John Quackenbush

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 2%percentile

2.2Author DataRank

Indexed papers

5in 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 5 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.

GRAND: a database of gene regulatory network models across human conditions

Nucleic Acids Research(2021)10.1093/nar/gkab778

Top 13%

1.7DataRank

Top 13%122 citations

Camila M. Lopes‐Ramos, Deborah Weighill, Abhijeet R. Sonawane, Rebekka Burkholz, Behrouz Shamsaei +5 more

Papers

Driven by 47 papers — median percentile 40. Top paper: “Minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE)”.

Minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE)

Nature Biotechnology(2008)10.1038/nbt1391

N/A

6.5DataRank · unranked

114 citations

On behalf of the MGED Society, Jules J. Berman, G. Steven Bova, Ann-Christine Syvanen, Roger E. Bumgarner +40 more

Submission of Microarray Data to Public Repositories

PLoS Biology(2004)10.1371/journal.pbio.0020317

N/A

6.1DataRank · unranked

122 citations

Ann-Christine Syvanen, Helen Causton, Steve Chervitz, Ron Edgar, Daniele Iudicone +15 more

GRAND: a database of gene regulatory network models across human conditions

Nucleic Acids Research(2021)10.1093/nar/gkab778

Top 13%

1.7DataRank

Top 13%122 citations

Camila M. Lopes‐Ramos, Deborah Weighill, Abhijeet R. Sonawane, Rebekka Burkholz, Behrouz Shamsaei +5 more

Microarray Data Standards: An Open Letter

Environmental Health Perspectives(2004)10.1289/ehp.112-1277123

N/A

1.6DataRank · unranked

23 citations

Ann-Christine Syvanen, Helen Causton, Steve Chervitz, Ron Edgar, Daniele Iudicone +14 more

Genetic control of gene expression at novel and established chronic obstructive pulmonary disease loci

Human Molecular Genetics(2015)10.1093/hmg/ddu525

N/A

1.3DataRank · unranked

51 citations

Michael H. Cho, Xiaobo Zhou, Weiliang Qiu, Michael Mcgeachie, Bartolome Celli +17 more

Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project

Nature Biotechnology(2008)10.1038/nbt.1411

N/A

0.950DataRank · unranked

561 citations

Dawn Field, Jan Aerts, Rolf Apweiler, Michael Ashburner, On behalf of the MGED Society +63 more

Transparency and reproducibility in artificial intelligence

Nature(2020)10.1038/s41586-020-2766-y

N/A

0.929DataRank · unranked

487 citations

George Alexandru Adam, Ahmed Hosny, Farnoosh Khodakarami, Massive Analysis Quality Control (MAQC) Society Board of Directors, Matthias Fischer +26 more

Molecular networks in Network Medicine: Development and applications

WIREs Systems Biology and Medicine(2020)10.1002/wsbm.1489

N/A

0.812DataRank · unranked

223 citations

Harald Schmidt, Eleni Anastasiadou, Lucia Altucci, Marco Angelini, Lina Badimón +21 more

Wrestling with SUMO and bio-ontologies

Nature Biotechnology(2006)10.1038/nbt0106-21b

N/A

0.554DataRank · unranked

4 citations

Ann-Christine Syvanen, Helen Causton, Liju Fan, Jennifer Fostel, Gilberto Fragoso +24 more

GRAND: A database of gene regulatory network models across human conditions

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.06.18.448997

Top 42%

0.455DataRank

Top 42%8 citations

Camila M. Lopes‐Ramos, Deborah Weighill, Abhijeet R. Sonawane, Rebekka Burkholz, Behrouz Shamsaei +5 more

Bayesian inference of sample-specific coexpression networks

Genome Research(2024)10.1101/gr.279117.124

N/A

0.446DataRank · unranked

12 citations

Viola Fanfani, Panagiotis Mandros, Marouen Ben Guebila, Jonas Fischer, Katherine H. Shutta +4 more

Sex-Biased Regulation of Extracellular Matrix Genes in Chronic Obstructive Pulmonary Disease

