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

Venkat S. Malladi

The University of Texas Southwestern Medical Center

ORCID: 0000-0002-0144-0564
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
10.6Author DataRank

Indexed papers

7in 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 7 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.

A comparative encyclopedia of DNA elements in the mouse genome

Nature(2014)10.1038/nature13992
Top 2%
7.9DataRank
Top 2%1946 citations

Yong Cheng, Alessandra Breschi, Jost Vielmetter, Weisheng Wu, Tyrone Ryba +150 more

Papers

Driven by 24 papers — median percentile 37. Top paper: “A comparative encyclopedia of DNA elements in the mouse genome”.

A comparative encyclopedia of DNA elements in the mouse genome

Nature(2014)10.1038/nature13992
Top 2%
7.9DataRank
Top 2%1946 citations

Yong Cheng, Alessandra Breschi, Jost Vielmetter, Weisheng Wu, Tyrone Ryba +150 more

Open collaborative writing with Manubot

PLOS Computational Biology(2019)10.1371/journal.pcbi.1007128
N/A
4.2DataRank · unranked
83 citations

Vincent Rubinetti, David R. Slochower, Dongbo Hu, Venkat S. Malladi, Casey S. Greene +2 more

The ENCODE Uniform Analysis Pipelines

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.04.04.535623
Top 11%
2.0DataRank
Top 11%102 citations

Jin-Wook Lee, Otto Jolanki, Meenakshi S. Kagda, Keenan Graham, Paul Sud +55 more

gene-ontology: Initial zenodo release

Zenodo (CERN European Organization for Nuclear Research)(2015)10.5281/zenodo.21711
Top 58%
0.271DataRank
Top 58%4 citations

Casey S. Greene, Venkat S. Malladi, Frederic Bastian, Sergio E. Baranzini, Daniel S. Himmelstein

Decoding Human Genome Regulatory Features That Influence HIV-1 Proviral Expression and Fate Through an Integrated Genomics Approach

Bioinformatics and Biology Insights(2022)10.1177/11779322211072333
Top 63%
0.216DataRank
Top 63%3 citations

Jeon Lee, Carlos Guzman, Venkat S. Malladi, Iván D’Orso, Holly Ruess

An integrated genomics approach towards deciphering human genome codes shaping HIV-1 proviral transcription and fate

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.05.01.072231
Top 66%
0.186DataRank
Top 66%2 citations

Jeon Lee, Carlos Guzman, Venkat S. Malladi, Iván D’Orso, Holly Ruess

PARP-1 Regulates Estrogen-Dependent Gene Expression in Estrogen Receptor α–Positive Breast Cancer Cells

Molecular Cancer Research(2021)10.1158/1541-7786.mcr-21-0103
N/A
0DataRank · unranked
24 citations

Cristel V. Camacho, Venkat S. Malladi, Charles R. Hutti, Anusha Nagari, W. Lee Kraus +1 more

A scalable open-source MATLAB toolbox for reconstruction and analysis of multispectral optoacoustic tomography data

Scientific Reports(2021)10.1038/s41598-021-97726-1
N/A
0DataRank · unranked
8 citations

James W. Campbell, Jeni Gerberich, Paniz Karbasi, Venkat S. Malladi, Andrew R. Jamieson +3 more

SeqWho: Reliable, rapid determination of sequence file identity using k -mer frequencies

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.03.10.434827
Top 100%
0DataRank
Top 100%0 citations

Micah Thornton, Chanhee Park, Gervaise H. Henry, Yun Zhang, Venkat S. Malladi +2 more

Glucose starvation induces a switch in the histone acetylome for activation of gluconeogenic and fat metabolism genes

Molecular Cell(2022)10.1016/j.molcel.2021.12.015
N/A
0DataRank · unranked
93 citations

Benjamin M. Sutter, Holly Ruess, Spencer Barnes, Venkat S. Malladi, Benjamin P. Tu +1 more

Targeting ESR1 mutation–induced transcriptional addiction in breast cancer with BET inhibition

JCI Insight(2022)10.1172/jci.insight.151851
N/A
0DataRank · unranked
11 citations

Qian Wang, Sunil Kumar, Venkat S. Malladi, Szu‐Yuan Wu, Shuguang Wei +19 more

SeqWho: reliable, rapid determination of sequence file identity usingk-mer frequencies in Random Forest classifiers

