Ramnik J. Xavier

Also affiliated with Harvard University, Massachusetts General Hospital, Center for Systems Biology, Research Network (United States), Klarman Cell Observatory

Biochemistry, Genetics and Molecular BiologyMedicineImmunology and Microbiology

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 100%percentile

0Author DataRank

Indexed papers

2in 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 2 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 →

Papers

Driven by 120 papers. Top paper: “Genome-wide enhancer maps link risk variants to disease genes”.

Genome-wide enhancer maps link risk variants to disease genes

Nature(2021)10.1038/s41586-021-03446-x

N/A

7.7DataRank · unranked

764 citations

Drew T. Bergman, Charles P. Fulco, Philine Guckelberger, Benjamin R. Doughty, Tejal A. Patwardhan +27 more

Conditioning of the immune system by the microbiome

Trends in Immunology(2023)10.1016/j.it.2023.05.002

N/A

1.9DataRank · unranked

91 citations

Ramnik J. Xavier, Daniel B. Graham

Dissecting the human microbiome with single-cell genomics

Genome Medicine(2017)10.1186/s13073-017-0448-7

N/A

1.5DataRank · unranked

31 citations

Ramnik J. Xavier, Andrew C. Tolonen

Defining trained immunity and its role in health and disease

Nature reviews. Immunology(2020)10.1038/s41577-020-0285-6

N/A

1.2DataRank · unranked

2393 citations

Jorge Domínguez‐Andrés, Luis B. Barreiro, Triantafyllos Chavakis, Maziar Divangahi, Elaine Fuchs +12 more

Delivery mode impacts newborn gut colonization efficiency

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.01.29.919993

N/A

1.2DataRank · unranked

18 citations

Larson Hogstrom, Allison Bryant, Agnès Bergerat, Avital Cher, Shawna Pochan +9 more

Constitutively active autophagy in macrophages dampens inflammation through metabolic and post-transcriptional regulation of cytokine production

Cell Reports(2023)10.1016/j.celrep.2023.112708

N/A

1.0DataRank · unranked

36 citations

Lingjia Kong, Blayne A. Oliver, Bihua Li, Elizabeth A. Creasey, Gaelen Guzman +7 more

Global chemical effects of the microbiome include new bile-acid conjugations

Nature(2020)10.1038/s41586-020-2047-9

N/A

0.959DataRank · unranked

595 citations

Alexey V. Melnik, Alison Vrbanac, Ting Fu, Kathryn A. Patras, Mitchell P. Christy +53 more

Cytokine-specific autoantibodies shape the gut microbiome in autoimmune polyendocrine syndrome type 1

Journal of Allergy and Clinical Immunology(2021)10.1016/j.jaci.2021.03.025

N/A

0.914DataRank · unranked

19 citations

Martta Jokinen, Damian R. Plichta, Gerhard Liebisch, Wolfram Gronwald, Katja Dettmer +6 more

Spatially restricted immune and microbiota-driven adaptation of the gut

Nature(2024)10.1038/s41586-024-08216-z

N/A

0.911DataRank · unranked

41 citations

Chenhao Li, Åsa Segerstolpe, Eric M. Brown, Rebecca Weisberg, Toru Nakata +6 more

SAC1 regulates autophagosomal phosphatidylinositol-4-phosphate for xenophagy-directed bacterial clearance

Cell Reports(2021)10.1016/j.celrep.2021.109434

N/A

0.883DataRank · unranked

24 citations

Lingjia Kong, Daniel B. Graham, Kimberly L. Carey, Ramnik J. Xavier, Kai Liu

Population structure discovery in meta-analyzed microbial communities and inflammatory bowel disease using MMUPHin

Genome biology(2022)10.1186/s13059-022-02753-4

N/A

0.765DataRank · unranked

163 citations

Dmitry Shungin, Himel Mallick, Melanie Schirmer, Long H. Nguyen, Raivo Kolde +5 more

Inflammation-associated nitrate facilitates ectopic colonization of oral bacterium Veillonella parvula in the intestine

Nature Microbiology(2022)10.1038/s41564-022-01224-7

N/A

0.749DataRank · unranked

146 citations

Eric M. Brown, Emily R. Temple, Michelle A. Onyekaba, Ahmed M. Mohamed, Kellyanne Duncan +9 more

A human model of asthma exacerbation reveals transcriptional programs and cell circuits specific to allergic asthma

Science Immunology(2023)10.1126/sciimmunol.abq6352

N/A

0.743DataRank · unranked

141 citations

Neal P. Smith, Tristan Kooistra, Kamil Slowikowski, Isabela Kernin, Jacques Deguine +15 more

Commensal consortia decolonize Enterobacteriaceae via ecological control

Nature(2024)10.1038/s41586-024-07960-6

N/A

0.704DataRank · unranked

108 citations

Takaaki Kawaguchi, Marie‐Madlen Pust, Keiko Yasuma-Mitobe, Damian R. Plichta, Naomi Hasegawa +29 more

