Shankar Subramaniam

University of California San Diego

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

4.6Author 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 →

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

LIPID MAPS: update to databases and tools for the lipidomics community

Nucleic Acids Research(2023)10.1093/nar/gkad896

Top 7%

3.4DataRank

Top 7%296 citations

Robert Andrews, Simon Andrews, Lauren Cockayne, Edward A. Dennis, Eoin Fahy +10 more

Papers

Driven by 59 papers — median percentile 71. Top paper: “Adjuvanting a subunit COVID-19 vaccine to induce protective immunity”.

Adjuvanting a subunit COVID-19 vaccine to induce protective immunity

Nature(2021)10.1038/s41586-021-03530-2

N/A

4.7DataRank · unranked

355 citations

Alexandra C. Walls, Nadia Golden, Caroline Atyeo, Stephanie Fischinger, Chunfeng Li +56 more

The single-cell epigenomic and transcriptional landscape of immunity to influenza vaccination

Cell(2021)10.1016/j.cell.2021.05.039

N/A

4.1DataRank · unranked

285 citations

Michele Donato, Alex Kuo, Tal Ashuach, Shakti Gupta, Chunfeng Li +18 more

LIPID MAPS: update to databases and tools for the lipidomics community

Nucleic Acids Research(2023)10.1093/nar/gkad896

Top 7%

3.4DataRank

Top 7%296 citations

Robert Andrews, Simon Andrews, Lauren Cockayne, Edward A. Dennis, Eoin Fahy +10 more

Neuroscience data and tool sharing

Neuroinformatics(2003)10.1007/s12021-003-0002-1

N/A

3.2DataRank · unranked

63 citations

Gary F. Egan, Erik De Schutter, Tang Yiyuan, Mirko Novak, Vaclav Sebesta +26 more

Update on LIPID MAPS classification, nomenclature, and shorthand notation for MS-derived lipid structures

Journal of Lipid Research(2020)10.1194/jlr.s120001025

N/A

1.0DataRank · unranked

827 citations

Eoin Fahy, Junken Aoki, Edward A. Dennis, Thierry Durand, Christer S. Ejsing +12 more

Generation of ‘semi-guided’ cortical organoids with complex neural oscillations

Nature Protocols(2024)10.1038/s41596-024-00994-0

N/A

0.835DataRank · unranked

44 citations

Tiffany Chu, Francesca Puppo, Rebeca Blanch, Miguel Chillón, Shankar Subramaniam +2 more

ADAP-KDB: A Spectral Knowledgebase for Tracking and Prioritizing Unknown GC–MS Spectra in the NIH’s Metabolomics Data Repository

Analytical Chemistry(2021)10.1021/acs.analchem.1c00355

Top 29%

0.681DataRank

Top 29%16 citations

Yunfei Liao, Eoin Fahy, Shankar Subramaniam, Xiuxia Du, Aleksandr Smirnov

Cloud‐based archived metabolomics data: A resource for in‐source fragmentation/annotation, meta‐analysis and systems biology

Analytical Science Advances(2020)10.1002/ansa.202000042

Top 41%

0.461DataRank

Top 41%8 citations

Tao Huan, Duane Rinehart, Markus M. Rinschen, Shuzhao Li, Valerie B. O’Donnell +6 more

Limitations of the human iPSC-derived neuron model for early-onset Alzheimer’s disease

Molecular Brain(2023)10.1186/s13041-023-01063-5

N/A

0.276DataRank · unranked

4 citations

Kenneth W. Henry, Michael Q. Fitzgerald, Koushik Muralidharan, Andrew B. Caldwell, Srinivasan Ramachandran +5 more

Dedifferentiation and neuronal repression define familial Alzheimer’s disease

Science Advances(2020)10.1126/sciadv.aba5933

N/A

0DataRank · unranked

6 citations

Qing Liu, Gary P. Schroth, Douglas Galasko, Shauna H. Yuan, Steven L. Wagner +2 more

Steps Toward Minimal Reporting Standards for Lipidomics Mass Spectrometry in Biomedical Research Publications

