cases were 38 (19 in Group A and 19 in Group B). Mean preoperative Hb value in Group A was 10.8 gm% and in Group B was 10.7 gm% ( P > 0.005. Mean postoperative Hb value in Group A was Hb 9.8 gm% and in Group B 9.5 gm% (difference of 3.061%). Mean duration of surgery in Group A was 64.2 min and in Group B was 66.3 min. Mean total blood loss (intraoperative and postoperative) in Group A was 384.6 ml and in Group B was 448.7 ml (14.29% less in Group A). A total of 14 patients in Group A (17 red blood cells [RBCs] units) and 17 patients (21 RBC units) in Group B required RBC transfusion. No major vascular event, severe bacterial infections, symptomatic deep vein thrombosis, pulmonary embolism, limb ischemia, acute coronary syndrome, or immediate postoperative mortality was noted in either group., Conclusion: I. V. TXA has the potential to decrease risk of blood transfusion, decrease total blood loss, and to maintain a higher postoperative Hb value with no significant adverse reactions. As the number of cases of hip fractures continues to increase along with increase in age, so the use of TXA in such cases may improve clinical outcomes, lessen number of inpatient days and hence decrease overall cost., Competing Interests: There are no conflicts of interest., (Copyright: © 2021 International Journal of Applied and Basic Medical Research.)
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- 2021
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39. A Micropatterned Human-Specific Neuroepithelial Tissue for Modeling Gene and Drug-Induced Neurodevelopmental Defects.
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Sahni G, Chang SY, Teo JCM, Tan JZY, Fatien JJC, Bonnard C, Utami KH, Chan PW, Tan TT, Altunoglu U, Kayserili H, Pouladi M, Reversade B, and Toh YC
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- 2021
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40. Whole-Genome Sequence Data Analysis of Anoxybacillus kamchatkensis NASTPD13 Isolated from Hot Spring of Myagdi, Nepal.
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Yadav P, Sharma S, Bhattarai T, Sreerama L, Prasad GS, Sahni G, and Maharjan J
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- Amino Acid Sequence, Anoxybacillus enzymology, Anoxybacillus ultrastructure, Bacterial Proteins genetics, Bacterial Proteins metabolism, DNA, Circular genetics, Genome, Bacterial, Glycoside Hydrolases metabolism, Molecular Sequence Annotation, Nepal, Open Reading Frames genetics, Phylogeny, Xylose metabolism, Anoxybacillus genetics, Data Analysis, Hot Springs microbiology, Whole Genome Sequencing
- Abstract
Anoxybacillus kamchatkensis NASTPD13 isolated from Paudwar hot spring of Myagdi, Nepal, upon morphological and biochemical analysis revealed to be Gram-positive, straight or slightly curved, rod-shaped, spore-forming, catalase, and oxidase-positive facultative anaerobes. It grows over a wide range of pH (5.0-11) and temperature (37-75°C), which showed growth in different reduced carbon sources such as starch raffinose, glucose, fructose, inositol, trehalose, sorbitol, mellobiose, and mannitol in aerobic conditions. Furthermore, the partial sequence obtained upon sequencing showed 99% sequence similarity in 16S rRNA gene sequence with A. kamchatkensis JW/VK-KG4 and was suggested to be Anoxybacillus kamchatkensis . Moreover, whole-genome analysis of NASTPD13 revealed 2,866,796 bp genome with a G+C content of 41.6%. Analysis of the genome revealed the presence of 102 RNA genes, which includes sequences coding for 19 rRNA and 79 tRNA genes. While the 16S rRNA gene sequence of strain NASTPD13 showed high similarity (>99%) to those of A. kamchatkensis JW/VK-KG4, RAST analysis of NASTPD13 genome suggested that A. kamchatkensis G10 is actually the closest neighbor in terms of sequence similarity. The genome annotation by RAST revealed various genes encoding glycoside hydrolases supporting that it can utilize several reduced carbon sources as observed and these genes could be important for carbohydrate-related industries. Xylanase pathway, particularly the genomic region encoding key enzymes for xylan depolymerization and xylose metabolism, further confirmed the presence of the complete gene in xylan metabolism. In addition, the complete xylose utilization gene locus analysis of NASTPD13 genome revealed all including D-xylose transport ATP-binding protein XylG and XylF, the xylose isomerase encoding gene XylA, and the gene XylB coding for a xylulokinase supported the fact that the isolate contains a complete set of genes related to xylan degradation, pentose transport, and metabolism. The results of the present study suggest that the isolated A. kamchatkensis NASTPD13 containing xylanase-producing genes could be useful in lignocellulosic biomass-utilizing industries where pentose polymers could also be utilized along with the hexose polymers., Competing Interests: The authors declare no conflicts of interest., (Copyright © 2021 Punam Yadav et al.)
