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

Arif Harmanci

Baylor College of Medicine

ORCID: 0000-0002-9696-1118

Also affiliated with Children's Cancer Center, The University of Texas Health Science Center, The University of Texas Health Science Center at Houston

Biochemistry, Genetics and Molecular BiologyMedicineImmunology and MicrobiologyComputer Science

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
7.5Author DataRank

Indexed papers

4in 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 4 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.

An integrative ENCODE resource for cancer genomics

Nature Communications(2020)10.1038/s41467-020-14743-w
Top 5%
4.1DataRank
Top 5%190 citations

Donghoon Lee, Vineet K. Dhiman, Peng Jiang, Jie Xu, Patrick D. McGillivray +53 more

Papers

Driven by 31 papers — median percentile 84. Top paper: “An integrative ENCODE resource for cancer genomics”.

An integrative ENCODE resource for cancer genomics

Nature Communications(2020)10.1038/s41467-020-14743-w
Top 5%
4.1DataRank
Top 5%190 citations

Donghoon Lee, Vineet K. Dhiman, Peng Jiang, Jie Xu, Patrick D. McGillivray +53 more

Pathway and network analysis of more than 2500 whole cancer genomes

Nature Communications(2020)10.1038/s41467-020-14367-0
Top 9%
2.3DataRank
Top 9%117 citations

David Haan, Marta Paczkowska, Lieven P. C. Verbeke, Miguél Vázquez, Abdullah Kahraman +95 more

Whole-genome sequencing of phenotypically distinct inflammatory breast cancers reveals similar genomic alterations to non-inflammatory breast cancers

Genome Medicine(2021)10.1186/s13073-021-00879-x
Top 22%
0.914DataRank
Top 22%29 citations

Sushant Kumar, Arif Harmanci, Shantao Li, Robert R. Kitchen, Yan Zhang +11 more

Key epigenetic and signaling factors in the formation and maintenance of the blood-brain barrier

eLife(2023)10.7554/elife.86978
N/A
0.371DataRank · unranked
9 citations

Sithara Thomas, Iny Elizabeth Mathew, Zhen Huang, Spiros Blackburn, Nitin Tandon +13 more

Descriptor: Benchmarking Secure Neural Network Evaluation Methods for Protein Sequence Classification (iDASH24)

IEEE data descriptions.(2024)10.1109/ieeedata.2024.3482283
Top 70%
0.165DataRank
Top 70%2 citations

Luyao Chen, Miran Kim, Xiaoqian Jiang, Arif Harmanci

Ultra-Fast Homomorphic Encryption Models enable Secure Outsourcing of Genotype Imputation

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.07.02.183459
N/A
0DataRank · unranked
20 citations

Arif Harmanci, Jean-Philippe Bossuat, Sergiu Carpov, Jung Hee Cheon, Ilaria Chillotti +16 more

scRegulocity: Detection of local RNA velocity patterns in embeddings of single cell RNA-Seq data

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.06.01.446674
N/A
0DataRank · unranked
5 citations

Arif Harmanci, Xiaobo Zhou, Benjamin Deneen, Ganesh Rao, Tiemo J. Klisch +2 more

SHiMMer: Privacy-Aware Alignment of Genomic Sequences with Secure and Efficient Hidden Markov Model Evaluation

Research Square(2021)10.21203/rs.3.rs-954109/v1
N/A
0DataRank · unranked
2 citations

Yongsoo Song, Xiaoqian Jiang, Arif Harmanci, Miran Kim

The evolving privacy and security concerns for genomic data analysis and sharing as observed from the iDASH competition

Journal of the American Medical Informatics Association(2022)10.1093/jamia/ocac165
N/A
0DataRank · unranked
28 citations

Xiaoqian Jiang, Haixu Tang, XiaoFeng Wang, Arif Harmanci, Miran Kim +8 more

Cross-Talk Between Histone Methyltransferases and Demethylases Regulate REST Transcription During Neurogenesis

Frontiers in Oncology(2022)10.3389/fonc.2022.855167
N/A
0DataRank · unranked
11 citations

Shinji Maegawa, Shavali Shaik, Ajay Sharma, Javiera Bravo‐Alegria, Lei Guo +4 more

SVAT: Secure outsourcing of variant annotation and genotype aggregation

BMC Bioinformatics(2022)10.1186/s12859-022-04959-6
N/A
0DataRank · unranked
3 citations

Su Wang, Xiaoqian Jiang, Arif Harmanci, Miran Kim

Federated Generalized Linear Mixed Models for Collaborative Genome-wide Association Studies

arXiv (Cornell University)(2022)10.48550/arxiv.2210.00395
N/A
0DataRank · unranked
0 citations

Han Chen, Xiaoqian Jiang, Arif Harmanci, Wentao Li

Establishing And Maintaining The Blood-Brain Barrier: Epigenetic And Signaling Determinants

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.11.29.516809
N/A
0DataRank · unranked
0 citations

Sithara Thomas, Iny Elizabeth Mathew, Zhen Huang, Spiros Blackburn, Nitin Tandon +13 more

Federated generalized linear mixed models for collaborative genome-wide association studies

iScience(2023)10.1016/j.isci.2023.107227
N/A
0DataRank · unranked
9 citations

Han Chen, Xiaoqian Jiang, Arif Harmanci, Wentao Li

Targeted gene expression profiling predicts meningioma outcomes and radiotherapy responses

Research Square(2023)10.21203/rs.3.rs-2663611/v1
N/A
0DataRank · unranked
8 citations

