C
Cole Trapnell
Researcher at University of Washington
Publications - 148
Citations - 101469
Cole Trapnell is an academic researcher from University of Washington. The author has contributed to research in topics: Biology & Gene. The author has an hindex of 57, co-authored 123 publications receiving 84590 citations. Previous affiliations of Cole Trapnell include Iowa State University & Massachusetts Institute of Technology.
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Journal ArticleDOI
A CLK3-HMGA2 Alternative Splicing Axis Impacts Human Hematopoietic Stem Cell Molecular Identity throughout Development
Marcella Cesana,Michael H. Guo,Davide Cacchiarelli,Lara Wahlster,Jessica Barragan,Sergei Doulatov,Linda T. Vo,Beatrice Salvatori,Cole Trapnell,Kendell Clement,Kendell Clement,Patrick Cahan,Kaloyan M. Tsanov,Patricia Sousa,Barbara Tazon-Vega,Barbara Tazon-Vega,Adriano Bolondi,Federico M. Giorgi,Andrea Califano,John L. Rinn,Alexander Meissner,Joel N. Hirschhorn,George Q. Daley +22 more
TL;DR: This study highlights molecular mechanisms by which alternative splicing and miRNA-mediated post-transcriptional regulation impact the molecular identity and stage-specific developmental features of human HSCs.
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iPSC-Derived Macrophages Effectively Treat Pulmonary Alveolar Proteinosis in Csf2rb-Deficient Mice.
Adele Mucci,Elena Lopez-Rodriguez,Miriam Hetzel,Serena Liu,Takuji Suzuki,Takuji Suzuki,Christine Happle,Mania Ackermann,Henning Kempf,Roman Hillje,Jessica Kunkiel,Ewa Janosz,Sebastian Brennig,Silke Glage,Jens P. Bankstahl,Sabine Dettmer,Thomas Rodt,Gudrun Göhring,Bruce C. Trapnell,Gesine Hansen,Cole Trapnell,Lars Knudsen,Nico Lachmann,Thomas Moritz +23 more
TL;DR: The data indicate iPSC-Mφ as a source of functional macrophages displaying substantial plasticity and therapeutic potential that upon pulmonary transplantation will integrate into the lung microenvironment, adopt an AMφ phenotype and gene expression pattern, and profoundly ameliorate pulmonary disease phenotypes.
Journal ArticleDOI
High‐throughput, microscope‐based sorting to dissect cellular heterogeneity
Nicholas Hasle,Anthony Cooke,Sanjay Srivatsan,Heather Z Huang,Jason J. Stephany,Zachary Krieger,Dana Jackson,Weiliang Tang,Sriram Pendyala,Raymond J. Monnat,Cole Trapnell,Emily M. Hatch,Douglas M. Fowler +12 more
TL;DR: This work presents Visual Cell Sorting, a method that physically separates hundreds of thousands of live cells based on their visual phenotype, and uses it to assess hundreds ofnuclear localization sequence variants in a pooled format, identifying variants that improve nuclear localization and enabling annotation of nuclear localization sequences in thousands of human proteins.
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The anatomy of successful computational biology software.
Stephen F. Altschul,Barry Demchak,Richard Durbin,Robert Gentleman,Martin Krzywinski,Heng Li,Anton Nekrutenko,James T. Robinson,Wayne Rasband,James Taylor,Cole Trapnell +10 more
TL;DR: Creators of software widely used in computational biology discuss the factors that contributed to their success and suggest ideas for future generations of software developers.
Journal ArticleDOI
Erratum to: Genome sequence and rapid evolution of the rice pathogen Xanthomonas oryzae pv. oryzae PXO99A
Steven L. Salzberg,Daniel D. Sommer,Michael C. Schatz,Adam M. Phillippy,Pablo D. Rabinowicz,Seiji Tsuge,Ayako Furutani,Hirokazu Ochiai,Arthur L. Delcher,David R. Kelley,Ramana Madupu,Daniela Puiu,Diana Radune,Martin Shumway,Cole Trapnell,Gudlur Aparna,Gopaljee Jha,Alok Pandey,Prabhu B. Patil,Hiromichi Ishihara,Damien F. Meyer,Boris Szurek,Valérie Verdier,Ralf Koebnik,J. Maxwell Dow,Robert P. Ryan,Hisae Hirata,Shinji Tsuyumu,Sang Won Lee,Young-Su Seo,Malinee Sriariyanum,Pamela C. Ronald,Ramesh V. Sonti,Marie-Anne Van Sluys,Marie-Anne Van Sluys,Jan E. Leach,Frank F. White,Adam J. Bogdanove +37 more