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- 2021
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41. FermFooDb: A database of bioactive peptides derived from fermented foods.
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Chaudhary A, Bhalla S, Patiyal S, Raghava GPS, and Sahni G
- Abstract
Globally fermented foods are in demands due to their functional and nutritional benefits. These foods are sources of probiotic organisms and bioactive peptides, various amino acids, enzymes etc. that provides numerous health benefits. FermFooDb (https://webs.iiitd.edu.in/raghava/fermfoodb/) is a manually curated database of bioactive peptides derived from wide range of foods that maintain comprehensive information about peptides and process of fermentation. This database comprises of 2205 entries with following major fields, peptide sequence, Mass and IC50, food source, functional activity, fermentation conditions, starter culture, testing conditions of sequences in vitro or in vivo , type of model and method of analysis. The bioactive peptides in our database have wide range of therapeutic potentials that includes antihypertensive, ACE-inhibitory, antioxidant, antimicrobial, immunomodulatory and cholesterol lowering peptides. These bioactive peptides were derived from different types of fermented foods that include milk, cheese, yogurt, wheat and rice. Numerous, web-based tools have been integrated to retrieve data, peptide mapping of proteins, similarity search and multiple-sequence alignment. This database will be useful for the food industry and researchers to explore full therapeutic potential of fermented foods from specific cultures., Competing Interests: The authors declare no conflict of interest., (© 2021 Published by Elsevier Ltd.)
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- 2021
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42. Myocardial T1 and T2 Mapping by Magnetic Resonance in Patients With Immune Checkpoint Inhibitor-Associated Myocarditis.
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Thavendiranathan P, Zhang L, Zafar A, Drobni ZD, Mahmood SS, Cabral M, Awadalla M, Nohria A, Zlotoff DA, Thuny F, Heinzerling LM, Barac A, Sullivan RJ, Chen CL, Gupta D, Kirchberger MC, Hartmann SE, Weinsaft JW, Gilman HK, Rizvi MA, Kovacina B, Michel C, Sahni G, González-Mansilla A, Calles A, Fernández-Avilés F, Mahmoudi M, Reynolds KL, Ganatra S, Gavira JJ, González NS, García de Yébenes Castro M, Kwong RY, Jerosch-Herold M, Coelho-Filho OR, Afilalo J, Zataraín-Nicolás E, Baksi AJ, Wintersperger BJ, Calvillo-Arguelles O, Ederhy S, Yang EH, Lyon AR, Fradley MG, and Neilan TG
- Subjects
- Aged, Cardiac Imaging Techniques, Female, Humans, Male, Middle Aged, Myocarditis pathology, Retrospective Studies, Immune Checkpoint Inhibitors adverse effects, Magnetic Resonance Imaging, Myocarditis chemically induced, Myocarditis diagnostic imaging
- Abstract
Background: Myocarditis is a potentially fatal complication of immune checkpoint inhibitor (ICI) therapy. Data on the utility of cardiovascular magnetic resonance (CMR) T1 and T2 mapping in ICI myocarditis are limited., Objectives: This study sought to assess the value of CMR T1 and T2 mapping in patients with ICI myocarditis., Methods: In this retrospective study from an international registry of patients with ICI myocarditis, clinical and CMR findings (including T1 and T2 maps) were collected. Abnormal T1 and T2 were defined as 2 SD above site (vendor/field strength specific) reference values and a z-score was calculated for each patient. Major adverse cardiovascular events (MACE) were a composite of cardiovascular death, cardiogenic