Sequence-structure-function relationships in the microbial protein universe

Nature Communications(2023)10.1038/s41467-023-37896-w

N/A

0.700DataRank · unranked

105 citations

Paweł Szczerbiak, P. Douglas Renfrew, Vladimir Gligorijević, Daniel Berenberg, Tommi Vatanen +11 more

Mitochondrial dysfunction in inflammatory bowel disease alters intestinal epithelial metabolism of hepatic acylcarnitines

Journal of Clinical Investigation(2020)10.1172/jci133371

N/A

0.688DataRank · unranked

97 citations

Sayaka Ogawa, Lillian Chau, Kelly A. Whelan, Kathryn E. Hamilton, Jie Chen +18 more

Chemical and topological design of multicapped mRNA and capped circular RNA to augment translation

Nature Biotechnology(2024)10.1038/s41587-024-02393-y

N/A

0.659DataRank · unranked

80 citations

Dangliang Liu, Abhishek Aditham, Jianting Guo, Jiahao Huang, Franklin Kostas +6 more

pH sensing controls tissue inflammation by modulating cellular metabolism and endo-lysosomal function of immune cells

Nature Immunology(2022)10.1038/s41590-022-01231-0

N/A

0.652DataRank · unranked

76 citations

Alok Jaiswal, Zachary A. Costliow, Paula Herbst, Elizabeth A. Creasey, Noriko Oshiro-Rapley +5 more

Single-cell and spatial transcriptomics of stricturing Crohn’s disease highlights a fibrosis-associated network

Nature Genetics(2025)10.1038/s41588-025-02225-y

N/A

0.647DataRank · unranked

34 citations

Sathish Subramanian, Åsa Segerstolpe, Vy Anh Tran, Angela Shih, Grace T. Carter +19 more

HLA-II immunopeptidome profiling and deep learning reveal features of antigenicity to inform antigen discovery

Immunity(2023)10.1016/j.immuni.2023.05.009

N/A

0.596DataRank · unranked

52 citations

Jihye Park, Jennifer G. Abelin, Hannah Taylor, Thomas K. Pedersen, Damian R. Plichta +9 more

Comprehensive Association Analyses of Extraintestinal Manifestations in Inflammatory Bowel Disease

Gastroenterology(2024)10.1053/j.gastro.2024.02.026

N/A

0.564DataRank · unranked

42 citations

Millie D. Long, Shishir Dube, Lori Robbins, Gregory J. Botwin, Shaohong Yang +30 more

Genetic vulnerability to Crohn’s disease reveals a spatially resolved epithelial restitution program

Science Translational Medicine(2023)10.1126/scitranslmed.adg5252

N/A

0.507DataRank · unranked

13 citations

Chenhao Li, Toufic Mayassi, Helen Lin, Koushik Ghosh, Åsa Segerstolpe +14 more

Bacteroides sphingolipids promote anti-inflammatory responses through the mevalonate pathway

Cell Host & Microbe(2025)10.1016/j.chom.2025.05.007

N/A

0.477DataRank · unranked

23 citations

Emily R. Temple, Sarah Jeanfavre, Julián Ávila-Pacheco, Noël Taylor, Kai Liu +8 more

A Synthesis-Based Reverse Metabolomics Approach for the Discovery of Chemical Structures from Humans and Animals.

Research Square(2021)10.21203/rs.3.rs-820302/v1

N/A

0.464DataRank · unranked

21 citations

Emily C. Gentry, Stephanie L. Collins, Morgan Panitchpakdi, Pedro Belda‐Ferre, Allison K. Stewart +14 more

Translational genetics identifies a phosphorylation switch in CARD9 required for innate inflammatory responses

Cell Reports(2024)10.1016/j.celrep.2024.113944

N/A

0.249DataRank · unranked

4 citations

Zhifang Cao, Chirag Krishna, Jennifer L. Reedy, Xiebin Gu, Richard A. Dutko +12 more

Industrialization drives convergent microbial and physiological shifts in the human metaorganism

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.10.20.683358

N/A

0.241DataRank · unranked

4 citations

Malte Rühlemann, Ana Paula Schaan, Yue Ma, Lucas Moitinho‐Silva, Eike Matthias Wacker +61 more

Population study of the gut microbiome: associations with diet, lifestyle, and cardiometabolic disease

Genome Medicine(2021)10.1186/s13073-021-01007-5

N/A

0DataRank · unranked

83 citations

Hera Vlamakis, Jonathan Lee, Luke A. Besse, Vanessa Xanthakis, Ramachandran S. Vasan +3 more

Integration of metabolomics, genomics, and immune phenotypes reveals the causal roles of metabolites in disease

Genome biology(2021)10.1186/s13059-021-02413-z

N/A

0DataRank · unranked

70 citations

Martin Jaeger, Joep Beumer, Olivier B. Bakker, Raúl Aguirre‐Gamboa, Marije Oosting +28 more