Circulation Genomic and Precision Medicine(2020)10.1161/circgen.120.003019

N/A

0DataRank · unranked

21 citations

Garret A. FitzGerald, Robert C. Murphy, Gerhard Liebisch, Edward A. Dennis, Oswald Quehenberger +3 more

GNPS Dashboard: collaborative exploration of mass spectrometry data in the web browser

Nature Methods(2021)10.1038/s41592-021-01339-5

N/A

0DataRank · unranked

95 citations

Vanessa V. Phelan, Deepa Acharya, Andrew E. Allen, Allegra T. Aron, Nuno Bandeira +30 more

The maternal blood lipidome is indicative of the pathogenesis of severe preeclampsia

Journal of Lipid Research(2021)10.1016/j.jlr.2021.100118

N/A

0DataRank · unranked

58 citations

Yu Liu, Mano R. Maurya, Paula Benny, Cameron Lassiter, Hui Li +3 more

Immune Response in Severe and Non-Severe Coronavirus Disease 2019 (COVID-19) Infection: A Mechanistic Landscape

Frontiers in Immunology(2021)10.3389/fimmu.2021.738073

N/A

0DataRank · unranked

48 citations

Priya Nayak, Chethan Ashokkumar, Sohail Rao, Jose Luis Almeda, Monica M. Betancourt-Garcia +3 more

Heme Oxygenase-1 at the Nexus of Endothelial Cell Fate Decision Under Oxidative Stress

Frontiers in Cell and Developmental Biology(2021)10.3389/fcell.2021.702974

N/A

0DataRank · unranked

14 citations

Srinivasan Ramachandran, Eugene Ke, Yifei Miao, Ratnesh Lal, Zhen Chen +2 more

Temporal mechanisms of myogenic specification in human induced pluripotent stem cells

Science Advances(2021)10.1126/sciadv.abf7412

N/A

0DataRank · unranked

8 citations

Alexandre R. Colas, Mark Mercola, Shyni Varghese, Shankar Subramaniam, Priya Nayak

Mechanisms of Impaired Lung Development and Ciliation in Mannosidase-1-Alpha-2 (Man1a2) Mutants

Frontiers in Physiology(2021)10.3389/fphys.2021.658518

N/A

0DataRank · unranked

5 citations

Morayooluwa Adenuga, Kim A. Ngo, Nada Mohamed, Tejaswini Narayanan, Krishna Prasadan +12 more

GNPS Dashboard: Collaborative Analysis of Mass Spectrometry Data in the Web Browser

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.04.05.438475

N/A

0DataRank · unranked

13 citations

Vanessa V. Phelan, Deepa Acharya, Andrew E. Allen, Allegra T. Aron, Nuno Bandeira +30 more

Impaired T-cell and antibody immunity after COVID-19 infection in chronically immunosuppressed transplant recipients

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.05.03.442371

N/A

0DataRank · unranked

7 citations

Vinayak Rohan, Alexander Kroemer, Sohail Rao, George Mazariegos, Brandon W. Higgs +25 more

Single-cell analysis of the epigenomic and transcriptional landscape of innate immunity to seasonal and adjuvanted pandemic influenza vaccination in humans

medRxiv(2021)10.1101/2021.05.24.21253087

N/A

0DataRank · unranked

2 citations

Michele Donato, Alex Kuo, Tal Ashuach, Shakti Gupta, Chunfeng Li +18 more

SREBP signaling is essential for effective B cell responses

Nature Immunology(2022)10.1038/s41590-022-01376-y

N/A

0DataRank · unranked

73 citations

Julia Z. Adamska, Chunfeng Li, Rohit Verma, Qing Liu, Thomas Hagan +12 more

Transcriptomic profiling of sporadic Alzheimer’s disease patients

Molecular Brain(2022)10.1186/s13041-022-00963-2

N/A

0DataRank · unranked

25 citations

Balaji G. Anantharaman, Srinivasan Ramachandran, Phuong Nguyen, Qing Liu, Ivy Trinh +5 more

ARID1B, a molecular suppressor of erythropoiesis, is essential for the prevention of Monge’s disease