shock, cardiac arrest, and complete heart block., Results: Of 136 patients with ICI myocarditis with a CMR, 86 (63%) had T1 maps and 79 (58%) also had T2 maps. Among the 86 patients (66.3 ± 13.1 years of age), 36 (41.9%) had a left ventricular ejection fraction <55%. Across all patients, mean z-scores for T1 and T2 values were 2.9 ± 1.9 (p < 0.001) and 2.2 ± 2.1 (p < 0.001), respectively. On Siemens 1.5-T scanner (n = 67), native T1 (1,079.0 ± 55.5 ms vs. 1,000.3 ± 22.1 ms; p < 0.001) and T2 (56.2 ± 4.9 ms vs. 49.8 ± 2.2 ms; p < 0.001) values were elevated compared with reference values. Abnormal T1 and T2 values were seen in 78% and 43% of the patients, respectively. Applying the modified Lake Louise Criteria, 95% met the nonischemic myocardial injury criteria and 53% met the myocardial edema criteria. Native T1 values had excellent discriminatory value for subsequent MACE, with an area under the curve of 0.91 (95% confidence interval: 0.84 to 0.98). Native T1 values (for every 1-unit increase in z-score, hazard ratio: 1.44; 95% confidence interval: 1.12 to 1.84; p = 0.004) but not T2 values were independently associated with subsequent MACE., Conclusions: The use of T1 mapping and application of the modified Lake Louise Criteria provides important diagnostic value, and T1 mapping provides prognostic value in patients with ICI myocarditis., Competing Interests: Funding Support and Author Disclosures Dr. Thavendiranathan was supported, in part, through the Canadian Institutes of Health Research New Investigator Award (FRN 147814) and a Canada Research Chair in Cardio-Oncology. This work is supported by the New York Academy of Medicine's Glorney-Raisbeck Award to Dr. Mahmood. Dr. Sullivan was supported, in part, through the National Institutes of Health (NIH)/National Cancer Institute (RO1CA229851, UH2CA207355, RO1CA193970). Dr. C.L. Chen, and Dr. D. Gupta were supported, in part, through the NIH/National Cancer Institute P30CA008748. Dr. Neilan was supported, in part, through the Kohlberg Foundation, the NIH/National Heart, Lung, and Blood Institute (RO1HL130539, RO1HL137562, and K24HL150238), and the NIH/Harvard Center for AIDS Research (P30 AI060354). Dr. Thavendiranathan has received Speakers Bureau fees from Amgen, Takeda, and BI. Dr. Mahmood has received consulting fees from OMR Globus, Alpha Detail, and Opinion Research Team. Dr. Nohria has received research grant support from Amgen; and has served a consultant for Takeda Oncology. Dr. Heinzerling has received consulting, advisory board, and speaker fees from MSD, BMS, Roche, Novartis, Amgen, and Curevac. Dr. Sullivan has served as a consultant for Merck and Novartis. Dr. Groarke has received research support from Amgen. Dr. Neilan has received advisory fees from Parexel, BMS, H3 Biomedicine, AbbVie, and Intrinsic Imaging. Dr. Neilan has received grant support from AstraZeneca. Dr. Wintersperger has received research support and speaker honoraria from Siemens Healthineers (the University Health Network has a master research agreement with Siemens Healthineers); and is an inventor of the IG fitting method owned by the University Health Network (US10314548B2). Dr. Yang has received research funding from CSL Behring. All other authors have reported that they have no relationships relevant to the contents of this paper to disclose., (Copyright © 2021 American College of Cardiology Foundation. Published by Elsevier Inc. All rights reserved.)
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- 2021
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43. Electrocardiographic features of immune checkpoint inhibitor associated myocarditis.
