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Publication Listing for the MeSH term Software. Found 26 abstracts

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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
Shaytan AK, Xiao H, Armeev GA, Gaykalova DA, Komarova GA, Wu C, Studitsky VM, Landsman D, Panchenko AR. Structural interpretation of DNA-protein hydroxyl-radical footprinting experiments with high resolution using HYDROID. Nature protocols. 2018 Nov;13(11):2535-56.   PMCID: PMC6322412
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, Konikoff C, Sanderford M, Liu L, Newfeld S, Ye J, Kulathinal RJ. FlyExpress 7: An Integrated Discovery Platform To Study Coexpressed Genes Using in Situ Hybridization Images in Drosophila. G3 (Bethesda, Md). 2017 Aug 07;7(8):2791-7.   PMCID: PMC5555482
Kumar S, Konikoff C, Sanderford M, Liu L, Newfeld S, Ye J, Kulathinal RJ. FlyExpress 7: An Integrated Discovery Platform To Study Coexpressed Genes Using in Situ Hybridization Images in Drosophila. G3 (Bethesda, Md). 2017 Aug 07;7(8):2791-7.   PMCID: PMC5555482
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.
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
Murad FM, Banerjee S, Barth BA, Bhat YM, Chauhan SS, Gottlieb KT, Konda V, Maple JT, Pfau P, Pleskow D, Siddiqui UD, Tokar JL, Wang A, Rodriguez SA. Image management systems. Gastrointestinal endoscopy. 2014 Jan;79(1):15-22.
Vazquez Quino LA, Chen X, Fitzpatrick M, Shi C, Stathakis S, Gutierrez A, Esquivel C, Mavroidis P, Alkhatib H, Papanikolaou N. Patient specific pre-treatment QA verification using an EPID approach. Technol Cancer Res Treat. 2014 Feb;13(1):1-10.   PMCID: *
Alves C, Cheng H, Roder H, Taylor J. Intrinsic disorder and oligomerization of the hepatitis delta virus antigen. Virology. 2010 Nov 25;407(2):333-40.   PMCID: PMC2952689
Shapovalov MV, Canutescu AA, Dunbrack RL. BioDownloader: Bioinformatics downloads and updates in a few clicks. Bioinformatics (Oxford, England). 2007 May;23(11):1437-9.
Bidaut G, Manion FJ, Garcia C, Ochs MF. WaveRead: automatic measurement of relative gene expression levels from microarrays using wavelet analysis. Journal of Biomedical Informatics. 2006 Aug;39(4):379-88.
Dunbrack RL. Sequence comparison and protein structure prediction. Current opinion in structural biology. 2006 Jun;16(3):374-84.
Manne SL, Ostroff JS, Winkel G, Fox K, Grana G, Miller E, Ross S, Frazier T, Buyyounouski MK, Hanlon AL, Eisenberg DF, Horwitz EM, Feigenberg SJ, Uzzo RG, Pollack A, Morrow M, Chen JQ, Yager JD, Russo J, Bassi DE, Fu J, Lopez de Cicco R, Klein-Szanto AJ, Devlin J, Sherman E, Altomare DA, Vaslet CA, Skele KL, De Rienzo A, Devarajan K, Jhanwar SC, McClatchey AI, Kane AB, Testa JR, Murphy ME, Langer CJ, Mehta MP, Viterbo R, Greenberg RE, Al-Saleem T, Canutescu AA, Dunbrack RL, Serebriiskii IG, Fang R, Latypova E, Hopkins R, Vinson C, Joung JK, Golemis EA. Couple-focused group intervention for women with early stage breast cancer. . J Consult Clin Psychol. 2005 Sep 15;73(4):634-46.
Wang G, Dunbrack RL. PISCES: recent improvements to a PDB sequence culling server. Nucleic acids research. 2005 Jul;33(Web Server issue):W94-8.
Bidaut G, Ochs MF. ClutrFree: cluster tree visualization and interpretation. Bioinformatics (Oxford, England). 2004 Nov;20(16):2869-71.
Markham GD, Norrby PO, Bock CW. S-adenosylmethionine conformations in solution and in protein complexes: conformational influences of the sulfonium group. Biochemistry. 2002 Jun 18;41(24):7636-46.
Fischer D, Elofsson A, Rychlewski L, Pazos F, Valencia A, Rost B, Ortiz AR, Dunbrack RL. CAFASP2: the second critical assessment of fully automated structure prediction methods. Proteins. 2001 Jan;Suppl 5:171-83.
Grant JD, Broccoli D, Muquit M, Manion FJ, Tisdall J, Ochs MF. Telometric: a tool providing simplified, reproducible measurements of telomeric DNA from constant field agarose gels. Biotechniques. 2001 Dec;31(6):1314-6, 1318.
Patriotis PC, Querec TD, Gruver BN, Brown TR, Patriotis C. ArrayExplorer, a program in Visual Basic for robust and accurate filter cDNA array analysis. Biotechniques. 2001 Oct;31(4):862, 864, 866-8, 870, 872.
The above publications are sorted by year, faculty last name, and first author. Click on any highlighted author listed to find all publications attributed to that individual. Click on the publication title to see the abstract. First authors who are faculty are highlighted like this. Last authors who are faculty are highlighted like this. Other authors who are faculty are highlighted like this.

