🏆 Finalist — NIH Data Sharing Index (“S-Index”) Challenge

Mehrtash Babadi

Broad Institute

ORCID: 0000-0003-1829-8397
Biochemistry, Genetics and Molecular BiologyPhysics and Astronomy

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 5%percentile
0.495Author 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 →

Top data-sharing exemplar

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

Transcriptional profile of the rat cardiovascular system at single-cell resolution

Cell Reports(2024)10.1016/j.celrep.2024.115091
Top 39%
0.495DataRank
Top 39%15 citations

Stephen J. Fleming, Ling Xiao, Amelia Weber Hall, Amer-Denis Akkad, Mark Chaffin +12 more

Papers

Driven by 23 papers — median percentile 61. Top paper: “COVID-19 tissue atlases reveal SARS-CoV-2 pathology and cellular targets”.

COVID-19 tissue atlases reveal SARS-CoV-2 pathology and cellular targets

Nature(2021)10.1038/s41586-021-03570-8
N/A
10.7DataRank · unranked
879 citations

Carly G.K. Ziegler, Graham Heimberg, Rachelly Normand, Yiming Yang, Åsa Segerstolpe +95 more

High-throughput RNA isoform sequencing using programmed cDNA concatenation

Nature Biotechnology(2023)10.1038/s41587-023-01815-7
N/A
3.9DataRank · unranked
181 citations

Jonathan T. Smith, Kiran Garimella, Mehrtash Babadi, Victoria Popic, Moshe Sade-Feldman +14 more

Rare coding variation provides insight into the genetic architecture and phenotypic context of autism

Nature Genetics(2022)10.1038/s41588-022-01104-0
N/A
0.969DataRank · unranked
638 citations

F. Kyle Satterstrom, Minshi Peng, Harrison Brand, Ryan L. Collins, Shan Dong +112 more

GATK-gCNV enables the discovery of rare copy number variants from exome sequencing data

Nature Genetics(2023)10.1038/s41588-023-01449-0
N/A
0.722DataRank · unranked
122 citations

Jack Fu, Samuel K. Lee, Andrey N. Smirnov, Laura D. Gauthier, Mark Walker +10 more

A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.10.27.514070
N/A
0.677DataRank · unranked
16 citations

Dimitra Karagkouni, Nikolaos Kalavros, Johannes C. Melms, Sebastian Niezen, Toni Marie Delorey +63 more

Rare coding variation illuminates the allelic architecture, risk genes, cellular expression patterns, and phenotypic context of autism

10.1101/2021.12.20.21267194
N/A
0.538DataRank · unranked
35 citations

F. Kyle Satterstrom, Minshi Peng, Harrison Brand, Ryan L. Collins, Shan Dong +60 more

Transcriptional profile of the rat cardiovascular system at single-cell resolution

Cell Reports(2024)10.1016/j.celrep.2024.115091
Top 39%
0.495DataRank
Top 39%15 citations

Stephen J. Fleming, Ling Xiao, Amelia Weber Hall, Amer-Denis Akkad, Mark Chaffin +12 more

A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients

Genome Biology(2025)10.1186/s13059-025-03499-5
N/A
0.363DataRank · unranked
7 citations

Dimitra Karagkouni, Nikolaos Kalavros, Johannes C. Melms, Sebastian Niezen, Toni Marie Delorey +70 more

High-throughput RNA isoform sequencing using programmable cDNA concatenation

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.10.01.462818
N/A
0DataRank · unranked
26 citations

Jonathan T. Smith, Kiran Garimella, Mehrtash Babadi, Moshe Sade-Feldman, Michael Gatzen +14 more

Transcriptional and Cellular Diversity of the Human Heart

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.01.06.896076
N/A
0DataRank · unranked
54 citations

Mark Chaffin, Stephen J. Fleming, Amelia Weber Hall, Victoria A. Parsons, Kenneth Bedi +13 more

Natural history of Ebola virus disease in rhesus monkeys shows viral variant emergence dynamics and tissue-specific host responses

Cell Genomics(2023)10.1016/j.xgen.2023.100440
N/A
0DataRank · unranked
6 citations

Sergio Triana, Siddharth S. Raju, Tammy C. T. Lan, Kim A. Lagerborg, Melissa A. Rudy +27 more

SynapseCLR: Uncovering features of synapses in primary visual cortex through contrastive representation learning

Patterns(2023)10.1016/j.patter.2023.100693
N/A
0DataRank · unranked
3 citations

Mehrtash Babadi, Alyssa M. Wilson

Capturing cell heterogeneity in representations of cell populations for image-based profiling using contrastive learning

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.11.14.567038
N/A
0DataRank · unranked
5 citations

John Arévalo, Mehrtash Babadi, Anne E. Carpenter, Shantanu Singh, Robert van Dijk

Transcriptional profile of the rat cardiovascular system at single cell resolution

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.11.14.567085
N/A
0DataRank · unranked
3 citations

Stephen J. Fleming, Ling Xiao, Amelia Weber Hall, Amer-Denis Akkad, Mark Chaffin +11 more

Learning representations for image-based profiling of perturbations

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.08.12.503783
N/A
0DataRank · unranked
45 citations

Michael Bornholdt, Santiago Benoit, Matthew Smith, Claire McQuin, Allen Goodman +9 more

Capturing cell heterogeneity in representations of cell populations for image-based profiling using contrastive learning

PLoS Computational Biology(2024)10.1371/journal.pcbi.1012547
N/A
0DataRank · unranked
8 citations

John Arévalo, Mehrtash Babadi, Anne E. Carpenter, Shantanu Singh, Robert van Dijk

Robust self-supervised denoising of voltage imaging data using CellMincer

npj Imaging(2024)10.1038/s44303-024-00055-x
N/A
0DataRank · unranked
4 citations

Tianle Ma, Theresa Chen, Trinh Nguyen, Ethan Crouse, Stephen J. Fleming +7 more

Robust self-supervised denoising of voltage imaging data using CellMincer

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.04.12.589298
N/A
0DataRank · unranked
6 citations

Tianle Ma, Theresa Chen, Trinh Nguyen, Ethan Crouse, Stephen J. Fleming +7 more

TissueMosaic: Self-supervised learning of tissue representations enables differential spatial transcriptomics across samples

Cell Systems(2025)10.1016/j.cels.2025.101394
N/A
0DataRank · unranked
1 citations

Luca D’Alessio, Fedor Grab, Stephen J. Fleming, Sophia Liu, Ruth Raichur +3 more

Accelerating scRNA-seq Analysis: Automated cell type annotation using representation learning and vector search

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.10.06.680787
N/A
0DataRank · unranked
1 citations

Fedor Grab, Govinda M. Kamath, Yerdos Ordabayev, Jeff Mellen, Patrick Roelli +12 more

Learning representations for image-based profiling of perturbations

Nature Communications(2024)10.1038/s41467-024-45999-1
N/A
0DataRank · unranked
105 citations

Michael Bornholdt, Santiago Benoit, Matthew Smith, Claire McQuin, Allen Goodman +9 more

GATK-gCNV: A Rare Copy Number Variant Discovery Algorithm and Its Application to Exome Sequencing in the UK Biobank

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.08.25.504851
N/A
0DataRank · unranked
13 citations

Jack Fu, Samuel K. Lee, Andrey N. Smirnov, Laura D. Gauthier, Mark Walker +9 more

Uncovering features of synapses in primary visual cortex through contrastive representation learning

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.06.07.495207
N/A
0DataRank · unranked
0 citations

Mehrtash Babadi, Alyssa M. Wilson