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Zlotoff DA, Hassan MZO, Zafar A, Alvi RM, Awadalla M, Mahmood SS, Zhang L, Chen CL, Ederhy S, Barac A, Banerji D, Jones-O'Connor M, Murphy SP, Armanious M, Forrestal BJ, Kirchberger MC, Coelho-Filho OR, Rizvi MA, Sahni G, Mandawat A, Tocchetti CG, Hartmann S, Gilman HK, Zatarain-Nicolás E, Mahmoudi M, Gupta D, Sullivan R, Ganatra S, Yang EH, Heinzerling LM, Thuny F, Zubiri L, Reynolds KL, Cohen JV, Lyon AR, Groarke J, Thavendiranathan P, Nohria A, Fradley MG, and Neilan TG
- Subjects
- Aged, Aged, 80 and over, Female, Heart Conduction System physiopathology, Humans, Male, Middle Aged, Myocarditis chemically induced, Myocarditis physiopathology, Predictive Value of Tests, Registries, Retrospective Studies, Risk Assessment, Risk Factors, Time Factors, Action Potentials drug effects, Electrocardiography, Heart Conduction System drug effects, Heart Rate drug effects, Immune Checkpoint Inhibitors adverse effects, Myocarditis diagnosis
- Abstract
Background: Myocarditis is a highly morbid complication of immune checkpoint inhibitor (ICI) use that remains inadequately characterized. The QRS duration and the QTc interval are standardized electrocardiographic measures that are prolonged in other cardiac conditions; however, there are no data on their utility in ICI myocarditis., Methods: From an international registry, ECG parameters were compared between 140 myocarditis cases and 179 controls across multiple time points (pre-ICI, on ICI prior to myocarditis, and at the time of myocarditis). The association between ECG values and major adverse cardiac events (MACE) was also tested., Results: Both the QRS duration and QTc interval were similar between cases and controls prior to myocarditis. When compared with controls on an ICI (93±19 ms) or to baseline prior to myocarditis (97±19 ms), the QRS duration prolonged with myocarditis (110±22 ms, p<0.001 and p=0.009, respectively). In contrast, the QTc interval at the time of myocarditis (435±39 ms) was not increased compared with pre-myocarditis baseline (422±27 ms, p=0.42). A prolonged QRS duration conferred an increased risk of subsequent MACE (HR 3.28, 95% CI 1.98 to 5.62, p<0.001). After adjustment, each 10 ms increase in the QRS duration conferred a 1.3-fold increase in the odds of MACE (95% CI 1.07 to 1.61, p=0.011). Conversely, there was no association between the QTc interval and MACE among men (HR 1.33, 95% CI 0.70 to 2.53, p=0.38) or women (HR 1.48, 95% CI 0.61 to 3.58, p=0.39)., Conclusions: The QRS duration is increased in ICI myocarditis and is associated with increased MACE risk. Use of this widely available ECG parameter may aid in ICI myocarditis diagnosis and risk-stratification., Competing Interests: Competing interests: SSM has received consultancy fees from OMR Globus, Alpha Detail, and Opinion Research Team. RS has been a consultant to Merck and Novartis. LH has received consultancy, advisory board, and speaker fees from MSD, BMS, Roche, Novartis, Amgen, and Curevac. LZu has been a consultant to Merck. JG has received research support from Amgen. AN has received research support from Amgen and has been a consultant for Takeda Oncology and AstraZeneca. TGN has received advisory fees from Parexel, AbbVie, H3-Biomedicine, Aprea Therapeutics, BMS, and Intrinsic Imaging. TGN has received grant funding from AstraZeneca., (© Author(s) (or their employer(s)) 2021. Re-use permitted under CC BY-NC. No commercial re-use. See rights and permissions. Published by BMJ.)
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- 2021
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44. Development of Site-Specific PEGylated Granulocyte Colony Stimulating Factor With Prolonged Biological Activity.