MeSH cloud from publications including the MeSH term Software

Software methods genetics Computational Biology chemistry Molecular Models Algorithms metabolism Protein Conformation Protein Sequence Analysis Computer Simulation Sequence Alignment Proteins statistics & numerical data Oligonucleotide Array Sequence Analysis Amino Acid Sequence DNA Sequence Analysis US Gov't Support-PHS Non-US Gov't Support Computer Graphics Internet Drosophila melanogaster User-Computer Interface Monte Carlo Method Reproducibility of Results In Situ Hybridization Gene Expression Profiling Transcription Factors Solutions Protein Structural Homology Gene Expression Regulation NIH Research Support-Extramural instrumentation Insect Genome image analysis Secondary Protein Structure Polyacrylamide Gel Electrophoresis gene regulation standards Conserved Sequence analysis Protein Databases Information Storage and Retrieval Amino Acid Sequence Homology Binding Sites embryonic expression patterns Three-Dimensional Imaging DNA intergenic regions Phylogeny dotplot Protein Folding Non-US Gov't Research Support Molecular Sequence Data Protein Interaction Domains and Motifs Radiosurgery Female Hdd 0 (Plasmids) Computer-Assisted Image Processing MHC class II beta chain genes Antineoplastic Agents Hipaa Telomere Health Care Quality Assurance 0 (Anticonvulsants) color Mac Saccharomyces cerevisiae Hepatitis delta Antigens Biodiversity Audio Video Interleave database second Gb Avi Biotechnology Cd DNA Footprinting Dtr National Television System Committee digital capture device Adult Species Specificity divergence time Adrenal Gland Neoplasms Ntsc Artificial Intelligence 0 (Proteins) high definition reliability Biomolecular Nuclear Magnetic Resonance Middle Aged hard disk drive surgery Genetic Variation Dvd Bayonet Neill-Concelman compact disc 80 and over Aged homology modeling Adrenal Cortex Hormones Complementarity Determining Regions Autoradiography Hepatitis Delta Virus Recombinant Fusion Proteins Casp blue red-green Protein Multimerization Png Hydroxyl Radical Seizures pathology EC 27137 (Proto-Oncogene Proteins c-raf) Two-Hybrid System Techniques stability X-Ray Crystallography S-video Sulfur Nucleic Acid Repetitive Sequences Systems Integration Dvts Mammals Joint Photographic Experts Group Video Graphics Array standard definition computer program RESTA US Gov't Research Support-PHS Molecular Evolution Adenosine Triphosphate Macromolecular Systems Information Systems serial digital interface subtrees Palliative Care personal computer S-Adenosylmethionine S-Adenosylhomocysteine therapy DNA-Binding Proteins Intensity-Modulated Radiotherapy etiology Tga Universal Serial Bus Circular Dichroism Treatment Outcome Microcomputers Y Viral DNA Tagged Image File Format
Last updated on Wednesday, February 05, 2020