Cole Trapnell

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Jay ShendureProfessor of Genome Sciences, University of WashingtonVerificeret mail på uw.edu
Steven SalzbergBloomberg Distinguished Professor, Johns Hopkins UniversityVerificeret mail på jhu.edu
Lior PachterBren Professor of Computational Biology, CaltechVerificeret mail på caltech.edu
Loyal A. GoffJohns Hopkins Institute of Genetic MedicineVerificeret mail på jhmi.edu
Geo PerteaData/Software Engineer, Lieber Institute for Brain DevelopmentVerificeret mail på jhu.edu
Adam RobertsGoogle DeepMindVerificeret mail på google.com
Mihai PopProfessor of Computer Science, University of Maryland, College ParkVerificeret mail på umd.edu
Ben LangmeadAssociate Professor of Computer Science, Johns Hopkins UniversityVerificeret mail på cs.jhu.edu
David R KelleyCalico LabsVerificeret mail på calicolabs.com
Daehwan KimOmphalos Lifesciences IncVerificeret mail på omphaloslifesci.com
Tarjei S. MikkelsenVerificeret mail på alum.mit.edu
Ali MortazaviProfessor of Developmental and Cell Biology, University of California, IrvineVerificeret mail på uci.edu
Bruce C. Trapnell, MDProfessor of Medicine and Pediatrics, University of CincinnatiVerificeret mail på cchmc.org
Julius B. LucksProfessor, Northwestern UniversityVerificeret mail på northwestern.edu
Michael C. SchatzBloomberg Distinguished Professor, Johns Hopkins UniversityVerificeret mail på cs.jhu.edu
Arjun RajProfessor of Bioengineering, Professor of Genetics, University of PennsylvaniaVerificeret mail på seas.upenn.edu
Adam Paul ArkinDepartment of Bioengineering, University of California, Berkeley, Physical Biosciences Division, E.OVerificeret mail på lbl.gov
Marcel E. DingerUniversity of SydneyVerificeret mail på marceldinger.net
Manolis KellisProfessor of Computer Science, MIT and Broad InstituteVerificeret mail på mit.edu
Amitabh VarshneyDean, College of Computer, Mathematical, and Natural Sciences,Professor of Computer ScienceVerificeret mail på cs.umd.edu

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Cole Trapnell

Associate Professor, Dept. of Genome Sciences, University of Washington

Verificeret mail på uw.edu - Startside

single-cell genomics developmental genetics gene regulation


Titel Sortér efter henvisninger Sortér efter årstal Sortér efter titel	Citeret af Citeret af	År
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome B Langmead, C Trapnell, M Pop, SL Salzberg Genome biology 10, 1-10, 2009	24354	2009
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation C Trapnell, BA Williams, G Pertea, A Mortazavi, G Kwan, MJ Van Baren, ... Nature biotechnology 28 (5), 511-515, 2010	15746	2010
TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions D Kim, G Pertea, C Trapnell, H Pimentel, R Kelley, SL Salzberg Genome biology 14, 1-13, 2013	13688	2013
TopHat: discovering splice junctions with RNA-Seq C Trapnell, L Pachter, SL Salzberg Bioinformatics 25 (9), 1105-1111, 2009	13588	2009
Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks C Trapnell, A Roberts, L Goff, G Pertea, D Kim, DR Kelley, H Pimentel, ... Nature protocols 7 (3), 562-578, 2012	13314	2012
The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells C Trapnell, D Cacchiarelli, J Grimsby, P Pokharel, S Li, M Morse, ... Nature biotechnology 32 (4), 381-386, 2014	5811	2014
Differential analysis of gene regulation at transcript resolution with RNA-seq C Trapnell, DG Hendrickson, M Sauvageau, L Goff, JL Rinn, L Pachter Nature biotechnology 31 (1), 46-53, 2013	3942	2013
Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses MN Cabili, C Trapnell, L Goff, M Koziol, B Tazon-Vega, A Regev, JL Rinn Genes & development 25 (18), 1915-1927, 2011	3845	2011
Reversed graph embedding resolves complex single-cell trajectories X Qiu, Q Mao, Y Tang, L Wang, R Chawla, HA Pliner, C Trapnell Nature methods 14 (10), 979-982, 2017	3618	2017
The single-cell transcriptional landscape of mammalian organogenesis J Cao, M Spielmann, X Qiu, X Huang, DM Ibrahim, AJ Hill, F Zhang, ... Nature 566 (7745), 496-502, 2019	3207	2019
Improving RNA-Seq expression estimates by correcting for fragment bias A Roberts, C Trapnell, J Donaghey, JL Rinn, L Pachter Genome biology 12, 1-14, 2011	1651	2011
Single-cell mRNA quantification and differential analysis with Census X Qiu, A Hill, J Packer, D Lin, YA Ma, C Trapnell Nature methods 14 (3), 309-315, 2017	1525	2017
Comprehensive single-cell transcriptional profiling of a multicellular organism J Cao, JS Packer, V Ramani, DA Cusanovich, C Huynh, R Daza, X Qiu, ... Science 357 (6352), 661-667, 2017	1453	2017
Computational methods for transcriptome annotation and quantification using RNA-seq M Garber, MG Grabherr, M Guttman, C Trapnell Nature methods 8 (6), 469-477, 2011	1342	2011
Multiplex single-cell profiling of chromatin accessibility by combinatorial cellular indexing DA Cusanovich, R Daza, A Adey, HA Pliner, L Christiansen, ... Science 348 (6237), 910-914, 2015	1312	2015
Identification of novel transcripts in annotated genomes using RNA-Seq A Roberts, H Pimentel, C Trapnell, L Pachter Bioinformatics 27 (17), 2325-2329, 2011	1243	2011
Defining cell types and states with single-cell genomics C Trapnell Genome research 25 (10), 1491-1498, 2015	877	2015
Joint profiling of chromatin accessibility and gene expression in thousands of single cells J Cao, DA Cusanovich, V Ramani, D Aghamirzaie, HA Pliner, AJ Hill, ... Science 361 (6409), 1380-1385, 2018	860	2018
A single-cell atlas of in vivo mammalian chromatin accessibility DA Cusanovich, AJ Hill, D Aghamirzaie, RM Daza, HA Pliner, JB Berletch, ... Cell 174 (5), 1309-1324. e18, 2018	759	2018
Topological organization of multichromosomal regions by the long intergenic noncoding RNA Firre E Hacisuleyman, LA Goff, C Trapnell, A Williams, J Henao-Mejia, L Sun, ... Nature structural & molecular biology 21 (2), 198-206, 2014	715	2014

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