Bioinformatics(2022)10.1093/bioinformatics/btac050
N/A
0DataRank · unranked
0 citations

Micah Thornton, Chanhee Park, Gervaise H. Henry, Yun Zhang, Venkat S. Malladi +2 more

TReNCo: Topologically associating domain (TAD) aware regulatory network construction

F1000Research(2022)10.12688/f1000research.110936.1
N/A
0DataRank · unranked
0 citations

Viren Amin, Daehwan Kim, Murat Can Çobanoğlu, Venkat S. Malladi, Christopher Bennett

Novel long non-coding RNAs associated with inflammation and macrophage activation in human

Scientific Reports(2023)10.1038/s41598-023-30568-1
N/A
0DataRank · unranked
40 citations

Prarthana Guha, Venkat S. Malladi, Zibiao Guo, Subhrangsu S. Mandal, Avisankar Chini

Tumor loss-of-function mutations in STK11/LKB1 induce cachexia

JCI Insight(2023)10.1172/jci.insight.165419
N/A
0DataRank · unranked
20 citations

Aakash Y. Gandhi, Jorge Z. Granados, Tong Guo, Arun Gupta, Jinhai Yu +15 more

The ENCODE Uniform Analysis Pipelines

Research Square(2023)10.21203/rs.3.rs-3111932/v1
N/A
0DataRank · unranked
39 citations

Jin-Wook Lee, Otto Jolanki, Meenakshi S. Kagda, Keenan Graham, Paul Sud +57 more

The GA4GH Task Execution Application Programming Interface: Enabling Easy Multicloud Task Execution

Computing in Science & Engineering(2024)10.1109/mcse.2024.3414994
N/A
0DataRank · unranked
2 citations

Matthew H. McLoughlin, Liam Beckman, Venkat S. Malladi, Kyle Ellrott, Alexander Kanitz

A multi-omic single-cell landscape of human gynecologic malignancies

UNC Libraries(2024)10.17615/xche-a753
Top 100%
0DataRank
Top 100%0 citations

Raúl Méndez-Giráldez, Matthew J. Regner, S. Garcia-Recio, Victoria Bae‐Jump, Venkat S. Malladi +6 more

sciLaMA: A Single-Cell Representation Learning Framework to Leverage Prior Knowledge from Large Language Models

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.01.28.635153
N/A
0DataRank · unranked
3 citations

Shuwen Zhang, Yongin Choi, Venkat S. Malladi, Gerald Quon, Hongru Hu

Loss of CHD1 Promotes Heterogeneous Mechanisms of Resistance to AR-Targeted Therapy via Chromatin Dysregulation

Cancer Cell(2020)10.1016/j.ccell.2020.03.001
N/A
0DataRank · unranked
166 citations

Chuanli Zhou, Xiaoling Li, Spencer Barnes, Su Deng, Elizabeth Hoover +27 more

Urethral luminal epithelia are castration‐insensitive cells of the proximal prostate

The Prostate(2020)10.1002/pros.24020
N/A
0DataRank · unranked
117 citations

Gervaise H. Henry, Alicia Malewska, Nida S. Iqbal, Hannah Ruetten, Anne E. Turco +13 more

Acute interstitial nephritis, a potential predictor of response to immune checkpoint inhibitors in renal cell carcinoma

Journal for ImmunoTherapy of Cancer(2020)10.1136/jitc-2020-001198
N/A
0DataRank · unranked
31 citations

Roy Elias, Joseph Formella, William Schwartzman, Alana Christie, Qi Cai +9 more

Methods developed during the first National Center for Biotechnology Information Structural Variation Codeathon at Baylor College of Medicine

F1000Research(2020)10.12688/f1000research.23773.1
N/A
0DataRank · unranked
0 citations

Alejandro R. Gener, Michael M. Khayat, Adam C. English, Advait Balaji, Anbo Zhou +41 more

IRF1 governs the differential interferon-stimulated gene responses in human monocytes and macrophages by regulating chromatin accessibility

Cell Reports(2021)10.1016/j.celrep.2021.108891
N/A
0DataRank · unranked
95 citations

Yajing Gao, Igor Dozmorov, Venkat S. Malladi, Irene Saha, Margaret M. McDaniel +11 more