Experimental & Molecular Medicine(2022)10.1038/s12276-022-00769-1

N/A

0DataRank · unranked

20 citations

Andrew B. Caldwell, Srinivasan Ramachandran, Nathanael J. Spann, Ali Akbari, Francisco C. Villafuerte +8 more

Modular and mechanistic changes across stages of colorectal cancer

BMC Cancer(2022)10.1186/s12885-022-09479-3

N/A

0DataRank · unranked

9 citations

Mano R. Maurya, Kavitha Mukund, Shankar Subramaniam, Sara Rahiminejad

MetGENE: gene-centric metabolomics information retrieval tool

GigaScience(2022)10.1093/gigascience/giad089

N/A

0DataRank · unranked

4 citations

Mano R. Maurya, Srinivasan Ramachandran, Eoin Fahy, Shankar Subramaniam, Sumana Srinivasan

Integrative multiomics reveals common endotypes across PSEN1, PSEN2, and APP mutations in familial Alzheimer’s disease

Research Square(2022)10.21203/rs.3.rs-2356131/v1

N/A

0DataRank · unranked

3 citations

Andrew B. Caldwell, Qing Liu, Michael Q. Fitzgerald, Srinivasan Ramachandran, Celeste M. Karch +6 more

Methadone disrupts early synaptic development in human cortical organoids

The FASEB Journal(2022)10.1096/fasebj.2022.36.s1.r3099

N/A

0DataRank · unranked

0 citations

Dan Zhou, Andrew B. Caldwell, Shankar Subramaniam, Gabriel Haddad, Ila Dwivedi

Transcriptomic profiling of Early-onset sporadic Alzheimer’s disease patients

Research Square(2022)10.21203/rs.3.rs-1766592/v1

N/A

0DataRank · unranked

0 citations

Balaji G Anantharaman, Srinivasan Ramachandran, Phuong Nguyen, Qing Liu, Ivy Trinh +5 more

Methadone alters transcriptional programs associated with synapse formation in human cortical organoids

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.11.04.515240

N/A

0DataRank · unranked

0 citations

Dan Zhou, Andrew B. Caldwell, Shankar Subramaniam, Gabriel G. Haddad, Ila Dwivedi

Biliary atresia is associated with polygenic susceptibility in ciliogenesis and planar polarity effector genes

Journal of Hepatology(2023)10.1016/j.jhep.2023.07.039

N/A

0DataRank · unranked

31 citations

Mylarappa Ningappa, Kim A. Ngo, Maliha Zahid, Juhoon So, Brandon W. Higgs +30 more

Ablation of Adar1 in myeloid cells imprints a global antiviral state in the lung and heightens early immunity against SARS-CoV-2

Cell Reports(2023)10.1016/j.celrep.2023.112038

N/A

0DataRank · unranked

9 citations

Rohit Verma, Shakti Gupta, Thomas Hagan, Florian Wimmers, Katharine Floyd +11 more

Endotype Characterization Reveals Mechanistic Differences Across Brain Regions in Sporadic Alzheimer’s Disease

Journal of Alzheimer s Disease Reports(2023)10.3233/adr-220098

N/A

0DataRank · unranked

6 citations

Andrew B. Caldwell, Srinivasan Ramachandran, Shankar Subramaniam, A. Patel

Temporal transcriptional control of neural induction in human induced pluripotent stem cells

Frontiers in Molecular Neuroscience(2023)10.3389/fnmol.2023.1139287

N/A

0DataRank · unranked

5 citations

Lucia Dutan Polit, Michael C. Fitzgerald, Helen Rowland, Divya Murali, Noel J. Buckley +2 more

The Janus face of proliferating plasmablasts in dengue and COVID-19 infections

Frontiers in Immunology(2023)10.3389/fimmu.2023.1068424

N/A

0DataRank · unranked

2 citations

Kavitha Mukund, Shankar Subramaniam, Priya Nayak

Mathematical Modeling of Eicosanoid Metabolism in Macrophage Cells: Cybernetic Framework Combined with Novel Information-Theoretic Approaches