William Chen, Abrar Choudhury, Mark W. Youngblood, Mei‐Yin C. Polley, Calixto‐Hope G. Lucas +52 more

Enhancing Fairness in Disease Prediction by Optimizing Multiple Domain Adversarial Networks

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.08.04.551906
N/A
0DataRank · unranked
5 citations

Xinghua Shi, Hongchang Gao, Xiaoqian Jiang, Kai Zhang, Arif Harmanci +2 more

Establishing And Maintaining The Blood-Brain Barrier: Epigenetic And Signaling Determinants

(2023)10.7554/elife.86978.1
N/A
0DataRank · unranked
0 citations

Sithara Thomas, Iny Elizabeth Mathew, Zhen Huang, Spiros Blackburn, Nitin Tandon +12 more

FedGMMAT: Federated Generalized Linear Mixed Model Association Tests

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.10.03.560753
N/A
0DataRank · unranked
0 citations

Han Chen, Xiaoqian Jiang, Arif Harmanci, Wentao Li

Integrated electrophysiological and genomic profiles of single cells reveal spiking tumor cells in human glioma

Cancer Cell(2024)10.1016/j.ccell.2024.08.009
N/A
0DataRank · unranked
42 citations

Qianqian Ma, Malcolm F. McDonald, Yeunjung Ko, Snigdha Srivastava, Pey-Shyuan Chin +12 more

FedGMMAT: Federated generalized linear mixed model association tests

PLoS Computational Biology(2024)10.1371/journal.pcbi.1012142
N/A
0DataRank · unranked
8 citations

Han Chen, Xiaoqian Jiang, Arif Harmanci, Wentao Li

Tumor Expression of CD83 Reduces Glioma Progression and Is Associated with Reduced Immunosuppression

Cancer Research Communications(2024)10.1158/2767-9764.crc-24-0281
N/A
0DataRank · unranked
1 citations

Rachel Naomi Curry, Isabella O’Reilly, Brittney Lozzi, Alexis Cervantes, Zhung-Fu Lee +8 more

Integrated electrophysiological and genomic profiles of single cells reveal spiking tumor cells in human glioma

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.03.02.583026
N/A
0DataRank · unranked
4 citations

Qianqian Ma, Malcolm F. McDonald, Yeunjung Ko, Snigdha Srivastava, Pey-Shyuan Chin +12 more

Establishing And Maintaining The Blood-Brain Barrier: Epigenetic And Signaling Determinants

eLife(2024)10.7554/elife.86978.2
N/A
0DataRank · unranked
0 citations

Sithara Thomas, Iny Elizabeth Mathew, Zhen Huang, Spiros Blackburn, Nitin Tandon +13 more

Reviewer #1 (Public review): Establishing And Maintaining The Blood-Brain Barrier: Epigenetic And Signaling Determinants

(2024)10.7554/elife.86978.2.sa2
N/A
0DataRank · unranked
0 citations

Sithara Thomas, Iny Elizabeth Mathew, Zhen Huang, Spiros L Blackburn, Nitin Tandon +13 more

Author response: Establishing And Maintaining The Blood-Brain Barrier: Epigenetic And Signaling Determinants

(2024)10.7554/elife.86978.2.sa0
N/A
0DataRank · unranked
0 citations

Sithara Thomas, Iny Elizabeth Mathew, Zhen Huang, Spiros Blackburn, Nitin Tandon +13 more

HDAC inhibitors elicit metabolic reprogramming by targeting super-enhancers in glioblastoma models

Journal of Clinical Investigation(2020)10.1172/jci129049
N/A
0DataRank · unranked
210 citations

Yiru Zhang, Enyuan Shang, Chang Shu, Consuelo Torrini, Junfei Zhao +14 more

Reviewer #2 (Public review): Establishing And Maintaining The Blood-Brain Barrier: Epigenetic And Signaling Determinants

(2024)10.7554/elife.86978.2.sa1
N/A
0DataRank · unranked
0 citations

Sithara Thomas, Iny Elizabeth Mathew, Zhen Huang, Spiros L Blackburn, Nitin Tandon +13 more

CaSpER identifies and visualizes CNV events by integrative analysis of single-cell or bulk RNA-sequencing data

Nature Communications(2020)10.1038/s41467-019-13779-x
N/A
0DataRank · unranked
177 citations

Arif Harmanci, Xiaobo Zhou, Akdes Serin Harmancı

Passenger Mutations in More Than 2,500 Cancer Genomes: Overall Molecular Functional Impact and Consequences

Cell(2020)10.1016/j.cell.2020.01.032
N/A
0DataRank · unranked
169 citations

Jonathan Warrell, Shantao Li, Patrick D. McGillivray, Matthew Meyerson, Leonidas Salichos +14 more

SVFX: a machine learning framework to quantify the pathogenicity of structural variants

Genome biology(2020)10.1186/s13059-020-02178-x
N/A
0DataRank · unranked
41 citations

Arif Harmanci, Jagath Vytheeswaran, Mark Gerstein, Sushant Kumar

iDASH secure genome analysis competition 2018: blockchain genomic data access logging, homomorphic encryption on GWAS, and DNA segment searching

BMC Medical Genomics(2020)10.1186/s12920-020-0715-0
N/A
0DataRank · unranked
41 citations

Xiaoqian Jiang, Haixu Tang, Xiaofeng Wang, Tyler Bath, Diyue Bu +7 more