Joshua D. Welch

Biochemistry, Genetics and Molecular Biology

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 1%percentile

10.2Author DataRank

Indexed papers

3in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Why this DataRank?

An author's DataRank is the sum of the DataRanks of all 3 indexed papers attributed to them. A prolific author with many moderate-impact papers can outrank one with a single high-impact paper.

Author scores recompute whenever paper DataRanks are refreshed, so this number lags the underlying paper scores by at most one batch run.

Read the full methodology →

The highest-impact dataset this researcher has shared, ranked by DataRank — the single contribution doing the most to lift their data-sharing standing.

A multimodal cell census and atlas of the mammalian primary motor cortex

Nature(2021)10.1038/s41586-021-03950-0

Top 5%

4.3DataRank

Top 5%574 citations

BRAIN Initiative Cell Census Network (BICCN) Corresponding authors, Edward M. Callaway, Joseph R. Ecker, Z. Josh Huang, Ed S. Lein +252 more

Papers

Driven by 53 papers — median percentile 95. Top paper: “Jointly defining cell types from multiple single-cell datasets using LIGER”.

Jointly defining cell types from multiple single-cell datasets using LIGER

Nature Protocols(2020)10.1038/s41596-020-0391-8

N/A

5.5DataRank · unranked

223 citations

Chao Gao, Joshua Sodicoff, Velina Kozareva, Evan Z. Macosko, Joshua D. Welch +1 more

A multimodal cell census and atlas of the mammalian primary motor cortex

Nature(2021)10.1038/s41586-021-03950-0

Top 5%

4.3DataRank

Top 5%574 citations

BRAIN Initiative Cell Census Network (BICCN) Corresponding authors, Edward M. Callaway, Joseph R. Ecker, Z. Josh Huang, Ed S. Lein +252 more

A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex

Nature(2021)10.1038/s41586-021-03500-8

Top 5%

4.2DataRank

Top 5%389 citations

Julie A. Harris, Fangming Xie, Stephan Fischer, Ricky S. Adkins, Andrew I. Aldridge +81 more

An integrated transcriptomic and epigenomic atlas of mouse primary motor cortex cell types

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.02.29.970558

Top 13%

1.6DataRank

Top 13%63 citations

Julie A. Harris, Fangming Xie, Stephan Fischer, A. Sina Booeshaghi, Ricky S. Adkins +78 more

Opportunities and challenges of single-cell and spatially resolved genomics methods for neuroscience discovery

Nature Neuroscience(2024)10.1038/s41593-024-01806-0

N/A

0.691DataRank · unranked

29 citations

Gonçalo Castelo-Branco, Fei Chen, Simone Codeluppi, M. Ryan Corces, Jean Fan +26 more

Community-wide hackathons to identify central themes in single-cell multi-omics

Genome Biology(2021)10.1186/s13059-021-02433-9

N/A

0.436DataRank · unranked

15 citations

Al J. Abadi, Emily F. Davis-Marcisak, Lauren Hsu, Arshi Arora, Alexis Coullomb +26 more

A subset of replication-dependent histone mRNAs are expressed as polyadenylated RNAs in terminally differentiated tissues

UNC Libraries(2020)10.17615/z4k4-jh72

N/A

0.231DataRank · unranked

2 citations

Bruce Wei, Clark H. Cunningham, Michael L. Whitfield, Andrew Y. Guo, Yue Xiong +4 more

Author Correction: Opportunities and challenges of single-cell and spatially resolved genomics methods for neuroscience discovery

Nature Neuroscience(2024)10.1038/s41593-024-01858-2

N/A

0.118DataRank · unranked

1 citations

Gonçalo Castelo-Branco, Fei Chen, Simone Codeluppi, M. Ryan Corces, Jean Fan +26 more

G-CSF Secreted by Epigenetically Reprogrammed Mutant IDH1 Glioma Stem Cells Reverses the Myeloid Cells’-Mediated Immunosuppressive Tumor Microenvironment

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.07.22.215954

N/A

0DataRank · unranked

3 citations

Ruthvik Avvari, Rohit Thalla, Neha Kamran, Li Zhang, Maria Ventosa +22 more

Selective single cell isolation for genomics using microraft arrays

UNC Libraries(2020)10.17615/8nga-h193

N/A

0DataRank · unranked

0 citations

Jen Jen Yeh, Jan F. Prins, Nancy L. Allbritton, Matthew DiSalvo, Lindsay A. Williams +5 more