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Kumari M, Sahni G, and Datta S
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Currently, amino-terminal PEGylated human granulocyte colony stimulating factor (huG-CSF) is used to prevent and treat neutropenia. Although huG-CSF has been used as a drug for more than 20 years, it has three significant drawbacks: (i) it relies on PEG aldehyde for PEGylation of the alpha-amino group of the first amino acid, and this leads to non-specific PEGylation of the epsilon amino group of lysine residues within the G-CSF; (ii) longer-acting G-CSF variants are desirable to reduce the risk of chemotherapy-associated neutropenia; and (iii) G-CSF cannot be administered on the day of chemotherapy. In an attempt to overcome the above drawbacks, we engineered cysteine variants of G-CSF to facilitate the maleimide PEG-based site-specific PEGylation that leads to a highly homogenous PEGylated product. Importantly, we have demonstrated that 20 kDa thiol-reactive PEG conjugated by maleimide chemistry to the Cys2 G-CSF variant exhibits leukocyte proliferative activity similar to that of the commercially available G-CSF conjugated with aldehyde PEG in a neutropenia mice model. Moreover, we have demonstrated that PEGylation of the cysteine variant of huG-CSF with higher molecular weight PEGs, such as 30 kDa PEG and 40 kDa PEG, leads to significantly prolonged leukocyte proliferation activity compared to the variant conjugated with 20 kDa PEG. Importantly, even a half-dose of the engineered variant conjugated with 40 kDa PEG exhibited significantly longer biological activity than the commercially available 20 kDa PEGylated huG-CSF. Finally, we have demonstrated that administration of the engineered variant conjugated with 40 kDa PEG on the day of administration of cyclophosphamide for inducing neutropenia in mice can alleviate neutropenia through leukocyte proliferation. In summary, this study provides the design of site-specific PEGylated huG-CSF variants with improved therapeutic potential. It opens the possibility of long-acting and same-day prophylactic administration of G-CSF after chemotherapy drug regimens. These results may pave the way for the development of potential G-CSF derivatives possessing longer half-lives and favorable clinical attributes., (Copyright © 2020 Kumari, Sahni and Datta.)
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- 2020
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45. Predicting optimal lockdown period with parametric approach using three-phase maturation SIRD model for COVID-19 pandemic.
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Lalwani S, Sahni G, Mewara B, and Kumar R
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This paper proposes a three-phase Susceptible-Infected-Recovered-Dead (3P-SIRD) model to calculate an optimal lockdown period for some specific geographical regions that will be favorable to break not only the transmission chain but also will help country's economy to recover and support infrastructure in a fight against COVID-19. Proposed model is novel since it additionally includes parameters i.e. silent carriers, sociability of newly infected person and unregistered died coronavirus infected people along with the infection rate, suspected rate and death rate. These parameters contribute a lot to figure out the more clear model, along with essential parameters. The model takes the testing rate of suspected people into consideration and this rate varies with respect to phase of the epidemic growth. Proposed 3P-SIRD model is divided into three-phases based on the awareness and sustainability of disease. Time is divided into different periods as rate of infection and recovery fluctuates region to region. The model is tested on China data and is efficient enough to propose a model very close to their actual figures of infected people, recovered people, died and active cases. The model predicts the optimal lockdown period as 73 days for China which is very close to their actual lockdown period (77 days). Further, the model is implemented to predict the optimal lockdown period of India and Italy., Competing Interests: The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper. The authors declare the following financial interests/personal relationships which may be considered as potential competing interests., (© 2020 Elsevier Ltd. All rights reserved.)
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- 2020
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46. Recombinant expression, purification and PEGylation of Paneth cell peptide (cryptdin-2) with value added attributes against Staphylococcus aureus.
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Kaur N, Dilawari R, Kaur A, Sahni G, and Rishi P
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- Amino Acid Sequence, Animals, Anti-Infective Agents chemistry, Anti-Infective Agents pharmacology, Cell Survival drug effects, Defensins chemistry, Defensins genetics, Defensins metabolism, Mice, Microbial Sensitivity Tests, Mutagenesis, Site-Directed, Paneth Cells cytology, Paneth Cells metabolism, RAW 264.7 Cells, Recombinant Fusion Proteins biosynthesis, Recombinant Fusion Proteins chemistry, Recombinant Fusion Proteins isolation & purification, Recombinant Fusion Proteins pharmacology, Defensins pharmacology, Polyethylene Glycols chemistry, Staphylococcus aureus drug effects
- Abstract
Cryptdins are disulfide-rich cationic antimicrobial peptides secreted by mouse Paneth cells and are known to exhibit potent antimicrobial activity against various deadly pathogens. Keeping in view the extremely low yield obtained from mouse Paneth cells and high cost of synthetic peptide(s), herein, we have attempted to produce cryptdin-2 in Escherichia coli using recombinant technology. To avoid lethal effects of peptide on the host cells, cryptdin-2 was expressed as a fusion protein with thioredoxin as fusion partner which yielded 40 mg/L protein in the soluble fraction. Subsequently, mature cryptdin-2 was cleaved from the fusion partner and purified by cation exchange chromatography. Since conjugation of poly(ethylene) glycol (PEG) has been known to improve the biological properties of biomolecules, therefore, we further attempted to prepare PEG-conjugated variant of cryptdin-2 using thiol specific PEGylation. Though the antimicrobial activity of PEGylated cryptdin-2 was compromised to some extent, but it was found to have enhanced serum stability for longer duration as compared to its un-modified forms. Also, it was found to exhibit reduced toxicity to the host cells. Further, its synergism with gentamicin suggests that PEGylated cryptdin-2 can be used with conventional antibiotics, thereby indicating its possibility to be used as an adjunct therapy.