Processes(2023)10.3390/pr11030874

N/A

0DataRank · unranked

1 citations

Sana Khanum, Mohsen Heidari, Rubesh Raja, Shakti Gupta, Mano R. Maurya +4 more

Modeling transcriptional regulation of the cell cycle using a novel cybernetic-inspired approach

Biophysical Journal(2023)10.1016/j.bpj.2023.12.010

N/A

0DataRank · unranked

1 citations

Sana Khanum, Lina Aboulmouna, Mano R. Maurya, Shakti Gupta, Shankar Subramaniam +2 more

Modeling transcriptional regulation of the cell cycle using a novel cybernetic-inspired approach

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.03.21.533676

N/A

0DataRank · unranked

0 citations

Sana Khanum, Lina Aboulmouna, Mano R. Maurya, Shakti Gupta, Shankar Subramaniam +2 more

Single-cell RNA sequencing unveils unique transcriptomic signatures of endothelial cells and role of ENO1 in response to disturbed flow

Proceedings of the National Academy of Sciences(2024)10.1073/pnas.2318904121

N/A

0DataRank · unranked

39 citations

Julie Yi-Shuan Li, Phu Hung Nguyen, Ming He, Zhen Chen, Shankar Subramaniam +3 more

Molecular Atlas of HER2+ Breast Cancer Cells Treated with Endogenous Ligands: Temporal Insights into Mechanisms of Trastuzumab Resistance

Cancers(2024)10.3390/cancers16030553

N/A

0DataRank · unranked

2 citations

Jackelyn A. Alva-Ornelas, Adam L. Maddox, Divya Murali, Darya Veraksa, András Saftics +7 more

The molecular chronology of mammary epithelial cell fate switching

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.10.08.617155

N/A

0DataRank · unranked

3 citations

Zhibo Ma, Sumana Srinivasan, Divya Murali, Christopher Dravis, Kavitha Mukund +4 more

Modeling enzyme competition in eicosanoid metabolism in macrophage cells using a cybernetic framework

Journal of Lipid Research(2024)10.1016/j.jlr.2024.100666

N/A

0DataRank · unranked

0 citations

Shakti Gupta, Mano R. Maurya, Rubesh Raja, Lina Aboulmouna, Shankar Subramaniam +2 more

System vaccinology analysis of predictors and mechanisms of antibody response durability to multiple vaccines in humans

Nature Immunology(2025)10.1038/s41590-024-02036-z

N/A

0DataRank · unranked

51 citations

Thomas Hagan, Nadine Rouphael, Shengyang Wu, Xia Xie, Dmitri Kazmin +28 more

A universal language for finding mass spectrometry data patterns

Nature Methods(2025)10.1038/s41592-025-02660-z

N/A

0DataRank · unranked

49 citations

Alan K. Jarmusch, Allegra T. Aron, Daniel Petras, Vanessa V. Phelan, Haoqi Nina Zhao +69 more

Playbook workflow builder: Interactive construction of bioinformatics workflows

PLoS Computational Biology(2025)10.1371/journal.pcbi.1012901

N/A

0DataRank · unranked

5 citations

John Erol Evangelista, Zhuorui Xie, Giacomo B. Marino, Anna I. Byrd, Mano R Maurya +36 more

An autoencoder learning method for predicting breast cancer subtypes

PLoS ONE(2025)10.1371/journal.pone.0327773

N/A

0DataRank · unranked

3 citations

Kavitha Mukund, Maryam Masnadi-Shirazi, Shankar Subramaniam, Zahra Rostami

Spatially distinct cellular and molecular landscapes define prognosis in triple-negative breast cancer

Cell Reports(2025)10.1016/j.celrep.2025.116752

N/A

0DataRank · unranked

3 citations

Darya Veraksa, David Frankhouser, Lixin Yang, Jerneja Tomšič, Raju Pillai +11 more

Topological Data Analysis Reveals a Subgroup of Luminal B Breast Cancer

IEEE Open Journal of Engineering in Medicine and Biology(2025)10.1109/ojemb.2025.3558670

