Single-cell transcriptome sequencing: recent advances and remaining challenges [version 1; referees: 2 approved]

by Serena Liu, Cole Trapnell
Published 2016-02-01

Extreme heterogeneity of influenza virus infection in single cells

by Alistair B Russell, Cole Trapnell, Jesse D Bloom
Published 2018-02-01

Dimensionality reduction by UMAP to visualize physical and genetic interactions

by Michael W. Dorrity, Lauren M. Saunders, Christine Queitsch, Stanley Fields, Cole Trapnell
Published 2020-03-01

Wnt Signaling Separates the Progenitor and Endocrine Compartments during Pancreas Development

by Nadav Sharon, Jordan Vanderhooft, Juerg Straubhaar, Jonas Mueller, Raghav Chawla, Quan Zhou, Elise N. Engquist, Cole Trapnell, David K. Gifford, Douglas A. Melton
Published 2019-05-01

Binding site turnover produces pervasive quantitative changes in transcription factor binding between closely related Drosophila species.

by Robert K Bradley, Xiao-Yong Li, Cole Trapnell, Stuart Davidson, Lior Pachter, Hou Cheng Chu, Leath A Tonkin, Mark D Biggin, Michael B Eisen
Published 2010-03-01

Single-cell landscape of nuclear configuration and gene expression during stem cell differentiation and X inactivation

by Giancarlo Bonora, Vijay Ramani, Ritambhara Singh, He Fang, Dana L. Jackson, Sanjay Srivatsan, Ruolan Qiu, Choli Lee, Cole Trapnell, Jay Shendure, Zhijun Duan, Xinxian Deng, William S. Noble, Christine M. Disteche
Published 2021-09-01

High‐throughput, microscope‐based sorting to dissect cellular heterogeneity

by Nicholas Hasle, Anthony Cooke, Sanjay Srivatsan, Heather Huang, Jason J Stephany, Zachary Krieger, Dana Jackson, Weiliang Tang, Sriram Pendyala, Raymond J Monnat Jr., Cole Trapnell, Emily M Hatch, Douglas M Fowler
Published 2020-06-01

Targeting TWIST1 through loss of function inhibits tumorigenicity of human glioblastoma

by Andrei M. Mikheev, Svetlana A. Mikheeva, Liza J. Severs, Cory C. Funk, Lei Huang, José L. McFaline‐Figueroa, Jeanette Schwensen, Cole Trapnell, Nathan D. Price, Stephen Wong, Robert C. Rostomily
Published 2018-06-01

Single-Cell Transcriptomic Comparison of Human Fetal Retina, hPSC-Derived Retinal Organoids, and Long-Term Retinal Cultures

by Akshayalakshmi Sridhar, Akina Hoshino, Connor R. Finkbeiner, Alex Chitsazan, Li Dai, Alexandra K. Haugan, Kayla M. Eschenbacher, Dana L. Jackson, Cole Trapnell, Olivia Bermingham-McDonogh, Ian Glass, Thomas A. Reh
Published 2020-02-01

Thyroid hormone regulates distinct paths to maturation in pigment cell lineages

by Lauren M Saunders, Abhishek K Mishra, Andrew J Aman, Victor M Lewis, Matthew B Toomey, Jonathan S Packer, Xiaojie Qiu, Jose L McFaline-Figueroa, Joseph C Corbo, Cole Trapnell, David M Parichy
Published 2019-05-01

Multipotent progenitors and hematopoietic stem cells arise independently from hemogenic endothelium in the mouse embryo

by Tessa Dignum, Barbara Varnum-Finney, Sanjay R. Srivatsan, Stacey Dozono, Olivia Waltner, Adam M. Heck, Takashi Ishida, Cynthia Nourigat-McKay, Dana L. Jackson, Shahin Rafii, Cole Trapnell, Irwin D. Bernstein, Brandon Hadland
Published 2021-09-01

Neural G0: a quiescent‐like state found in neuroepithelial‐derived cells and glioma

by Samantha A O’Connor, Heather M Feldman, Sonali Arora, Pia Hoellerbauer, Chad M Toledo, Philip Corrin, Lucas Carter, Megan Kufeld, Hamid Bolouri, Ryan Basom, Jeffrey Delrow, José L McFaline‐Figueroa, Cole Trapnell, Steven M Pollard, Anoop Patel, Patrick J Paddison, Christopher L Plaisier
Published 2021-06-01

iPSC-Derived Macrophages Effectively Treat Pulmonary Alveolar Proteinosis in Csf2rb-Deficient Mice

by Adele Mucci, Elena Lopez-Rodriguez, Miriam Hetzel, Serena Liu, 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 Gohring, Bruce Trapnell, Gesine Hansen, Cole Trapnell, Lars Knudsen, Nico Lachmann, Thomas Moritz
Published 2018-09-01