Author details

Full Name

Joshua D Welch

Affiliation

University of Michigan ann arbor

ORCID

Career Start Year

2009

Papers

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
36993393	HIV-1 Vpr combats the PU.1-driven antiviral response in primary human macrophages.	bioRxiv	2024
36229609	Multi-omic single-cell velocity models epigenome-transcriptome interactions and improves cell fate prediction.	Nat Biotechnol	2023
37185464	Bone marrow endosteal stem cells dictate active osteogenesis and aggressive tumorigenesis.	Nat Commun	2023
35140223	UINMF performs mosaic integration of single-cell multi-omic datasets using nonnegative matrix factorization.	Nat Commun	2022
35561174	PyLiger: scalable single-cell multi-omic data integration in Python.	Bioinformatics	2022
36443296	The fate of early perichondrial cells in developing bones.	Nat Commun	2022
34016135	MichiGAN: sampling from disentangled representations of single-cell data using generative adversarial networks.	Genome Biol	2021
33651379	Intercellular Interactions of an Adipogenic CXCL12-Expressing Stromal Cell Subset in Murine Bone Marrow.	J Bone Miner Res	2021
34966906	Single-Cell Transcriptomic Analysis Reveals Developmental Relationships and Specific Markers of Mouse Periodontium Cellular Subsets.	Front Dent Med	2021
34616066	A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex.	Nature	2021
34706748	SquiggleNet: real-time, direct classification of nanopore signals.	Genome Biol	2021
34433496	Author Correction: Community-wide hackathons to identify central themes in single-cell multi-omics.	Genome Biol	2021
34523214	Functional coordination of non-myocytes plays a key role in adult zebrafish heart regeneration.	EMBO Rep	2021
34546975	Transcription factor FOXF1 identifies compartmentally distinct mesenchymal cells with a role in lung allograft fibrogenesis.	J Clin Invest	2021
34353350	Community-wide hackathons to identify central themes in single-cell multi-omics.	Genome Biol	2021
33046898	Jointly defining cell types from multiple single-cell datasets using LIGER.	Nat Protoc	2020
31949165	A Wnt-mediated transformation of the bone marrow stromal cell identity orchestrates skeletal regeneration.	Nat Commun	2020
30923225	Slide-seq: A scalable technology for measuring genome-wide expression at high spatial resolution.	Science	2019
31230860	Single-Cell Transcriptomic Analyses of Cell Fate Transitions during Human Cardiac Reprogramming.	Cell Stem Cell	2019
28738873	MATCHER: manifold alignment reveals correspondence between single cell transcriptome and epigenome dynamics.	Genome Biol	2017
29072293	Single-cell transcriptomics reconstructs fate conversion from fibroblast to cardiomyocyte.	Nature	2017
26740580	Robust detection of alternative splicing in a population of single cells.	Nucleic Acids Res	2016
27609902	TUT7 catalyzes the uridylation of the 3' end for rapid degradation of histone mRNA.	RNA	2016
27530426	Selective single cell isolation for genomics using microraft arrays.	Nucleic Acids Res	2016
27402160	A subset of replication-dependent histone mRNAs are expressed as polyadenylated RNAs in terminally differentiated tissues.	Nucleic Acids Res	2016
27215581	SLICER: inferring branched, nonlinear cellular trajectories from single cell RNA-seq data.	Genome Biol	2016
25765044	Pseudogenes transcribed in breast invasive carcinoma show subtype-specific expression and ceRNA potential.	BMC Genomics	2015
26377992	A multiprotein occupancy map of the mRNP on the 3' end of histone mRNAs.	RNA	2015
26015596	EnD-Seq and AppEnD: sequencing 3' ends to identify nontemplated tails and degradation intermediates.	RNA	2015
24656133	Deep sequencing shows multiple oligouridylations are required for 3' to 5' degradation of histone mRNAs on polyribosomes.	Mol Cell	2014
21210985	WordSeeker: concurrent bioinformatics software for discovering genome-wide patterns and word-based genomic signatures.	BMC Bioinformatics	2010
19814816	The word landscape of the non-coding segments of the Arabidopsis thaliana genome.	BMC Genomics	2009
19594877	Word-based characterization of promoters involved in human DNA repair pathways.	BMC Genomics	2009