American Journal of Respiratory Cell and Molecular Biology(2024)10.1165/rcmb.2024-0226oc

N/A

0.416DataRank · unranked

15 citations

Katherine H. Shutta, Min Hyung Ryu, Yichen Huang, Enakshi Saha, John Ziniti +10 more

Reproducible processing of TCGA regulatory networks

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.11.05.622163

N/A

0.165DataRank · unranked

2 citations

Katherine H. Shutta, Panagiotis Mandros, Jonas Fischer, Enakshi Saha, Soel Micheletti +5 more

SEAHORSE: A Serendipity Engine Assaying Heterogeneous Omics-Related Sampling Experiments

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.08.15.670514

Top 78%

0.104DataRank

Top 78%1 citations

Jaya Kolluri, Rohan Varghese Biju, Saron Nhong, Derrick K DeConti, John Quackenbush +2 more

The Network Zoo: a multilingual package for the inference and analysis of gene regulatory networks

Genome biology(2023)10.1186/s13059-023-02877-1

N/A

0DataRank · unranked

77 citations

Tian Wang, Camila M. Lopes‐Ramos, Viola Fanfani, Des Weighill, Rebekka Burkholz +20 more

Gene regulatory Networks Reveal Sex Difference in Lung Adenocarcinoma

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.09.22.559001

N/A

0DataRank · unranked

6 citations

Marouen Ben Guebila, Viola Fanfani, Jonas Fischer, Katherine H. Shutta, Panagiotis Mandros +4 more

Bayesian Optimized sample-specific Networks Obtained By Omics data (BONOBO)

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.11.16.567119

N/A

0DataRank · unranked

5 citations

Viola Fanfani, Panagiotis Mandros, Marouen Ben-Guebila, Jonas Fischer, Katherine Hoff-Shutta +5 more

Data from Marked Genomic Differences Characterize Primary and Secondary Glioblastoma Subtypes and Identify Two Distinct Molecular and Clinical Secondary Glioblastoma Entities

(2023)10.1158/0008-5472.c.6495155.v1

N/A

0DataRank · unranked

0 citations

Cameron Brennan, Patrick Y. Wen, Laura Durso, Keith L. Ligon, Aaron Richardson +9 more

Supplementary Table 4 from Marked Genomic Differences Characterize Primary and Secondary Glioblastoma Subtypes and Identify Two Distinct Molecular and Clinical Secondary Glioblastoma Entities

(2023)10.1158/0008-5472.22366478

Top 100%

0DataRank

Top 100%0 citations

Cameron Brennan, Patrick Y. Wen, Laura Durso, Keith L. Ligon, Aaron Richardson +9 more

Data from Epithelial Progeny of Estrogen-Exposed Breast Progenitor Cells Display a Cancer-like Methylome

(2023)10.1158/0008-5472.c.6497237

N/A

0DataRank · unranked

0 citations

Aedín C. Culhane, Michael W.Y. Chan, Chinnambally Venkataramu, Mathias Ehrich, Aejaz Nasir +8 more

Data from Identification of Novel Kinase Targets for the Treatment of Estrogen Receptor–Negative Breast Cancer

(2023)10.1158/1078-0432.c.6516967

N/A

0DataRank · unranked

0 citations

Anna Tsimelzon, K. Sexton, Ashley M. Herrick, Carolina Gutiérrez, Aedín C. Culhane +5 more

Data from Identification of Novel Kinase Targets for the Treatment of Estrogen Receptor–Negative Breast Cancer

(2023)10.1158/1078-0432.c.6516967.v1

N/A

0DataRank · unranked

0 citations

Anna Tsimelzon, K. Sexton, Ashley M. Herrick, Carolina Gutiérrez, Aedín C. Culhane +5 more

Gene regulatory networks reveal sex difference in lung adenocarcinoma

Biology of Sex Differences(2024)10.1186/s13293-024-00634-y

N/A

0DataRank · unranked

29 citations

Marouen Ben Guebila, Viola Fanfani, Jonas Fischer, Katherine H. Shutta, Panagiotis Mandros +4 more

