☰

David Kelley - Publications

Affiliations: 
2011 Computer Science University of Maryland, College Park, College Park, MD 
Tree Info Grants Similar researchers PubMed Report error

23 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2021 Kimmel JC, Yi N, Roy M, Hendrickson DG, Kelley DR. Differentiation reveals latent features of aging and an energy barrier in murine myogenesis. Cell Reports. 35: 109046. PMID 33910007 DOI: 10.1016/j.celrep.2021.109046  0.732
2021 Kimmel JC, Kelley DR. Semi-supervised adversarial neural networks for single-cell classification. Genome Research. PMID 33627475 DOI: 10.1101/gr.268581.120  0.725
2020 Bernstein NJ, Fong NL, Lam I, Roy MA, Hendrickson DG, Kelley DR. Solo: Doublet Identification in Single-Cell RNA-Seq via Semi-Supervised Deep Learning. Cell Systems. PMID 32592658 DOI: 10.1016/j.cels.2020.05.010  0.306
2020 Kimmel JC, Penland L, Rubinstein ND, Hendrickson DG, Kelley DR, Rosenthal AZ. Corrigendum: Murine single-cell RNA-seq reveals cell-identity- and tissue-specific trajectories of aging Genome Research. 30: 153_1-153_1. DOI: 10.1101/gr.259820.119  0.74
2019 Kimmel JC, Penland L, Rubinstein ND, Hendrickson DG, Kelley DR, Rosenthal AZ. Murine single-cell RNA-seq reveals cell-identity- and tissue-specific trajectories of aging. Genome Research. PMID 31754020 DOI: 10.1101/gr.253880.119  0.736
2017 Feigin ME, Garvin T, Bailey P, Waddell N, Chang DK, Kelley DR, Shuai S, Gallinger S, McPherson JD, Grimmond SM, Khurana E, Stein LD, Biankin AV, Schatz MC, Tuveson DA. Recurrent noncoding regulatory mutations in pancreatic ductal adenocarcinoma. Nature Genetics. PMID 28481342 DOI: 10.1038/Ng.3861  0.391
2014 Hacisuleyman E, Goff LA, Trapnell C, Williams A, Henao-Mejia J, Sun L, McClanahan P, Hendrickson DG, Sauvageau M, Kelley DR, Morse M, Engreitz J, Lander ES, Guttman M, Lodish HF, et al. Topological organization of multichromosomal regions by the long intergenic noncoding RNA Firre. Nature Structural & Molecular Biology. 21: 198-206. PMID 24463464 DOI: 10.1038/Nsmb.2764  0.559
2014 Trapnell C, Roberts A, Goff L, Pertea G, Kim D, Kelley DR, Pimentel H, Salzberg SL, Rinn JL, Pachter L. Erratum: Corrigendum: Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks Nature Protocols. 9: 2513-2513. DOI: 10.1038/Nprot1014-2513A  0.634
2013 Gifford CA, Ziller MJ, Gu H, Trapnell C, Donaghey J, Tsankov A, Shalek AK, Kelley DR, Shishkin AA, Issner R, Zhang X, Coyne M, Fostel JL, Holmes L, Meldrim J, et al. Transcriptional and epigenetic dynamics during specification of human embryonic stem cells. Cell. 153: 1149-63. PMID 23664763 DOI: 10.1016/J.Cell.2013.04.037  0.586
2013 Sun L, Goff LA, Trapnell C, Alexander R, Lo KA, Hacisuleyman E, Sauvageau M, Tazon-Vega B, Kelley DR, Hendrickson DG, Yuan B, Kellis M, Lodish HF, Rinn JL. Long noncoding RNAs regulate adipogenesis. Proceedings of the National Academy of Sciences of the United States of America. 110: 3387-92. PMID 23401553 DOI: 10.1073/Pnas.1222643110  0.552
2012 Kelley D, Rinn J. Transposable elements reveal a stem cell-specific class of long noncoding RNAs. Genome Biology. 13: R107. PMID 23181609 DOI: 10.1186/gb-2012-13-11-r107  0.303