N/A

0DataRank · unranked

3 citations

David Fooshee, Gunnar Carlsson, Shankar Subramaniam, Zahra Rostami

Spatially distinct cellular and molecular landscapes define prognosis in triple negative breast cancer

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.02.10.637503

N/A

0DataRank · unranked

5 citations

Darya Veraksa, David Frankhouser, Lixin Yang, Jerneja Tomšič, Raju Pillai +10 more

The Data Distillery: A Graph Framework for Semantic Integration and Querying of Biomedical Data

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.08.11.666099

N/A

0DataRank · unranked

3 citations

Benjamin Stear, John K. Simmons, Vincent T. Metzger, Praveen Kumar, John Erol Evangelista +39 more

A novel subtyping method for TNBC with implications for prognosis and therapy

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.07.04.663242

N/A

0DataRank · unranked

0 citations

Kavitha Mukund, Jovanny Zabaleta, Luis Del Valle, Jerneja Tomšič, Susan L. Neuhausen +6 more

Methadone alters transcriptional programs associated with synapse formation in human cortical organoids

Translational Psychiatry(2023)10.1038/s41398-023-02397-3

N/A

0DataRank · unranked

12 citations

Andrew B. Caldwell, Dan Zhou, Wei Wu, Shankar Subramaniam, Gabriel G. Haddad +1 more

T cell-inducing vaccine durably prevents mucosal SHIV infection even with lower neutralizing antibody titers

Nature Medicine(2020)10.1038/s41591-020-0858-8

N/A

0DataRank · unranked

170 citations

Tysheena P. Charles, Vineet Joag, Venkata S. Bollimpelli, Madeleine Scott, Florian Wimmers +29 more

Right and left-sided colon cancers - specificity of molecular mechanisms in tumorigenesis and progression

BMC Cancer(2020)10.1186/s12885-020-06784-7

N/A

0DataRank · unranked

108 citations

Natalia Syulyukina, Sonia Ramamoorthy, Shankar Subramaniam, Kavitha Mukund

Plasmin Cascade Mediates Thrombotic Events in SARS-CoV-2 Infection via Complement and Platelet-Activating Systems

IEEE Open Journal of Engineering in Medicine and Biology(2020)10.1109/ojemb.2020.3014798

N/A

0DataRank · unranked

18 citations

Kalai Mathee, Shankar Subramaniam, Kavitha Mukund

Cybernetic modeling of biological processes in mammalian systems

Current Opinion in Chemical Engineering(2020)10.1016/j.coche.2020.100660

N/A

0DataRank · unranked

16 citations

Rubesh Raja, Sana Khanum, Shakti Gupta, Mano R. Maurya, Ananth Grama +3 more

Histone Signatures Predict Therapeutic Efficacy in Breast Cancer

IEEE Open Journal of Engineering in Medicine and Biology(2020)10.1109/ojemb.2020.2967105

N/A

0DataRank · unranked

9 citations

Shankar Subramaniam, Shamim Mollah

Biliary-Atresia-Associated Mannosidase-1-Alpha-2 Gene Regulates Biliary and Ciliary Morphogenesis and Laterality

Frontiers in Physiology(2020)10.3389/fphys.2020.538701

N/A

0DataRank · unranked

26 citations

Mylarappa Ningappa, Joseph Glessner, Jun Min, Chethan Ashokkumar, Sarangarajan Ranganathan +29 more

Attractor Ranked Radial Basis Function Network: A Nonparametric Forecasting Approach for Chaotic Dynamic Systems

Scientific Reports(2020)10.1038/s41598-020-60606-1

N/A

0DataRank · unranked

7 citations

Shankar Subramaniam, Maryam Masnadi-Shirazi

Systems Analysis of Biliary Atresia Through Integration of High-Throughput Biological Data

Frontiers in Physiology(2020)10.3389/fphys.2020.00966

N/A

0DataRank · unranked

7 citations

Mylarappa Ningappa, Juhoon So, Donghun Shin, Rakesh Sindhi, Shankar Subramaniam +1 more

Shankar Subramaniam

Indexed papers

Top data-sharing exemplar

Papers