TUT7 catalyzes the uridylation of the 3′ end for rapid degradation of histone mRNA

UNC Libraries(2020)10.17615/ynx7-r453

N/A

0DataRank · unranked

0 citations

Joshua D. Welch, William F. Marzluff, Patrick E. Lackey

EnD-Seq and AppEnD: sequencing 3′ ends to identify nontemplated tails and degradation intermediates

UNC Libraries(2020)10.17615/4892-zp08

N/A

0DataRank · unranked

0 citations

Michael K. Slevin, Robert J. Duronio, William F. Marzluff, Joshua D. Welch, Deirdre C. Tatomer +1 more

A multiprotein occupancy map of the mRNP on the 3′ end of histone mRNAs

UNC Libraries(2020)10.17615/1kky-9302

N/A

0DataRank · unranked

0 citations

Joshua D. Welch, Zhongle Liu, Lionel Brooks, Michael L. Whitfield, J. Matthew Mahoney +2 more

Deep Sequencing Shows Multiple Oligouridylations Are Required for 3′ to 5′ Degradation of Histone mRNAs on Polyribosomes

UNC Libraries(2020)10.17615/vpx2-af04

N/A

0DataRank · unranked

0 citations

Robert E. Rhoads, Stacie Meaux, Paula L. Miliani de Marval, Joshua D. Welch, Rebecca S. Bigler +4 more

Pseudogenes transcribed in breast invasive carcinoma show subtype-specific expression and ceRNA potential

UNC Libraries(2020)10.17615/68b3-p023

N/A

0DataRank · unranked

0 citations

Jan F. Prins, Charles M. Perou, Jeanette Baran‐Gale, Praveen Sethupathy, Joshua D. Welch

Robust detection of alternative splicing in a population of single cells

UNC Libraries(2020)10.17615/5vp3-0y60

N/A

0DataRank · unranked

0 citations

Joshua D. Welch, Yin Hu, Jan F. Prins

SquiggleNet: real-time, direct classification of nanopore signals

Genome biology(2021)10.1186/s13059-021-02511-y

N/A

0DataRank · unranked

88 citations

Jack Wadden, John R. Erb‐Downward, Piyush Ranjan, Weichen Zhou, T. L. McDonald +6 more

Single-Cell Transcriptomic Analysis Reveals Developmental Relationships and Specific Markers of Mouse Periodontium Cellular Subsets

Frontiers in Dental Medicine(2021)10.3389/fdmed.2021.679937

N/A

0DataRank · unranked

39 citations

Angel Ka Yan Chu, Noriaki Ono, Joshua D. Welch, Wanida Ono, Mizuki Nagata

Functional coordination of non-myocytes plays a key role in adult zebrafish heart regeneration

EMBO Reports(2021)10.15252/embr.202152901

N/A

0DataRank · unranked

43 citations

Ziqing Liu, Yuchen Yang, Dong Feng, Yanhan Dong, Tiffany A. Garbutt +9 more

Single-cell multi-omic velocity infers dynamic and decoupled gene regulation

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.12.13.472472

N/A

0DataRank · unranked

20 citations

Maria Virgilio, Kathleen L. Collins, Joshua D. Welch, Chen Li

Real-Time, Direct Classification of Nanopore Signals with SquiggleNet

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.01.15.426907

N/A

0DataRank · unranked

6 citations

Jack Wadden, John R. Erb‐Downward, Piyush Ranjan, Weichen Zhou, T. L. McDonald +6 more

Nonnegative matrix factorization integrates single-cell multi-omic datasets with partially overlapping features

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.04.09.439160

N/A

0DataRank · unranked

5 citations

Joshua D. Welch, April R. Kriebel

Multi-omic single-cell velocity models epigenome–transcriptome interactions and improves cell fate prediction

Nature Biotechnology(2022)10.1038/s41587-022-01476-y

N/A

0DataRank · unranked

139 citations

Maria Virgilio, Kathleen L. Collins, Joshua D. Welch, Chen Li

UINMF performs mosaic integration of single-cell multi-omic datasets using nonnegative matrix factorization

Nature Communications(2022)10.1038/s41467-022-28431-4

N/A

0DataRank · unranked

83 citations

Joshua D. Welch, April R. Kriebel

PerturbNet predicts single-cell responses to unseen chemical and genetic perturbations

