J
Joe Shuga
Researcher at Fluidigm Corporation
Publications - 31
Citations - 8902
Joe Shuga is an academic researcher from Fluidigm Corporation. The author has contributed to research in topics: Transcriptome & Micronucleus test. The author has an hindex of 17, co-authored 28 publications receiving 6496 citations. Previous affiliations of Joe Shuga include Massachusetts Institute of Technology & University of California, Berkeley.
Papers
More filters
Journal ArticleDOI
Massively parallel digital transcriptional profiling of single cells
Grace X.Y. Zheng,Jessica M. Terry,Phillip Belgrader,Paul Ryvkin,Zachary Bent,Ryan Wilson,Solongo B. Ziraldo,Tobias Daniel Wheeler,Geoffrey P. McDermott,Junjie Zhu,Mark T. Gregory,Joe Shuga,Luz Montesclaros,Jason G. Underwood,Donald A. Masquelier,Stefanie Y. Nishimura,Michael Schnall-Levin,Paul Wyatt,Christopher Hindson,Rajiv Bharadwaj,Alexander Wong,Kevin D. Ness,Lan Beppu,H. Joachim Deeg,Christopher McFarland,Keith R. Loeb,Keith R. Loeb,William J. Valente,William J. Valente,Nolan G. Ericson,Emily A. Stevens,Jerald P. Radich,Tarjei S. Mikkelsen,Benjamin J. Hindson,Jason H. Bielas +34 more
TL;DR: A droplet-based system that enables 3′ mRNA counting of tens of thousands of single cells per sample is described and sequence variation in the transcriptome data is used to determine host and donor chimerism at single-cell resolution from bone marrow mononuclear cells isolated from transplant patients.
Journal ArticleDOI
Single-cell RNA-seq reveals dynamic paracrine control of cellular variation
Alex K. Shalek,Rahul Satija,Joe Shuga,John J. Trombetta,David Gennert,Diana Lu,Peilin Chen,Rona S. Gertner,Jellert T. Gaublomme,Nir Yosef,Schraga Schwartz,Brian Fowler,Suzanne Weaver,Jing Wang,Xiaohui Wang,Ruihua Ding,Raktima Raychowdhury,Nir Friedman,Nir Hacohen,Hongkun Park,Andrew May,Aviv Regev +21 more
TL;DR: This study highlights the importance of cell-to-cell communication in controlling cellular heterogeneity and reveals general strategies that multicellular populations can use to establish complex dynamic responses.
Journal ArticleDOI
Low-coverage single-cell mRNA sequencing reveals cellular heterogeneity and activated signaling pathways in developing cerebral cortex.
Alex A. Pollen,Tomasz J. Nowakowski,Joe Shuga,Xiaohui Wang,Anne A. Leyrat,Jan H. Lui,Nianzhen Li,Lukasz Szpankowski,Brian Fowler,Peilin Chen,Naveen Ramalingam,Gang Sun,Myo Thu,Michael C Norris,Ronald Lebofsky,Dominique Toppani,Darnell W Kemp,Michael Wong,Barry Clerkson,Brittnee N. Jones,Shiquan Wu,Lawrence Knutsson,Beatriz Alvarado,Jing Wang,Lesley Suzanne Weaver,Andrew May,Robert C. Jones,Marc A. Unger,Arnold R. Kriegstein,Jay A. A. West +29 more
TL;DR: This paper identifies diverse cell types, including multiple progenitor and neuronal subtypes, and identifies EGR1 and FOS as previously unreported candidate targets of Notch signaling in human but not mouse radial glia by microfluidic single-cell capture and low-coverage sequencing of many cells.
Journal ArticleDOI
Spatiotemporal gene expression trajectories reveal developmental hierarchies of the human cortex
Tomasz J. Nowakowski,Aparna Bhaduri,Alex A. Pollen,Beatriz Alvarado,Mohammed A. Mostajo-Radji,Elizabeth Di Lullo,Maximilian Haeussler,Carmen Sandoval-Espinosa,Siyuan John Liu,Dmitry Velmeshev,Johain Ryad Ounadjela,Joe Shuga,Xiaohui Wang,Daniel A. Lim,Jay A. A. West,Anne A. Leyrat,W. James Kent,Arnold R. Kriegstein +17 more
TL;DR: The results support a mixed model of topographical, typological, and temporal hierarchies governing cell-type diversity in the developing human telencephalon, including distinct excitatory lineages emerging in rostral and caudal cerebral cortex.
Journal ArticleDOI
Molecular Identity of Human Outer Radial Glia during Cortical Development
Alex A. Pollen,Tomasz J. Nowakowski,Jiadong Chen,Hanna Retallack,Carmen Sandoval-Espinosa,Cory R. Nicholas,Joe Shuga,Siyuan John Liu,Michael C. Oldham,Aaron Diaz,Daniel A. Lim,Anne A. Leyrat,Jay A. A. West,Arnold R. Kriegstein +13 more
TL;DR: It is suggested that outer radial glia directly support the subventricular niche through local production of growth factors, potentiation of growth factor signals by extracellular matrix proteins, and activation of self-renewal pathways, thereby enabling the developmental and evolutionary expansion of the human neocortex.