Single-cell transcriptomic profiles reveal changes associated with BCG-induced trained immunity and protective effects in circulating monocytes

Cell Reports(2021)10.1016/j.celrep.2021.110028

N/A

0DataRank · unranked

64 citations

Simone J.C.F.M. Moorlag, Ariel Lefkovith, Bihua Li, Vasiliki Matzaraki, Liesbeth van Emst +7 more

Congruent microbiome signatures in fibrosis-prone autoimmune diseases: IgG4-related disease and systemic sclerosis

Genome Medicine(2021)10.1186/s13073-021-00853-7

N/A

0DataRank · unranked

59 citations

Juhi Somani, Matthieu Pichaud, Zachary S. Wallace, Ana D. Fernandes, Cory A. Perugino +8 more

The influence of the gut microbiome on BCG-induced trained immunity

Genome biology(2021)10.1186/s13059-021-02482-0

N/A

0DataRank · unranked

51 citations

Vera P. Mourits, Valerie A. C. M. Koeken, L. Charlotte J. de Bree, Simone J.C.F.M. Moorlag, Leo A. B. Joosten +5 more

Gut microbiome ADP-ribosyltransferases are widespread phage-encoded fitness factors

Cell Host & Microbe(2021)10.1016/j.chom.2021.07.011

N/A

0DataRank · unranked

50 citations

Hugo Arellano-Santoyo, Emily R. Temple, Zachary A. Costliow, Matthieu Pichaud, A. Brantley Hall +9 more

Gut bacterial metabolites modulate endoplasmic reticulum stress

Genome biology(2021)10.1186/s13059-021-02496-8

N/A

0DataRank · unranked

47 citations

Kwontae You, Matthieu Pichaud, Henry J. Haiser, Daniel B. Graham, Hera Vlamakis +3 more

Functional screen of inflammatory bowel disease genes reveals key epithelial functions

Genome Medicine(2021)10.1186/s13073-021-00996-7

N/A

0DataRank · unranked

39 citations

Gabrielle Boucher, Jean Paquette, Hugues Gosselin, Azadeh Alikashani, Nicolas Morin +27 more

Association of Baseline Luminal Narrowing With Ileal Microbial Shifts and Gene Expression Programs and Subsequent Transmural Healing in Pediatric Crohn Disease

Inflammatory Bowel Diseases(2021)10.1093/ibd/izaa339

N/A

0DataRank · unranked

16 citations

Nicholas J. Ollberding, Rebekah Karns, Yael Haberman, Adina Alazraki, David M. Hercules +21 more

Tuning in to inflammation: A path forward for precise and efficacious microbiome medicines?

Med(2021)10.1016/j.medj.2021.07.006

N/A

0DataRank · unranked

1 citations

Ramnik J. Xavier, Sathish Subramanian

Identifying disease-critical cell types and cellular processes across the human body by integration of single-cell profiles and human genetics

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.03.19.436212

N/A

0DataRank · unranked

39 citations

Kushal K. Dey, Daniel T. Montoro, Rahul Mohan, Steven Gazal, Jesse M. Engreitz +4 more

Human gut bacteria produce T H 17-modulating bile acid metabolites

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.01.08.425913

N/A

0DataRank · unranked

10 citations

Lina Yao, Yancong Zhang, Sena Bae, Gabriel D. D’Agostino, Eunha Kim +14 more

Longitudinal disease-associated gut microbiome differences in infants with early food allergic manifestations

Research Square(2021)10.21203/rs.3.rs-654476/v1

N/A

0DataRank · unranked

0 citations

Yamini V. Virkud, Ehud Dahan, Hannah Seay, Hera Vlamakis, Ramnik J. Xavier +4 more

Akkermansia muciniphila phospholipid induces homeostatic immune responses

Nature(2022)10.1038/s41586-022-04985-7

N/A

0DataRank · unranked

398 citations

Chelsi D. Cassilly, Xiaoxi Liu, Sung‐Moo Park, Betsabeh Khoramian Tusi, Xiangjun Chen +10 more

Mammalian brain glycoproteins exhibit diminished glycan complexity compared to other tissues

Nature Communications(2022)10.1038/s41467-021-27781-9

N/A

0DataRank · unranked

108 citations

Maxence Noël, Sylvain Lehoux, Murat Çetinbaş, Ramnik J. Xavier, Ruslan I. Sadreyev +5 more

The CD4+ T cell response to a commensal-derived epitope transitions from a tolerant to an inflammatory state in Crohn’s disease

Immunity(2022)10.1016/j.immuni.2022.08.016

N/A

0DataRank · unranked

58 citations

Eric M. Brown, Damian R. Plichta, Joachim Johansen, Shaina W. Twardus, Toni Marie Delorey +6 more

Longitudinal disease-associated gut microbiome differences in infants with food protein-induced allergic proctocolitis