Spatial Cellular Networks from omics data with SpaCeNet

Genome Research(2024)10.1101/gr.279125.124

N/A

0DataRank · unranked

6 citations

Niklas Lück, Robert Lohmayer, Stefan Solbrig, Dennis Völkl, Tina Wipfler +9 more

Selective loss of Y chromosomes in lung adenocarcinoma modulates the tumor immune environment through cancer/testis antigens

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.09.19.613876

N/A

0DataRank · unranked

5 citations

Katherine H. Shutta, Chen Chen, Viola Fanfani, Enakshi Saha, Panagiotis Mandros +10 more

The Importance of Regulatory Network Structure for Complex Trait Heritability and Evolution

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.02.27.582063

N/A

0DataRank · unranked

1 citations

John Platig, John Quackenbush, Maud Fagny, Katherine L. Stone

Aging-associated Alterations in the Gene Regulatory Network Landscape Associate with Risk, Prognosis and Response to Therapy in Lung Adenocarcinoma

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.07.02.601689

N/A

0DataRank · unranked

0 citations

Marouen Ben Guebila, Viola Fanfani, Katherine H. Shutta, Dawn L. DeMeo, John Quackenbush +2 more

Aging-associated alterations in gene regulatory networks associate with risk, prognosis and response to therapy in lung adenocarcinoma

npj Aging(2025)10.1038/s41514-025-00247-8

N/A

0DataRank · unranked

5 citations

Marouen Ben Guebila, Viola Fanfani, Katherine H. Shutta, Dawn L. DeMeo, John Quackenbush +2 more

The Importance of Regulatory Network Structure for Complex Trait Heritability and Evolution

Molecular Biology and Evolution(2025)10.1093/molbev/msaf174

N/A

0DataRank · unranked

5 citations

John Platig, John Quackenbush, Maud Fagny, Katherine L. Stone

Multi-omics protein signaling networks identify sex-specific therapeutic candidates in lung adenocarcinoma

Biology of Sex Differences(2025)10.1186/s13293-025-00752-1

N/A

0DataRank · unranked

2 citations

Enakshi Saha, Jonas Fischer, Marouen Ben Guebila, Viola Fanfani, Katherine H. Shutta +6 more

Reproducible processing of TCGA regulatory networks

GigaScience(2025)10.1093/gigascience/giaf126

N/A

0DataRank · unranked

1 citations

Katherine H. Shutta, Panagiotis Mandros, Jonas Fischer, Enakshi Saha, Soel Micheletti +5 more

Identifying Sex Differences in Lung Adenocarcinoma Using Multi-Omics Integrative Protein Signaling Networks

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.02.03.636354

N/A

0DataRank · unranked

2 citations

Enakshi Saha, Jonas Fischer, Marouen Ben Guebila, Viola Fanfani, Katherine H. Shutta +6 more

FACT: Gated Fusion-Augmented Causal Mask Transformer for Pseudotime Analysis

(2025)10.1109/bigdata66926.2025.11400792

N/A

0DataRank · unranked

0 citations

Chengjie Zheng, Iris Z. Shen, John Quackenbush, Viola Fanfani, Wei Ding +2 more

Supplementary Methods from Marked Genomic Differences Characterize Primary and Secondary Glioblastoma Subtypes and Identify Two Distinct Molecular and Clinical Secondary Glioblastoma Entities

10.1158/0008-5472.22366490

N/A

0DataRank · unranked

0 citations

Cameron Brennan, Patrick Y. Wen, Laura Durso, Keith L. Ligon, Aaron Richardson +9 more

Genome-Wide Sex and Gender Differences in Cancer

Frontiers in Oncology(2020)10.3389/fonc.2020.597788

N/A

0DataRank · unranked

171 citations

John Quackenbush, Dawn L. DeMeo, Camila M. Lopes‐Ramos

Sex Differences in Gene Expression and Regulatory Networks across 29 Human Tissues