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.07.20.500854

N/A

0DataRank · unranked

24 citations

Joshua D. Welch, Hengshi Yu

MorphNet Predicts Cell Morphology from Single-Cell Gene Expression

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.10.21.513201

N/A

0DataRank · unranked

13 citations

Joshua D. Welch, Hojae Lee

Endosteal stem cells at the bone‐blood interface: A double‐edged sword for rapid bone formation

BioEssays(2023)10.1002/bies.202300173

N/A

0DataRank · unranked

2 citations

Jialin Liu, Angel Ka Yan Chu, Wanida Ono, Joshua D. Welch, Noriaki Ono +1 more

Predicting the Structural Impact of Human Alternative Splicing

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.12.21.572928

N/A

0DataRank · unranked

8 citations

Chengxin Zhang, Gilbert S. Omenn, Matthew J. O’Meara, Joshua D. Welch, Yuxuan Song

H3.3-G34R Mutation-Mediated Epigenetic Reprogramming Leads to Enhanced Efficacy of Immune Stimulatory Gene Therapy in Diffuse Hemispheric Gliomas

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.06.13.544658

N/A

0DataRank · unranked

7 citations

Santiago Haase, Kaushik Banerjee, Ziwen Zhu, Brandon L. McClellan, Anzar Mujeeb +39 more

HIV-1 Vpr combats the PU.1-driven antiviral response in primary human macrophages

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.03.21.533528

N/A

0DataRank · unranked

2 citations

Barkha Ramnani, Thomas Chen, W. Miguel Disbennett, Jay Lubow, Joshua D. Welch +2 more

Autophagy and machine learning: Unanswered questions

Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease(2024)10.1016/j.bbadis.2024.167263

N/A

0DataRank · unranked

9 citations

Zhaoying Pan, Jianhui Sun, Joshua D. Welch, Daniel J. Klionsky, Ying Yang

HIV-1 Vpr combats the PU.1-driven antiviral response in primary human macrophages

Nature Communications(2024)10.1038/s41467-024-49635-w

N/A

0DataRank · unranked

9 citations

Barkha Ramnani, Thomas Chen, W. Miguel Disbennett, Jay Lubow, Joshua D. Welch +2 more

Linking transcriptome and morphology in bone cells at cellular resolution with generative AI

Journal of Bone and Mineral Research(2024)10.1093/jbmr/zjae151

N/A

0DataRank · unranked

5 citations

Noriaki Ono, Joshua D. Welch, Lu Lu

Integrating single-cell multimodal epigenomic data using 1D convolutional neural networks

Bioinformatics(2024)10.1093/bioinformatics/btae705

N/A

0DataRank · unranked

4 citations

Joshua D. Welch, Chao Gao

Integrating single-cell multimodal epigenomic data using 1D-convolutional neural networks

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.02.16.580655

N/A

0DataRank · unranked

3 citations

Joshua D. Welch, Chao Gao

Epigenetic Reprogramming of Autophagy Leads to Uncovering a Novel Therapeutic Target for Mutant IDH1 Astrocytomas

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.03.08.584091

N/A

0DataRank · unranked

3 citations

Kaushik Banerjee, Anzar Mujeeb, Ava Mauser, Claire E. Tronrud, Ziwen Zhu +25 more

TMIC-62. INVESTIGATING THE ROLE OF OSTEOPONTIN IN RADIORESISTANCE OF H3.3-G34R PEDIATRIC HIGH-GRADE GLIOMA

Neuro-Oncology(2024)10.1093/neuonc/noae165.1240

N/A

0DataRank · unranked

1 citations

Santiago Haase, María L. Varela, Joshua D. Welch, Pedro R. Löwenstein, María G. Castro +1 more

Techniques and analytic workflow for spatial transcriptomics and its application to allergy and inflammation

Journal of Allergy and Clinical Immunology(2025)10.1016/j.jaci.2025.01.009

N/A

0DataRank · unranked

12 citations

Matthew T. Patrick, Jingyu Zhao, Xintong Zhai, Jialin Liu, Zheng Li +7 more

Lung CD4+ resident memory T cells use airway secretory cells to stimulate and regulate onset of allergic airway neutrophilic disease

Cell Reports(2025)10.1016/j.celrep.2025.115294

N/A

0DataRank · unranked

12 citations

F.T. Korkmaz, C. Lyon De Ana, Lu Lu, Feng-Zhi Shao, C. Odom +15 more

Wnt-directed CXCL12-expressing apical papilla progenitor cells drive tooth root formation