Microbiome(2022)10.1186/s40168-022-01322-y

N/A

0DataRank · unranked

50 citations

Yamini V. Virkud, Ehud Dahan, Hannah Seay, Dvir Itzkovits, Hera Vlamakis +5 more

Immune system-wide Mendelian randomization and triangulation analyses support autoimmunity as a modifiable component in dementia-causing diseases

Nature Aging(2022)10.1038/s43587-022-00293-x

N/A

0DataRank · unranked

42 citations

Nina Mars, Pyry N. Sipilä, Archana Singh‐Manoux, Heiko Runz, FinnGen +7 more

Ornithine decarboxylase supports ILC3 responses in infectious and autoimmune colitis through positive regulation of IL-22 transcription

Proceedings of the National Academy of Sciences(2022)10.1073/pnas.2214900119

N/A

0DataRank · unranked

40 citations

Siyan Cao, Tihana Tršan, Jennifer K. Bando, Julián Ávila-Pacheco, John L. Cleveland +4 more

Metabolomic and transcriptomic signatures of influenza vaccine response in healthy young and older adults

Aging Cell(2022)10.1111/acel.13682

N/A

0DataRank · unranked

24 citations

Subhasis Mohanty, Heather A. Kang, Lingjia Kong, Julián Ávila-Pacheco, Samit R. Joshi +12 more

Sequence-structure-function relationships in the microbial protein universe

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.03.18.484903

N/A

0DataRank · unranked

10 citations

Paweł Szczerbiak, P. Douglas Renfrew, Vladimir Gligorijević, Daniel Berenberg, Tommi Vatanen +11 more

Lectin-Seq: a method to profile lectin-microbe interactions in native communities

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.12.14.520458

N/A

0DataRank · unranked

2 citations

Christine R. Isabella, Rebecca L. Walker, Dallis Sergio, Tony Gaca, Smrithi Raman +13 more

Gut microbiome lipid metabolism and its impact on host physiology

Cell Host & Microbe(2023)10.1016/j.chom.2023.01.009

N/A

0DataRank · unranked

421 citations

Jon Clardy, Ramnik J. Xavier, Eric M. Brown

The landscape of immune dysregulation in Crohn’s disease revealed through single-cell transcriptomic profiling in the ileum and colon

Immunity(2023)10.1016/j.immuni.2023.01.002

N/A

0DataRank · unranked

269 citations

Vladislav Pokatayev, Ariel Lefkovith, Grace T. Carter, Elizabeth A. Creasey, Chirag Krishna +9 more

Massively parallel base editing to map variant effects in human hematopoiesis

Cell(2023)10.1016/j.cell.2023.03.035

N/A

0DataRank · unranked

128 citations

Nicole Castano, Michael Pang, Emanuelle I. Grody, Samantha Joubran, Alexis Caulier +20 more

Annotating metabolite mass spectra with domain-inspired chemical formula transformers

Nature Machine Intelligence(2023)10.1038/s42256-023-00708-3

N/A

0DataRank · unranked

70 citations

Jeremy Wohlwend, Martin Stražar, Guy Haroush, Ramnik J. Xavier, Connor W. Coley +1 more

A Cardiolipin from Muribaculum intestinale Induces Antigen-Specific Cytokine Responses

Journal of the American Chemical Society(2023)10.1021/jacs.3c09734

N/A

0DataRank · unranked

53 citations

Yern‐Hyerk Shin, Xiao Ma, Sung‐Moo Park, Daniel B. Graham, Ramnik J. Xavier +2 more

Association of distinct microbial signatures with premalignant colorectal adenomas

Cell Host & Microbe(2023)10.1016/j.chom.2023.04.007

N/A

0DataRank · unranked

46 citations

Damian R. Plichta, Shreya Asher, Marisa DelSignore, Tiffany Jeong, Jessica McGoldrick +5 more

Mapping the dynamic genetic regulatory architecture of HLA genes at single-cell resolution

Nature Genetics(2023)10.1038/s41588-023-01586-6

N/A

0DataRank · unranked

43 citations

Amber Shen, Saisriram Gurajala, Aparna Nathan, Laurie Rumker, Vitor R. C. Aguiar +95 more

A distinct human cell type expressing MHCII and RORγt with dual characteristics of dendritic cells and type 3 innate lymphoid cells

Proceedings of the National Academy of Sciences(2023)10.1073/pnas.2318710120

N/A

0DataRank · unranked

43 citations

Silvia Lonardi, Matilde Monti, Francesco Missale, Changxu Fan, Matthew L. Coates +20 more

A parathyroid hormone/salt-inducible kinase signaling axis controls renal vitamin D activation and organismal calcium homeostasis

Journal of Clinical Investigation(2023)10.1172/jci163627

N/A

0DataRank · unranked

37 citations

Mark B. Meyer, Carlos Arevalo, Murat Tekgüç, Chengcheng Zhang, Jialiang S. Wang +22 more