Cell Reports(2020)10.1016/j.celrep.2020.107795

N/A

0DataRank · unranked

544 citations

Cho-Yi Chen, Marieke L. Kuijjer, Joseph N. Paulson, Abhijeet R. Sonawane, Maud Fagny +5 more

Initial Validation of a Machine Learning-Derived Prognostic Test (KidneyIntelX) Integrating Biomarkers and Electronic Health Record Data To Predict Longitudinal Kidney Outcomes

Kidney360(2020)10.34067/kid.0002252020

N/A

0DataRank · unranked

35 citations

Girish N. Nadkarni, Fergus Fleming, James R. McCullough, Cijiang He, John Quackenbush +5 more

Paenibacillus infection with frequent viral coinfection contributes to postinfectious hydrocephalus in Ugandan infants

Science Translational Medicine(2020)10.1126/scitranslmed.aba0565

N/A

0DataRank · unranked

55 citations

Brent L. Williams, Christine Hehnly, Nischay Mishra, Shamim A. Sinnar, Lijun Zhang +47 more

MicroRNA-mRNA networks define translatable molecular outcome phenotypes in osteosarcoma

Scientific Reports(2020)10.1038/s41598-020-61236-3

N/A

0DataRank · unranked

16 citations

Cassandra C. Garbutt, William T. Barry, Vikram Deshpande, Yen‐Lin Chen, Santiago A. Lozano‐Calderón +12 more

PUMA: PANDA Using MicroRNA Associations

Bioinformatics(2020)10.1093/bioinformatics/btaa571

N/A

0DataRank · unranked

36 citations

Maud Fagny, Alessandro Marin, John Quackenbush, Kimberly Glass, Marieke L. Kuijjer

Regulatory Network of PD1 Signaling Is Associated with Prognosis in Glioblastoma Multiforme

Cancer Research(2021)10.1158/0008-5472.can-21-0730

N/A

0DataRank · unranked

31 citations

Tatiana Belova, Tess H. Brunner, Marouen Ben Guebila, Daniel Osorio, John Quackenbush +2 more

DRAGON: Determining Regulatory Associations using Graphical models on multi-Omic Networks

Nucleic Acids Research(2022)10.1093/nar/gkac1157

N/A

0DataRank · unranked

25 citations

Deborah Weighill, Rebekka Burkholz, Marouen Ben Guebila, Dawn L. DeMeo, Helena U. Zacharias +3 more

Blood gene expression risk profiles and interstitial lung abnormalities: COPDGene and ECLIPSE cohort studies

Respiratory Research(2022)10.1186/s12931-022-02077-8

N/A

0DataRank · unranked

12 citations

Brian D. Hobbs, Aravind Menon, Auyon Ghosh, Rachel K. Putman, Takuya Hino +13 more

Connectivity in eQTL networks dictates reproducibility and genomic properties

Cell Reports Methods(2022)10.1016/j.crmeth.2022.100218

N/A

0DataRank · unranked

13 citations

Maud Fagny, Xihong Lin, John Platig, John Quackenbush, Sheila M. Gaynor

gpuZoo: Cost-effective estimation of gene regulatory networks using the Graphics Processing Unit

NAR Genomics and Bioinformatics(2022)10.1093/nargab/lqac002

N/A

0DataRank · unranked

9 citations

Daniel Morgan, Kimberly Glass, Marieke L. Kuijjer, Dawn L. DeMeo, John Quackenbush +1 more

The Network Zoo: a multilingual package for the inference and analysis of biological networks

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.05.30.494077

N/A

0DataRank · unranked

1 citations

Tian Wang, Camila M. Lopes‐Ramos, Viola Fanfani, Deborah Weighill, Rebekka Burkholz +19 more

Blood Gene Expression Risk Profiles and Interstitial Lung Abnormalities: COPDGene and ECLIPSE cohort studies

medRxiv(2022)10.1101/2022.01.31.22270173

N/A

0DataRank · unranked

0 citations

Brian D. Hobbs, Aravind Menon, Auyon Ghosh, Rachel K. Putman, Takuya Hino +13 more

John Quackenbush

Indexed papers

Top data-sharing exemplar

Papers