J
Joshua D. Welch
Researcher at University of Michigan
Publications - 62
Citations - 3819
Joshua D. Welch is an academic researcher from University of Michigan. The author has contributed to research in topics: Biology & Gene. The author has an hindex of 20, co-authored 50 publications receiving 2081 citations. Previous affiliations of Joshua D. Welch include Broad Institute & University of North Carolina at Chapel Hill.
Papers
More filters
Journal ArticleDOI
A Wnt-mediated transformation of the bone marrow stromal cell identity orchestrates skeletal regeneration.
Yuki Matsushita,Mizuki Nagata,Kenneth M. Kozloff,Joshua D. Welch,Koji Mizuhashi,Nicha Tokavanich,Shawn A Hallett,Daniel C. Link,Takashi Nagasawa,Wanida Ono,Noriaki Ono +10 more
TL;DR: It is shown that quiescent CXCL12-expressing BMSCs can convert into a skeletal stem cell-like state, and differentiate into cortical bone osteoblasts only in response to injury.
Journal ArticleDOI
MATCHER: manifold alignment reveals correspondence between single cell transcriptome and epigenome dynamics.
TL;DR: MATCHER uses manifold alignment to infer single cell multi-omic profiles from transcriptomic and epigenetic measurements performed on different cells of the same type, and accurately predicts true single cell correlations between DNA methylation and gene expression without using known cell correspondences.
Journal ArticleDOI
A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex.
Zizhen Yao,Hanqing Liu,Fangming Xie,Stephan Fischer,Ricky S. Adkins,Andrew Aldridge,Seth A. Ament,Anna Bartlett,M. Margarita Behrens,Koen Van den Berge,Koen Van den Berge,Darren Bertagnolli,Hector Roux de Bézieux,Tommaso Biancalani,A. Sina Booeshaghi,Héctor Corrada Bravo,Tamara Casper,Carlo Colantuoni,Carlo Colantuoni,Jonathan Crabtree,Heather Huot Creasy,Kirsten Crichton,Megan Crow,Nick Dee,Elizabeth L. Dougherty,Wayne I. Doyle,Sandrine Dudoit,Rongxin Fang,Victor Felix,Olivia Fong,Michelle G. Giglio,Jeff Goldy,Michael Hawrylycz,Brian R. Herb,Ronna Hertzano,Xiaomeng Hou,Qiwen Hu,Jayaram Kancherla,Matthew Kroll,Kanan Lathia,Yang Eric Li,Jacinta Lucero,Chongyuan Luo,Chongyuan Luo,Anup Mahurkar,Delissa McMillen,Naeem Nadaf,Joseph R. Nery,Thuc Nghi Nguyen,Sheng-Yong Niu,Vasilis Ntranos,Joshua Orvis,Julia K. Osteen,Thanh Pham,Antonio Pinto-Duarte,Olivier Poirion,Sebastian Preissl,Elizabeth Purdom,Christine Rimorin,Davide Risso,Angeline Rivkin,Kimberly A. Smith,Kelly Street,Josef Sulc,Valentine Svensson,Michael Tieu,Amy Torkelson,Herman Tung,Eeshit Dhaval Vaishnav,Charles R. Vanderburg,Cindy T. J. van Velthoven,Xinxin Wang,Xinxin Wang,Owen White,Z. Josh Huang,Peter V. Kharchenko,Lior Pachter,John Ngai,Aviv Regev,Aviv Regev,Bosiljka Tasic,Joshua D. Welch,Jesse Gillis,Evan Z. Macosko,Bing Ren,Bing Ren,Joseph R. Ecker,Hongkui Zeng,Eran A. Mukamel +88 more
TL;DR: In this paper, a reference atlas of diverse neuronal and non-neuronal cell types in the mouse primary motor cortex is presented, including a population of excitatory neurons that resemble pyramidal cells in layer 4.
Journal ArticleDOI
Single-Cell Transcriptomic Analyses of Cell Fate Transitions during Human Cardiac Reprogramming.
Yang Zhou,Ziqing Liu,Joshua D. Welch,Xu Gao,Li Wang,Tiffany A. Garbutt,Benjamin Keepers,Hong Ma,Jan F. Prins,Weining Shen,Jiandong Liu,Li Qian +11 more
TL;DR: A single-cell transcriptomic study of human cardiac (hiCM) reprograming that utilizes an analysis pipeline incorporating current data normalization methods, multiple trajectory prediction algorithms, and a cell fate index calculation to measure reprogramming progression is reported.
Journal ArticleDOI
Jointly defining cell types from multiple single-cell datasets using LIGER.
TL;DR: In this article, a step-by-step protocol for using linked inference of genomic experimental relationships (LIGER) to jointly define cell types from multiple single-cell datasets is presented.