1 - 33 of 33

Yan Wu

University of California

Career Start Year 2017

Number of shared co-authors 0

Rhonda Bacher

University of Florida

Career Start Year 2016

Number of shared co-authors 0

Samuel L Wolock

Beth Israel Deaconess Medical Center

Career Start Year 2013

Number of shared co-authors 0

Qian Zhu

Boston Children's Hospital

Career Start Year 2013

Number of shared co-authors 4

Aaron Diaz

University of California san francisco

Career Start Year 2012

Number of shared co-authors 1

Charity W Law

The Walter and Eliza Hall Institute of Medical Research

Career Start Year 2011

Number of shared co-authors 2

Jason D Buenrostro

Harvard University, Broad Institute of MIT and Harvard

Career Start Year 2010

Number of shared co-authors 3

Owen J L Rackham

Duke-National University of Singapore

Career Start Year 2010

Number of shared co-authors 0

Akira Hasegawa

RIKEN Center for Integrative Medical Sciences

Career Start Year 2008

Number of shared co-authors 0

Oliver Stegle

Wellcome Sanger Institute

Career Start Year 2008

Number of shared co-authors 5

Jonathan E Bard

University at Buffalo

Career Start Year 2007

Number of shared co-authors 0

Altuna Akalin

Berlin Institute for Medical Systems Biology

Career Start Year 2006

Number of shared co-authors 1

Rahul Satija

Center for Genomics and Systems Biology, New York University

Career Start Year 2006

Number of shared co-authors 9

Joshua W K Ho

The University of Hong Kong

Career Start Year 2006

Number of shared co-authors 0

Kun Zhang

China Pharmaceutical University

Career Start Year 2005

Number of shared co-authors 20

Jessica C Mar

Australian Institute for Bioengineering and Nanotechnology, University of Queensland

Career Start Year 2005

Number of shared co-authors 2

Patrick Cahan

Johns Hopkins University

Career Start Year 2005

Number of shared co-authors 2

Kun Qu

University of Science and Technology of China

Career Start Year 2005

Number of shared co-authors 1

Kasper D Hansen

Johns Hopkins University School of Medicine

Career Start Year 2004

Number of shared co-authors 9

John C Marioni

Cancer Research UK Cambridge Institute, University of Cambridge

Career Start Year 2004

Number of shared co-authors 2

Gerald Quon

University of California davis

Career Start Year 2003

Number of shared co-authors 5

Zhandong Liu

Jan and Dan Duncan Neurological Research Institute at Texas Children's Hospital

Career Start Year 2003

Number of shared co-authors 3

Fuchou Tang

College of Life Sciences

Career Start Year 2002

Number of shared co-authors 1

Dana Pe'er

Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center

Career Start Year 2000

Number of shared co-authors 1

Kai Tan

University of Pennsylvania

Career Start Year 1999

Number of shared co-authors 0

Mark D Robinson

University of Zurich

Career Start Year 1997

Number of shared co-authors 1

Wolfgang Huber

Technische Universitat Munchen

Career Start Year 1995

Number of shared co-authors 6

Aaron M Newman

Stanford University

Career Start Year 1994

Number of shared co-authors 1

Alistair R R Forrest

RIKEN Center for Integrative Medical Sciences

Career Start Year 1994

Number of shared co-authors 0

Fabian J Theis

Technical University of Munich

Career Start Year 1992

Number of shared co-authors 1

row(s) 1 - 30 of 30

William F Marzluff

University of North Carolina at Chapel Hill

Co-authored papers 5

Evan Z Macosko

Co-authored papers 3

Vera Pancaldi

Universite de Toulouse, Inserm, CNRS, Universite Toulouse III-Paul Sabatier

Co-authored papers 2

Elana J Fertig

Johns Hopkins University School of Medicine

Co-authored papers 2

Susan Holmes

Stanford University

Co-authored papers 2

Matthew E Ritchie

The University of Melbourne

Co-authored papers 2

Ruben Dries

Boston University School of Medicine

Co-authored papers 2

Genevieve L Stein-O'Brien

Johns Hopkins School of Medicine

Co-authored papers 2

Kris Sankaran

University of Wisconsin - Madison, 1300 University Ave

Co-authored papers 2

Amrit Singh

St. Paul's Hospital, University of British Columbia

Co-authored papers 2

Aedin C Culhane

Dana-Farber Cancer Institute & Harvard School of Public Health

Co-authored papers 2

Arshi Arora

Memorial Sloan Kettering Cancer Center

Co-authored papers 2

Dario Righelli

University of Padova

Co-authored papers 2

Vincent J Carey

Brigham and Women's Hospital, Harvard Medical School

Co-authored papers 2

Casey S Greene

Dartmouth College Geisel School of Medicine, Princeton University, University of Colorado Anschutz Medical Campus, University of Pennsylvania Perelman School of Medicine

Co-authored papers 2

Michael I Love

University of North Carolina at Chapel Hill

Co-authored papers 2

Michael L Whitfield

Geisel School of Medicine at Dartmouth

Co-authored papers 2

Ayshwarya Subramanian

Broad Institute of MIT and Harvard

Co-authored papers 2

Pratheepa Jeganathan

McMaster University