Network inference with Granger causality ensembles on single-cell transcriptomics

by Atul Deshpande, Li-Fang Chu, Ron Stewart, Anthony Gitter
Published 2022-02-01

CHARTS: a web application for characterizing and comparing tumor subpopulations in publicly available single-cell RNA-seq data sets

by Matthew N. Bernstein, Zijian Ni, Michael Collins, Mark E. Burkard, Christina Kendziorski, Ron Stewart
Published 2021-02-01

Integrated module and gene-specific regulatory inference implicates upstream signaling networks.

by Sushmita Roy, Stephen Lagree, Zhonggang Hou, James A Thomson, Ron Stewart, Audrey P Gasch
Published 2013-01-01

Highly consistent, fully representative mRNA-Seq libraries from ten nanograms of total RNA

by Srikumar Sengupta, Victor Ruotti, Jennifer Bolin, Angela Elwell, Alvaro Hernandez, James A. Thomson, Ron Stewart
Published 2010-12-01

KinderMiner Web: a simple web tool for ranking pairwise associations in biomedical applications [version 2; peer review: 2 approved]

by Ian Ross, John Steill, James Thomson, Miron Livny, David Page, Finn Kuusisto, Ron Stewart, Daniel Ng
Published 2021-12-01

Trendy: segmented regression analysis of expression dynamics in high-throughput ordered profiling experiments

by Rhonda Bacher, Ning Leng, Li-Fang Chu, Zijian Ni, James A. Thomson, Christina Kendziorski, Ron Stewart
Published 2018-10-01

Transcriptomic clock predicts vascular changes of prodromal diabetic retinopathy

by Huishi Toh, Alexander Smolentsev, Ryan Sadjadi, Dennis Clegg, Jingqi Yan, Ron Stewart, James A. Thomson, Peng Jiang
Published 2023-08-01

Co-culture with mouse embryonic fibroblasts improves maintenance of metabolic function of human small hepatocyte progenitor cells

by Srikumar Sengupta, Brian Johnson, Morten Seirup, Hamisha Ardalani, Bret Duffin, Gregory A. Barrett-Wilt, Ron Stewart, James A. Thomson
Published 2020-06-01

An In Vitro Human Segmentation Clock Model Derived from Embryonic Stem Cells

by Li-Fang Chu, Daniel Mamott, Zijian Ni, Rhonda Bacher, Cathy Liu, Scott Swanson, Christina Kendziorski, Ron Stewart, James A. Thomson
Published 2019-08-01

Tenascin C Promotes Hematoendothelial Development and T Lymphoid Commitment from Human Pluripotent Stem Cells in Chemically Defined Conditions

by Gene Uenishi, Derek Theisen, Jeong-Hee Lee, Akhilesh Kumar, Matt Raymond, Maxim Vodyanik, Scott Swanson, Ron Stewart, James Thomson, Igor Slukvin
Published 2014-12-01

Evaluation of gene association methods for coexpression network construction and biological knowledge discovery.

by Sapna Kumari, Jeff Nie, Huann-Sheng Chen, Hao Ma, Ron Stewart, Xiang Li, Meng-Zhu Lu, William M Taylor, Hairong Wei
Published 2012-01-01

Development of Bipotent Cardiac/Skeletal Myogenic Progenitors from MESP1+ Mesoderm

by Sunny Sun-Kin Chan, Hannah R. Hagen, Scott A. Swanson, Ron Stewart, Karly A. Boll, Joy Aho, James A. Thomson, Michael Kyba
Published 2016-01-01

Development of an efficient targeted cell-SELEX procedure for DNA aptamer reagents.

by Susanne Meyer, John P Maufort, Jeff Nie, Ron Stewart, Brian E McIntosh, Lisa R Conti, Kareem M Ahmad, H Tom Soh, James A Thomson
Published 2013-01-01

Discovery of survival factor for primitive chronic myeloid leukemia cells using induced pluripotent stem cells

by Kran Suknuntha, Yuki Ishii, Lihong Tao, Kejin Hu, Brian E. McIntosh, David Yang, Scott Swanson, Ron Stewart, Jean Y.J. Wang, James Thomson, Igor Slukvin
Published 2015-11-01

Identification of the Hemogenic Endothelial Progenitor and Its Direct Precursor in Human Pluripotent Stem Cell Differentiation Cultures

by Kyung-Dal Choi, Maxim A. Vodyanik, Padma Priya Togarrati, Kran Suknuntha, Akhilesh Kumar, Fnu Samarjeet, Mitchell D. Probasco, Shulan Tian, Ron Stewart, James A. Thomson, Igor I. Slukvin
Published 2012-09-01

Serial KinderMiner (SKiM) discovers and annotates biomedical knowledge using co-occurrence and transformer models

by Robert J. Millikin, Kalpana Raja, John Steill, Cannon Lock, Xuancheng Tu, Ian Ross, Lam C. Tsoi, Finn Kuusisto, Zijian Ni, Miron Livny, Brian Bockelman, James Thomson, Ron Stewart
Published 2023-11-01

Endoglin integrates BMP and Wnt signalling to induce haematopoiesis through JDP2

by June Baik, Alessandro Magli, Naoyuki Tahara, Scott A. Swanson, Naoko Koyano-Nakagawa, Luciene Borges, Ron Stewart, Daniel J. Garry, Yasuhiko Kawakami, James A. Thomson, Rita C. R. Perlingeiro
Published 2016-10-01

Interspecies chimeric conditions affect the developmental rate of human pluripotent stem cells.

by Jared Brown, Christopher Barry, Matthew T Schmitz, Cara Argus, Jennifer M Bolin, Michael P Schwartz, Amy Van Aartsen, John Steill, Scott Swanson, Ron Stewart, James A Thomson, Christina Kendziorski
Published 2021-03-01

Effects of an In Vivo Vaping Challenge on In Vitro Interleukin‐6 Biosynthesis Pathways in Arterial Endothelial Cells Derived From Human Embryonic Stem Cells

by Matthew C. Tattersall, Stephane Esnault, Ron Stewart, David T. Vereide, Scott Swanson, Jue Zhang, John Steill, Nizar Jarjour, Kristin M. Hansen, Claudia E. Korcarz, Timothy B. Baker, James H. Stein
Published 2023-07-01

PAX7 Targets, CD54, Integrin α9β1, and SDC2, Allow Isolation of Human ESC/iPSC-Derived Myogenic Progenitors

by Alessandro Magli, Tania Incitti, James Kiley, Scott A. Swanson, Radbod Darabi, Fabrizio Rinaldi, Sridhar Selvaraj, Ami Yamamoto, Jakub Tolar, Ce Yuan, Ron Stewart, James A. Thomson, Rita C.R. Perlingeiro
Published 2017-06-01