2012 Zimin AV, Kelley DR, Roberts M, Marçais G, Salzberg SL, Yorke JA. Mis-assembled "segmental duplications" in two versions of the Bos taurus genome. Plos One. 7: e42680. PMID 22880081 DOI: 10.1371/Journal.Pone.0042680  0.544
2012 Trapnell C, Roberts A, Goff L, Pertea G, Kim D, Kelley DR, Pimentel H, Salzberg SL, Rinn JL, Pachter L. Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks. Nature Protocols. 7: 562-78. PMID 22383036 DOI: 10.1038/Nprot.2012.016  0.721
2012 Kelley DR, Liu B, Delcher AL, Pop M, Salzberg SL. Gene prediction with Glimmer for metagenomic sequences augmented by classification and clustering. Nucleic Acids Research. 40: e9. PMID 22102569 DOI: 10.1093/Nar/Gkr1067  0.5
2011 Earl D, Bradnam K, St John J, Darling A, Lin D, Fass J, Yu HO, Buffalo V, Zerbino DR, Diekhans M, Nguyen N, Ariyaratne PN, Sung WK, Ning Z, Haimel M, ... ... Kelley DR, et al. Assemblathon 1: a competitive assessment of de novo short read assembly methods. Genome Research. 21: 2224-41. PMID 21926179 DOI: 10.1101/Gr.126599.111  0.719
2011 Kelley DR, Kingsford C. Extracting between-pathway models from E-MAP interactions using expected graph compression. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 18: 379-90. PMID 21385041 DOI: 10.1089/cmb.2010.0268  0.558
2010 Kelley DR, Schatz MC, Salzberg SL. Quake: quality-aware detection and correction of sequencing errors. Genome Biology. 11: R116. PMID 21114842 DOI: 10.1186/gb-2010-11-11-r116  0.584
2010 Kelley DR, Salzberg SL. Clustering metagenomic sequences with interpolated Markov models. Bmc Bioinformatics. 11: 544. PMID 21044341 DOI: 10.1186/1471-2105-11-544  0.531
2010 Kelley DR, Salzberg SL. Detection and correction of false segmental duplications caused by genome mis-assembly. Genome Biology. 11: R28. PMID 20219098 DOI: 10.1186/gb-2010-11-3-r28  0.522
2010 Kelley D, Schatz M, Salzberg S. Quality-aware error correction of sequencing reads F1000research. 1. DOI: 10.7490/F1000Research.274.1  0.608
2009 Zimin AV, Delcher AL, Florea L, Kelley DR, Schatz MC, Puiu D, Hanrahan F, Pertea G, Van Tassell CP, Sonstegard TS, Marçais G, Roberts M, Subramanian P, Yorke JA, Salzberg SL. A whole-genome assembly of the domestic cow, Bos taurus. Genome Biology. 10: R42. PMID 19393038 DOI: 10.1186/Gb-2009-10-4-R42  0.626
2008 Salzberg SL, Sommer DD, Schatz MC, Phillippy AM, Rabinowicz PD, Tsuge S, Furutani A, Ochiai H, Delcher AL, Kelley D, Madupu R, Puiu D, Radune D, Shumway M, Trapnell C, et al. Genome sequence and rapid evolution of the rice pathogen Xanthomonas oryzae pv. oryzae PXO99A. Bmc Genomics. 9: 204. PMID 18452608 DOI: 10.1186/1471-2164-9-204  0.732
2008 Salzberg SL, Sommer DD, Schatz MC, Phillippy AM, Rabinowicz PD, Tsuge S, Furutani A, Ochiai H, Delcher AL, Kelley D, Madupu R, Puiu D, Radune D, Shumway M, Trapnell C, et al. Erratum to: Genome sequence and rapid evolution of the rice pathogen Xanthomonas oryzae pv. oryzae PXO99 A Bmc Genomics. 9: 534. DOI: 10.1186/1471-2164-9-534  0.628
Show low-probability matches.