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- 2020
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47. Major Adverse Cardiovascular Events and the Timing and Dose of Corticosteroids in Immune Checkpoint Inhibitor-Associated Myocarditis.
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Zhang L, Zlotoff DA, Awadalla M, Mahmood SS, Nohria A, Hassan MZO, Thuny F, Zubiri L, Chen CL, Sullivan RJ, Alvi RM, Rokicki A, Murphy SP, Jones-O'Connor M, Heinzerling LM, Barac A, Forrestal BJ, Yang EH, Gupta D, Kirchberger MC, Shah SP, Rizvi MA, Sahni G, Mandawat A, Mahmoudi M, Ganatra S, Ederhy S, Zatarain-Nicolas E, Groarke JD, Tocchetti CG, Lyon AR, Thavendiranathan P, Cohen JV, Reynolds KL, Fradley MG, and Neilan TG
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- Cardiovascular Diseases chemically induced, Cardiovascular Diseases diagnosis, Dose-Response Relationship, Drug, Drug Administration Schedule, Humans, Registries, Retrospective Studies, Adrenal Cortex Hormones administration & dosage, Adrenal Cortex Hormones adverse effects, Immune Checkpoint Inhibitors administration & dosage, Immune Checkpoint Inhibitors adverse effects, Myocarditis chemically induced, Myocarditis diagnosis
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- 2020
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48. Cardiovascular magnetic resonance in immune checkpoint inhibitor-associated myocarditis.
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Zhang L, Awadalla M, Mahmood SS, Nohria A, Hassan MZO, Thuny F, Zlotoff DA, Murphy SP, Stone JR, Golden DLA, Alvi RM, Rokicki A, Jones-O'Connor M, Cohen JV, Heinzerling LM, Mulligan C, Armanious M, Barac A, Forrestal BJ, Sullivan RJ, Kwong RY, Yang EH, Damrongwatanasuk R, Chen CL, Gupta D, Kirchberger MC, Moslehi JJ, Coelho-Filho OR, Ganatra S, Rizvi MA, Sahni G, Tocchetti CG, Mercurio V, Mahmoudi M, Lawrence DP, Reynolds KL, Weinsaft JW, Baksi AJ, Ederhy S, Groarke JD, Lyon AR, Fradley MG, Thavendiranathan P, and Neilan TG
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- Contrast Media, Gadolinium, Humans, Magnetic Resonance Imaging, Cine, Magnetic Resonance Spectroscopy, Predictive Value of Tests, Stroke Volume, Ventricular Function, Left, Immune Checkpoint Inhibitors, Myocarditis chemically induced
- Abstract
Aims: Myocarditis is a potentially fatal complication of immune checkpoint inhibitors (ICI). Sparse data exist on the use of cardiovascular magnetic resonance (CMR) in ICI-associated myocarditis. In this study, the CMR characteristics and the association between CMR features and cardiovascular events among patients with ICI-associated myocarditis are presented., Methods and Results: From an international registry of patients with ICI-associated myocarditis, clinical, CMR, and histopathological findings were collected. Major adverse cardiovascular events (MACE) were a composite of cardiovascular death, cardiogenic shock, cardiac arrest, and complete heart block. In 103 patients diagnosed with ICI-associated myocarditis who had a CMR, the mean left ventricular ejection fraction (LVEF) was 50%, and 61% of patients had an LVEF ≥50%. Late gadolinium enhancement (LGE) was present in 48% overall, 55% of the reduced EF, and 43% of the preserved EF cohort. Elevated T2-weighted short tau inversion recovery (STIR) was present in 28% overall, 30% of the reduced EF, and 26% of the preserved EF cohort. The presence of LGE increased from 21.6%, when CMR was performed within 4 days of admission to 72.0% when CMR was performed on Day 4 of admission or later. Fifty-six patients had cardiac pathology. Late gadolinium enhancement was present in 35% of patients with pathological fibrosis and elevated T2-weighted STIR signal was present in 26% with a lymphocytic infiltration. Forty-one patients (40%) had MACE over a follow-up time of 5 months. The presence of LGE, LGE pattern, or elevated T2-weighted STIR were not associated with MACE., Conclusion: These data suggest caution in reliance on LGE or a qualitative T2-STIR-only approach for the exclusion of ICI-associated myocarditis., (Published on behalf of the European Society of Cardiology. All rights reserved. © The Author(s) 2020. For permissions, please email: journals.permissions@oup.com.)