Collinsella aerofaciens Produces a pH-Responsive Lipid Immunogen

Journal of the American Chemical Society(2023)10.1021/jacs.3c00250

N/A

0DataRank · unranked

34 citations

Munhyung Bae, Dávid Szamosvári, Chelsi D. Cassilly, Andrew S. Bolze, David R. Jackson +3 more

Revisiting Coley’s Toxins: Immunogenic Cardiolipins from Streptococcus pyogenes

Journal of the American Chemical Society(2023)10.1021/jacs.3c07727

N/A

0DataRank · unranked

18 citations

Sunghee Bang, Sung‐Moo Park, Xiao Ma, Chelsi D. Cassilly, Daniel B. Graham +3 more

Identification of host regulators of Mycobacterium tuberculosis phenotypes uncovers a role for the MMGT1-GPR156 lipid droplet axis in persistence

Cell Host & Microbe(2023)10.1016/j.chom.2023.05.009

N/A

0DataRank · unranked

15 citations

Chih-Hung Chou, Motohiko Kadoki, Daniel B. Graham, Jacques Deguine, Deborah T. Hung +2 more

Early cellular and molecular signatures correlate with severity of West Nile virus infection

iScience(2023)10.1016/j.isci.2023.108387

N/A

0DataRank · unranked

12 citations

Yujiao Zhao, Ira Fleming, Sameet Mehta, Xiaomei Wang, Brent Vander Wyk +17 more

Differential Impact of Smoking on Methylome and Transcriptome in Crohn’s Disease and Ulcerative Colitis

Inflammatory Bowel Diseases(2023)10.1093/ibd/izad268

N/A

0DataRank · unranked

10 citations

Damian R. Plichta, Sean Kim, I. Kim, S.A. Gregory, Yan Xia +4 more

Untangling the CD4 T cell response to the microbiota

Proceedings of the National Academy of Sciences(2023)10.1073/pnas.2303351120

N/A

0DataRank · unranked

1 citations

Ramnik J. Xavier, Toufic Mayassi

Mapping the dynamic genetic regulatory architecture of HLA genes at single-cell resolution

medRxiv(2023)10.1101/2023.03.14.23287257

N/A

0DataRank · unranked

10 citations

Amber Shen, Saori Sakaue, Yang Luo, Saisriram Gurajala, Aparna Nathan +23 more

Rationally-defined microbial consortia suppress multidrug-resistant proinflammatory Enterobacteriaceae via ecological control

Research Square(2023)10.21203/rs.3.rs-3462622/v1

N/A

0DataRank · unranked

7 citations

Munehiro Furuichi, Takaaki Kawaguchi, Marie‐Madlen Pust, Keiko Yasuma-Mitobe, Damian R. Plichta +26 more

Protein Language Models Uncover Carbohydrate-Active Enzyme Function in Metagenomics

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.10.23.563620

N/A

0DataRank · unranked

7 citations

Ahmed M. Mohamed, Daniel B. Graham, Róisı́n M. Owens, Sabina Leanti La Rosa, Damian R. Plichta +3 more

Early cellular and molecular signatures correlate with severity of West Nile Virus infection

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.05.14.540642

N/A

0DataRank · unranked

0 citations

Yujiao Zhao, Ira Fleming, Sameet Mehta, Xiaomei Wang, Brent Vander Wyk +17 more

Gut microbiome and metabolome profiling in Framingham heart study reveals cholesterol-metabolizing bacteria

Cell(2024)10.1016/j.cell.2024.03.014

N/A

0DataRank · unranked

226 citations

Martin Stražar, Ahmed M. Mohamed, Julián Ávila-Pacheco, Rebecca L. Walker, Tina Lebar +21 more

Linking microbial genes to plasma and stool metabolites uncovers host-microbial interactions underlying ulcerative colitis disease course

Cell Host & Microbe(2024)10.1016/j.chom.2023.12.013

N/A

0DataRank · unranked

72 citations

Martin Stražar, Julián Ávila-Pacheco, Daniel F. Rojas‐Tapias, Eric M. Brown, Emily R. Temple +19 more

Discovery of disease-adapted bacterial lineages in inflammatory bowel diseases

Cell Host & Microbe(2024)10.1016/j.chom.2024.05.022

N/A

0DataRank · unranked

44 citations

Thomas N.H. Cheng, Ashwin N. Ananthakrishnan, Bharati Kochar, Kristin E. Burke, Kevin Shannon +4 more

Chemical tools to expand the ligandable proteome: Diversity-oriented synthesis-based photoreactive stereoprobes

Cell chemical biology(2024)10.1016/j.chembiol.2024.10.005

N/A

0DataRank · unranked

26 citations

David B. Konrad, Zher Yin Tan, Kimberly L. Carey, Jessica Y. Luo, Sang Joon Won +9 more

Oral and non-oral lichen planus show genetic heterogeneity and differential risk for autoimmune disease and oral cancer

