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Publication Listing for the MeSH term Computational Biology. Found 27 abstracts

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Liu L, Sanderford MD, Patel R, Chandrashekar P, Gibson G, Kumar S. Biological relevance of computationally predicted pathogenicity of noncoding variants. Nat Commun. 2019 Jan 18;10(1):330.   PMCID: PMC6338804
Adolf-Bryfogle J, Kalyuzhniy O, Kubitz M, Weitzner BD, Hu X, Adachi Y, Schief WR, Dunbrack RL. RosettaAntibodyDesign (RAbD): A general framework for computational antibody design. PLoS computational biology. 2018 Apr 27;14(4):e1006112.   PMCID: PMC5942852
Mohseni Ahooyi T, Shekarabi M, Torkzaban B, Langford TD, Burdo TH, Gordon J, Datta PK, Amini S, Khalili K. Dysregulation of Neuronal Cholesterol Homeostasis upon Exposure to HIV-1 Tat and Cocaine Revealed by RNA-Sequencing. Sci Rep. 2018 Nov 02;8(1):16300.   PMCID: PMC6215004
Katsura Y, Stanley CE, Kumar S, Nei M. The Reliability and Stability of an Inferred Phylogenetic Tree from Empirical Data. Molecular biology and evolution. 2017 Mar;34(3):718-23.
Kumar S, Stecher G, Suleski M, Hedges SB. TimeTree: A Resource for Timelines, Timetrees, and Divergence Times. Molecular biology and evolution. 2017 Jul;34(7):1812-9.
Mao G, Songdej N, Voora D, Goldfinger LE, Del Carpio-Cano FE, Myers RA, Rao AK. Transcription Factor RUNX1 Regulates Platelet PCTP (Phosphatidylcholine Transfer Protein): Implications for Cardiovascular Events: Differential Effects of RUNX1 Variants. Circulation. 2017 Sep 05;136(10):927-39.   PMCID: PMC5591032
Mello B, Tao Q, Tamura K, Kumar S. Fast and Accurate Estimates of Divergence Times from Big Data. Molecular biology and evolution. 2017 Jan;34(1):45-50.
Teye EK, Sido A, Xin P, Finnberg NK, Gokare P, Kawasawa YI, Salzberg AC, Shimko S, Bayerl M, Ehmann WC, Claxton DF, Rybka WB, Drabick JJ, Wang HG, Abraham T, El-Deiry WS, Brodsky RA, J Hohl R, Pu JJ. PIGN gene expression aberration is associated with genomic instability and leukemic progression in acute myeloid leukemia with myelodysplastic features. Oncotarget. 2017 May 02;8(18):29887-905.   PMCID: PMC5444711
Modi V, Xu Q, Adhikari S, Dunbrack RL. Assessment of template-based modeling of protein structure in CASP11. Proteins. 2016 Sep;84 Suppl 1:200-20.   PMCID: PMC5030193
Flynn WF, Chang MW, Tan Z, Oliveira G, Yuan J, Okulicz JF, Torbett BE, Levy RM. Deep sequencing of protease inhibitor resistant HIV patient isolates reveals patterns of correlated mutations in Gag and protease. PLoS computational biology. 2015 Apr;11(4):e1004249.   PMCID: PMC4404092
Masica DL, Li S, Douville C, Manola J, Ferris RL, Burtness B, Forastiere AA, Koch WM, Chung CH, Karchin R. Predicting survival in head and neck squamous cell carcinoma from TP53 mutation. Hum Genet. 2015 May;134(5):497-507.   PMCID: 4324386
van Esterik JC, Vitins AP, Hodemaekers HM, Kamstra JH, Legler J, Pennings JL, Steegenga WT, Lute C, Jelinek J, Issa JP, Dolle ME, van der Ven LT. Liver DNA methylation analysis in adult female C57BL/6JxFVB mice following perinatal exposure to bisphenol A. Toxicology letters. 2015 Jan 05;232(1):293-300.
Yan X, Hu Z, Feng Y, Hu X, Yuan J, Zhao SD, Zhang Y, Yang L, Shan W, He Q, Fan L, Kandalaft LE, Tanyi JL, Li C, Yuan CX, Zhang D, Yuan H, Hua K, Lu Y, Katsaros D, Huang Q, Montone K, Fan Y, Coukos G, Boyd J, Sood AK, Rebbeck T, Mills GB, Dang CV, Zhang L. Comprehensive Genomic Characterization of Long Non-coding RNAs across Human Cancers. Cancer cell. 2015 Oct 12;28(4):529-40.   PMCID: 4777353
Yan X, Hu Z, Feng Y, Hu X, Yuan J, Zhao SD, Zhang Y, Yang L, Shan W, He Q, Fan L, Kandalaft LE, Tanyi JL, Li C, Yuan CX, Zhang D, Yuan H, Hua K, Lu Y, Katsaros D, Huang Q, Montone K, Fan Y, Coukos G, Boyd J, Sood AK, Rebbeck T, Mills GB, Dang CV, Zhang L. Comprehensive Genomic Characterization of Long Non-coding RNAs across Human Cancers. Cancer Cell. 2015 Oct 12;28(4):529-40.