Nature Communications(2025)10.1038/s41467-025-61048-x

N/A

0DataRank · unranked

7 citations

Gaurav Gadhvi, Taishi Komori, Yuki Arai, Hiroaki Manabe, Angel Ka Yan Chu +12 more

Predicting the structural impact of human alternative splicing

Genome biology(2025)10.1186/s13059-025-03744-x

N/A

0DataRank · unranked

3 citations

Chengxin Zhang, Gilbert S. Omenn, Matthew J. O’Meara, Joshua D. Welch, Yuxuan Song

Molecular effects of transposable element sequences in mammalian cells

Genome biology(2025)10.1186/s13059-025-03883-1

N/A

0DataRank · unranked

1 citations

Joshua D. Welch, Ming Wen

Evidence for Transcriptomic Conservation Between the Main Cells of the Drosophila Prostate-Like Accessory Gland and Basal Cells of the Mammalian Prostate

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.06.05.658085

N/A

0DataRank · unranked

1 citations

April R. Kriebel, Joshua D. Welch, Laura Buttitta, S. Jaimian Church

HPV integration in head and neck cancer: downstream splicing events and expression ratios linked with poor outcomes

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.01.17.633627

N/A

0DataRank · unranked

0 citations

Shaomiao Xia, Maria Lawas, Aishani Kulshreshtha, Bailey F. Garb, Alicia Perera +7 more

Autophagy Upregulation in Mutant Isocitrate Dehydrogenase 1 (IDH1) Glioma Uncovers a Novel Therapeutic Target

Research Square(2025)10.21203/rs.3.rs-7483444/v1

N/A

0DataRank · unranked

0 citations

Felipe J. Núñez, Kaushik Banerjee, Anzar Mujeeb, Ava Mauser, Claire E. Tronrud +24 more

HPV Integration in Head and Neck Cancer: Downstream Splicing Events and Expression Ratios Linked with Poor Outcomes

Clinical Cancer Research(2025)10.1158/1078-0432.ccr-25-0645

N/A

0DataRank · unranked

0 citations

Shaomiao Xia, Maria Lawas, Aishani Kulshreshtha, Bailey F. Garb, Sarah Soppe +10 more

Community-wide hackathons to identify central themes in single-cell multi-omics

UNC Libraries(2025)10.17615/96cj-z232

N/A

0DataRank · unranked

0 citations

Al J. Abadi, Emily F. Davis-Marcisak, Lauren Hsu, Arshi Arora, Alexis Coullomb +26 more

Author Correction: Community-wide hackathons to identify central themes in single-cell multi-omics

Genome Biology(2021)10.1186/s13059-021-02468-y

N/A

0DataRank · unranked

0 citations

Al J. Abadi, Emily F. Davis-Marcisak, Lauren Hsu, Arshi Arora, Alexis Coullomb +26 more

Author Correction: Community-wide hackathons to identify central themes in single-cell multi-omics

UNC Libraries(2025)10.17615/vzc0-qk25

N/A

0DataRank · unranked

0 citations

Al J. Abadi, Emily F. Davis-Marcisak, Lauren Hsu, Arshi Arora, Alexis Coullomb +26 more

Intercellular Interactions of an Adipogenic CXCL12-Expressing Stromal Cell Subset in Murine Bone Marrow

Journal of Bone and Mineral Research(2020)10.1002/jbmr.4282

N/A

0DataRank · unranked

25 citations

Angel Ka Yan Chu, Wanida Ono, Joshua D. Welch, Noriaki Ono, Yuki Matsushita

Jointly Defining Cell Types from Multiple Single-Cell Datasets Using LIGER

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.04.07.029546

N/A

0DataRank · unranked

20 citations

Chao Gao, Joshua Sodicoff, Velina Kozareva, Evan Z. Macosko, Joshua D. Welch +1 more

Iterative Refinement of Cellular Identity from Single-Cell Data Using Online Learning

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.01.16.909861

N/A

0DataRank · unranked

9 citations

Sebastian Preissl, Chongyuan Luo, Rosa G. Castanon, Justin P. Sandoval, Angeline C. Rivkin +6 more

Single-Cell Analysis of the 3D Topologies of Genomic Loci Using Genome Architecture Mapping

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.02.10.941047

N/A

0DataRank · unranked

4 citations

Catherine Baugher, Yingnan Zhang, Trenton J. Davis, William F. Marzluff, Joshua D. Welch +2 more

Joshua D. Welch

Indexed papers

Top data-sharing exemplar

Papers