The American Journal of Human Genetics(2024)10.1016/j.ajhg.2024.04.020

N/A

0DataRank · unranked

17 citations

Mari Vehviläinen, Shuang Luo, Jarmo Ritari, Juha Karjalainen, Javier Gracia‐Tabuenca +14 more

B cell tolerance and autoimmunity: Lessons from repertoires

The Journal of Experimental Medicine(2024)10.1084/jem.20231314

N/A

0DataRank · unranked

13 citations

Ramnik J. Xavier, Jacques Deguine

Integrated annotation prioritizes metabolites with bioactivity in inflammatory bowel disease

Molecular Systems Biology(2024)10.1038/s44320-024-00027-8

N/A

0DataRank · unranked

11 citations

Sena Bae, Yancong Zhang, Eunyoung Chun, Julián Ávila-Pacheco, Ludwig Geistlinger +11 more

Small-molecule probe for IBD risk variant GPR65 I231L alters cytokine signaling networks through positive allosteric modulation

Science Advances(2024)10.1126/sciadv.adn2339

N/A

0DataRank · unranked

8 citations

C. Subba Reddy, Zher Yin Tan, Bihua Li, Partha P. Nag, Joshua Park +5 more

The centrosomal protein FGFR1OP controls myosin function in murine intestinal epithelial cells

Developmental Cell(2024)10.1016/j.devcel.2024.06.001

N/A

0DataRank · unranked

2 citations

Vincent Peng, Chirag Krishna, Takahiro E. Ohara, Wandy L. Beatty, Raki Sudan +16 more

Emerging biochemical, microbial and immunological evidence in the search for why HLA-B∗27 confers risk for spondyloarthritis

Cell chemical biology(2024)10.1016/j.chembiol.2024.07.012

N/A

0DataRank · unranked

2 citations

Phuong N.U. Nguyen, Ramnik J. Xavier, Eric M. Brown

Correction of age-associated defects in dendritic cells enables CD4+ T cells to eradicate tumors

Cell(2024)10.1016/j.cell.2024.05.026

N/A

0DataRank · unranked

84 citations

Stephanie N. Kennedy, J. Park, Francesco Boriello, Pascal Devant, Anh Cao +10 more

Blended Genome Exome (BGE) as a Cost Efficient Alternative to Deep Whole Genomes or Arrays

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.04.03.587209

N/A

0DataRank · unranked

17 citations

Jonna Grimsby, Daniel P. Howrigan, Kai Yuan, Sinéad B. Chapman, Christine Stevens +12 more

Chemical tools to expand the ligandable proteome: diversity-oriented synthesis-based photoreactive stereoprobes

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.02.27.582206

N/A

0DataRank · unranked

8 citations

David B. Konrad, Zher Yin Tan, Kimberly L. Carey, Jessica Y. Luo, Sang Joon Won +9 more

The Ulcerative Colitis-Associated Gene NXPE1 Catalyzes Glycan Modifications on Colonic Mucin

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.12.24.630288

N/A

0DataRank · unranked

2 citations

Noriko Rapley, Xiebin Gu, Joon Soo An, Ashwin N. Ananthakrishnan, Elizabeth A. Creasey +6 more

Identification of specific microbiota members that induce beige fat biogenesis in response to dietary cues

Research Square(2024)10.21203/rs.3.rs-5454144/v1

N/A

0DataRank · unranked

0 citations

Takeshi Tanoue, Manabu Nagayama, Ayumi Roochana, Samuel Zimmerman, Orr Ashenberg +25 more

Microbiome-derived bile acid signatures in early life and their association with islet autoimmunity

Nature Communications(2025)10.1038/s41467-025-66619-6

N/A

0DataRank · unranked

12 citations

Alex M. Dickens, Tanja Buchacher, Tianai Lou, Vincent Charron‐Lamoureux, Roosa Kattelus +24 more

Eggerthella lenta Produces a Cryptic Pro-inflammatory Lipid

Journal of the American Chemical Society(2025)10.1021/jacs.5c08613

N/A

0DataRank · unranked

7 citations

Sunghee Bang, Ramnik J. Xavier, Jon Clardy, Yern‐Hyerk Shin

Unusual Phospholipids from Morganella morganii Linked to Depression

Journal of the American Chemical Society(2025)10.1021/jacs.4c15158

N/A

0DataRank · unranked

8 citations

Yern‐Hyerk Shin, Sung‐Moo Park, Lei Deng, R. Thomas Williamson, Daniel B. Graham +3 more

An International Multicenter Study of Native and Immigrant South Asian Crohn’s Disease

Clinical Gastroenterology and Hepatology(2025)10.1016/j.cgh.2025.06.022

N/A

0DataRank · unranked

6 citations

Rebecca Cohen, Tarun Chhibba, Mukesh Kumar, Helena Lau, Dermot McGovern +9 more

The Ulcerative Colitis-Associated Gene NXPE1 Catalyzes Glycan Modifications on Colonic Mucin