Tanaka N, Delemotte L, Klein ML, Komaromy AM, Tanaka JC. A cyclic nucleotide-gated channel mutation associated with canine daylight blindness provides insight into a role for the S2 segment tri-Asp motif in channel biogenesis. PLoS One. 2014 Jan;9(2):e88768.   PMCID: Pmc3931646
Ramirez UD, Myachina F, Stith L, Jaffe EK. Docking to large allosteric binding sites on protein surfaces. Advances in experimental medicine and biology. 2010 Jan;680:481-8.   PMCID: PMC2946403
Makhov P, Golovine K, Uzzo RG, Wuestefeld T, Scoll BJ, Kolenko VM. Transcriptional regulation of the major zinc uptake protein hZip1 in prostate cancer cells. Gene. 2009 Feb 15;431(1-2):39-46.   PMCID: PMC2741159
Min H, Manion FJ, Goralczyk E, Wong YN, Ross E, Beck JR. Integration of prostate cancer clinical data using an ontology. J Biomed Inform. 2009 Dec;42(6):1035-45.   PMCID: PMC2784120
Devarajan K. Nonnegative matrix factorization: an analytical and interpretive tool in computational biology. PLoS computational biology. 2008 Jan;4(7):e1000029.   PMCID: PMC2447881
Xu Q, Canutescu AA, Wang G, Shapovalov M, Obradovic Z, Dunbrack RL. Statistical analysis of interface similarity in crystals of homologous proteins. J Mol Biol. 2008 Aug 29;381(2):487-507.   PMCID: PMC2573399
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MeSH cloud from publications including the MeSH term Computational Biology

Computational Biology genetics methods metabolism Gene Expression Profiling chemistry Computer Simulation Molecular Models Genetic Variation drug effects Software DNA Sequence Analysis Tumor Cell Line Proteins Mutation statistics & numerical data Mammals Phylogeny Molecular Evolution Male pathology Statistical Models Genetic Models Genetic Transcription Algorithms Neoplastic Gene Expression Regulation Secondary Protein Structure Molecular Sequence Data HIV-1 Long Noncoding RNA Genetic Databases biosynthesis Neoplasms Female Protein Conformation Sequence Alignment virology toxicity Prostatic Neoplasms Human Genome Protein Binding pharmacology Amino Acid Sequence Disease Progression timetree Biological Evolution Base Sequence Mice Protein Databases Transfection Genetic Epigenesis Bisulfite pyrosequencing Dogs Mutation Rate Bone Marrow Protein Interaction Domains and Motifs HIV Infections Macaca mulatta Cohort Studies Information Storage and Retrieval Immunoblotting Retinal Cone Photoreceptor Cells HIV Protease Inhibitors MHC class II beta chain genes Terminology as Topic Phenotype Cation Transport Proteins Protein Folding Transcription Initiation Site High-Throughput Nucleotide Sequencing Semantics Phospholipid Transfer Proteins Introns Retinal Degeneration blood platelets Spiders Porphobilinogen Synthase Zinc Molecular Dynamics Simulation Biodiversity database Molecular Cloning PIGN gene expression aberration Internet Nucleic Acid Databases Nuclear Proteins genomic instability DNA Methylation Enzyme Stability Species Specificity divergence time Dimerization Age Factors Artificial Intelligence Reproducibility of Results Dog Diseases Survival Analysis Environmental Pollutants reliability Rats Cocaine Disease Small Interfering RNA homology modeling Human Immunodeficiency Virus gag Gene Products Complementarity Determining Regions Casp Birds Monte Carlo Method Peptide Fragments Amino Acid Motifs DNA Primers stability Untranslated RNA Primary Cell Culture Oligonucleotide Array Sequence Analysis User-Computer Interface X-Ray Crystallography Machine Learning Immunohistochemistry veterinary Bisphenol A p53 Genes Systems Integration Animal Disease Models human RUNX1 protein Lipid Metabolism computer program RESTA Datasets as Topic DNA methylation Biological Models Phosphotransferases subtrees Drosophila melanogaster Cocaine-Related Disorders Liver Cyclic Nucleotide-Gated Cation Channels Human Immunodeficiency Virus tat Gene Products Energy Metabolism molecular clocks cytology Cultured Cells MHC Class II Genes Myeloid Leukemia-Acute Developmental programming physiopathology cardiovascular diseases bootstrap probability Allosteric Site HIV Protease
Last updated on Wednesday, February 05, 2020