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- 2020
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49. Assessment of various endodontic instrumentation systems on the amount of apically extruded bacteria - An in vitro study.
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Sahni G, Garg N, Chhabra A, Negi S, Gupta S, and Chhabra V
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Aim: The objective of this in vitro study was to assess the effect of different endodontic instrumentation systems on the amount of apically extruded bacteria., Materials and Methods: One hundred and twenty freshly extracted human mandibular premolars with single canal were collected. Endodontic access cavities were prepared and then contaminated with an Enterococcus faecalis suspension (ATCC 29212). After incubation at 37°C for 24 h, the root canals were instrumented with K flare files, F360 Single file system, K3XF files, Heroshaper files, Protaper Next files, and Hyflex EDM Single file system. During instrumentation, apically extruded bacteria were collected in the vials containing 0.9% NaCl. Samples were taken from the vials and incubated in brain-heart infusion agar medium for 24 h., Statistical Analysis: The number of colony-forming units was determined, and data were statistically analyzed using one-way analysis of variance and post hoc Tukey test., Conclusions: Both rotary and hand instrumentation systems extruded intracanal bacteria through the apical foramen, Group 1 (Hand K Flare files) showed maximum, whereas, Group 5 (Protaper Next) and Group 6 (Hyflex EDM) showed the least extrusion., Competing Interests: There are no conflicts of interest., (Copyright: © 2020 Journal of Conservative Dentistry.)
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- 2020
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50. Kringles of substrate plasminogen provide a 'catalytic switch' in plasminogen to plasmin turnover by Streptokinase.
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Sharma V, Kumar S, and Sahni G
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- Catalysis, Fibrinolysin chemistry, Fluorescence Resonance Energy Transfer methods, Humans, Plasminogen chemistry, Protein Structure, Secondary, Streptokinase chemistry, Substrate Specificity physiology, Catalytic Domain physiology, Fibrinolysin metabolism, Kringles physiology, Plasminogen metabolism, Streptokinase metabolism
- Abstract
To understand the role of substrate plasminogen kringles in its differential catalytic processing by the streptokinase - human plasmin (SK-HPN) activator enzyme, Fluorescence Resonance Energy Transfer (FRET) model was generated between the donor labeled activator enzyme and the acceptor labeled substrate plasminogen (for both kringle rich Lys plasminogen - LysPG, and kringle less microplasminogen - µPG as substrates). Different steps of plasminogen to plasmin catalysis i.e. substrate plasminogen docking to scissile peptide bond cleavage, chemical transformation into proteolytically active product, and the decoupling of the nascent product from the SK-HPN activator enzyme were segregated selectively using (1) FRET signal as a proximity sensor to score the interactions between the substrate and the activator during the cycle of catalysis, (2) active site titration studies and (3) kinetics of peptide bond cleavage in the substrate. Remarkably, active site titration studies and the kinetics of peptide bond cleavage have shown that post docking chemical transformation of the substrate into the product is independent of kringles adjacent to the catalytic domain (CD). Stopped-flow based rapid mixing experiments for kringle rich and kringle less substrate plasminogen derivatives under substrate saturating and single cycle turnover conditions have shown that the presence of kringle domains adjacent to the CD in the macromolecular substrate contributes by selectively speeding up the final step, namely the product release/expulsion step of catalysis by the streptokinase-plasmin(ogen) activator enzyme., (© 2020 The Author(s). Published by Portland Press Limited on behalf of the Biochemical Society.)
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- 2020
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