Journal of the American Chemical Society(2025)10.1021/jacs.5c00769

N/A

0DataRank · unranked

5 citations

Noriko Oshiro-Rapley, Xiebin Gu, Joon Soo An, Ashwin N. Ananthakrishnan, Elizabeth A. Creasey +6 more

Human immunodeficiency virus and antiretroviral therapies exert distinct influences across diverse gut microbiomes

Nature Microbiology(2025)10.1038/s41564-025-02157-7

N/A

0DataRank · unranked

5 citations

Sambhawa Priya, Jiawu Xu, Upasana Das Adhikari, Gleb Pishchany, Ahmed M. Mohamed +13 more

Protein language models uncover carbohydrate-active enzyme function in metagenomics

BMC Bioinformatics(2025)10.1186/s12859-025-06286-y

N/A

0DataRank · unranked

4 citations

Ahmed M. Mohamed, Chenhao Li, Tommi Vatanen, D. B. Graham, Róisı́n M. Owens +5 more

Allosteric modulation of the solute carrier transporter SLC39A8 potentiates manganese and cadmium uptake

Journal of Clinical Investigation(2025)10.1172/jci191096

N/A

0DataRank · unranked

3 citations

Clara Moon, Alan D. Wickenden, Mark S. Tichenor, Ge Yunhui, Eduardo V. Mercado-Marin +9 more

Autoimmune disease risk gene ANKRD55 promotes TH17 effector function through metabolic modulation

The Journal of Experimental Medicine(2025)10.1084/jem.20250185

N/A

0DataRank · unranked

1 citations

Lingjia Kong, Elizabeth A. Creasey, Sneha Rath, Lei Deng, Julián Ávila-Pacheco +11 more

Correction to “Unusual Phospholipids from Morganella morganii Linked to Depression”

Journal of the American Chemical Society(2025)10.1021/jacs.5c05127

N/A

0DataRank · unranked

0 citations

Yern‐Hyerk Shin, Sung‐Moo Park, Lei Deng, R. Thomas Williamson, Daniel B. Graham +3 more

Nuclear receptor coregulator NRIP1 R448G modulates T cell gut homing to control intestinal inflammation

Proceedings of the National Academy of Sciences(2025)10.1073/pnas.2508269122

N/A

0DataRank · unranked

0 citations

Hee Seung Hwang, Bihua Li, Yanhua Zhao, Koushik Ghosh, Lei Deng +5 more

Type 2 cytokines act on enteric sensory neurons to promote parasitic host defense 9411

The Journal of Immunology(2025)10.1093/jimmun/vkaf283.2815

N/A

0DataRank · unranked

0 citations

Clara Berard, Lin-Yu Sun, Sumiti Sandhu, Sarah Zaghouani, Krishna Subramony Iyer +13 more

Development of an FKBP12-recruiting chemical-induced proximity DNA-encoded library and its application to discover an autophagy potentiator

Cell chemical biology(2025)10.1016/j.chembiol.2024.12.002

N/A

0DataRank · unranked

13 citations

Joel K.A. Adade, Xiebin Gu, Cody Hecht, Michael Salcius, Bingqi Tong +7 more

Trained immunity, tolerance, priming and differentiation: distinct immunological processes

Nature Immunology(2020)10.1038/s41590-020-00845-6

N/A

0DataRank · unranked

603 citations

Peter Aaby, Shabaana A. Khader, Luis B. Barreiro, Siroon Bekkering, Triantafyllos Chavakis +39 more

Cholesterol Metabolism by Uncultured Human Gut Bacteria Influences Host Cholesterol Level

Cell Host & Microbe(2020)10.1016/j.chom.2020.05.013

N/A

0DataRank · unranked

309 citations

Damian R. Plichta, Dmitry Shungin, Nitzan Koppel, A. Brantley Hall, Beverly Fu +6 more

Delivery Mode Affects Stability of Early Infant Gut Microbiota

Cell Reports Medicine(2020)10.1016/j.xcrm.2020.100156

N/A

0DataRank · unranked

235 citations

Chiara Mazzoni, Larson Hogstrom, Allison Bryant, Agnès Bergerat, Avital Cher +10 more

Growth effects of N-acylethanolamines on gut bacteria reflect altered bacterial abundances in inflammatory bowel disease

Nature Microbiology(2020)10.1038/s41564-019-0655-7

N/A

0DataRank · unranked

104 citations

Eric A. Franzosa, Jason Bishai, John W. Annand, Akihiko Oka, Jason Lloyd‐Price +12 more

Linking Strain Engraftment in Fecal Microbiota Transplantation With Maintenance of Remission in Crohn’s Disease

Gastroenterology(2020)10.1053/j.gastro.2020.08.045

N/A

0DataRank · unranked

68 citations

Jason Lloyd‐Price, Tommi Vatanen, Philippe Seksik, Laurent Beaugerie, Tabassome Simon +4 more

Alterations in Fecal Microbiomes and Serum Metabolomes of Fatigued Patients With Quiescent Inflammatory Bowel Diseases

Clinical Gastroenterology and Hepatology(2020)10.1016/j.cgh.2020.03.013

N/A

0DataRank · unranked

64 citations

Damian R. Plichta, Amit D. Joshi, Gracia Bonilla, Vincent Peng, Francis Colizzo +9 more

TFEB Transcriptional Responses Reveal Negative Feedback by BHLHE40 and BHLHE41

Cell Reports(2020)10.1016/j.celrep.2020.108371

N/A

0DataRank · unranked

58 citations

Geraldine L. C. Paulus, Lingfei Wang, Dale R. Balce, Jessica W. Luo, Phil Bergman +10 more

Whole exome sequencing analyses reveal gene–microbiota interactions in the context of IBD

Gut(2020)10.1136/gutjnl-2019-319706

N/A

0DataRank · unranked

55 citations

Arnau Vich Vila, Ranko Gaćeša, Valerie Collij, Christine Stevens, Jack Fu +17 more

A missense variant in SLC39A8 confers risk for Crohn’s disease by disrupting manganese homeostasis and intestinal barrier integrity

Proceedings of the National Academy of Sciences(2020)10.1073/pnas.2014742117

N/A

0DataRank · unranked

55 citations

Elizabeth A. Creasey, Motohiko Kadoki, Helen Lin, Martin K. Selig, Junmei Yao +5 more

Multi-“-Omics” Profiling in Patients With Quiescent Inflammatory Bowel Disease Identifies Biomarkers Predicting Relapse

Inflammatory Bowel Diseases(2020)10.1093/ibd/izaa183

N/A

0DataRank · unranked

54 citations

Damian R. Plichta, Amit D. Joshi, Gracia Bonilla, Ruslan I. Sadreyev, Hera Vlamakis +3 more

Cell Type– and Stimulation-Dependent Transcriptional Programs Regulated by Atg16L1 and Its Crohn's Disease Risk Variant T300A

The Journal of Immunology(2020)10.4049/jimmunol.1900750

N/A

0DataRank · unranked

7 citations

Motohiko Kadoki, Ariel Lefkovith, Kara L. Conway, Kevin MingJie Gao, Vishnu Mohanan +8 more

Allergic asthma is distinguished by sensitivity of allergen-specific CD4+ T cells and airway structural cells to type 2 inflammation

UNC Libraries(2020)10.17615/sfd3-pt41

N/A

0DataRank · unranked

4 citations

Roshi Afshar, Morris Ling, Ramnik J. Xavier, James Moon, Daniel L. Hamilos +16 more

Prediction of complicated disease course for children newly diagnosed with Crohn's disease: a multicentre inception cohort study

UNC Libraries(2020)10.17615/z68h-gy11

N/A

0DataRank · unranked

1 citations

Jonathan Evans, Francisco Sylvester, David J. Keljo, Joel R. Rosh, Wallace Crandall +38 more

The schizophrenia-associated variant in SLC39A8 alters N-glycosylation in the mouse brain

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.12.22.424076

N/A

0DataRank · unranked

2 citations

Sarah Williams, Maxence Noël, Bo Yang, Alexandria K. D’Souza, Toru Nakata +10 more

Fruit and vegetable consumption is associated with lower prevalence of asymptomatic diverticulosis: a cross-sectional colonoscopy-based study

Research Square(2020)10.21203/rs.2.21117/v1

N/A

0DataRank · unranked

1 citations

Jessica McGoldrick, Danielle Bellavance, Po‐Hong Liu, Ramnik J. Xavier, Joseph C. Yarze +5 more

Beth Levine (1960–2020)

Cell(2020)10.1016/j.cell.2020.07.002

N/A

0DataRank · unranked

0 citations

Herbert W. Virgin, Ramnik J. Xavier

Beth Levine (1960–2020)

Molecular Cell(2020)10.1016/j.molcel.2020.07.023

N/A

0DataRank · unranked

0 citations

Herbert W. Virgin, Ramnik J. Xavier

Beth Levine (1960–2020)

Developmental Cell(2020)10.1016/j.devcel.2020.07.016

N/A

0DataRank · unranked

0 citations

Herbert W. Virgin, Ramnik J. Xavier

Functional modulation of T follicular cells in vivo enhances antigen-specific humoral immunity

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.11.17.387100

N/A

0DataRank · unranked

0 citations

Hera Vlamakis, Anthony O. Gaca, Ramnik J. Xavier, Robert M. Anthony, Jose D. Pagan

Structure-based protein function prediction using graph convolutional networks

Nature Communications(2021)10.1038/s41467-021-23303-9

N/A

0DataRank · unranked

929 citations

P. Douglas Renfrew, Tomasz Kościółek, Julia Koehler Leman, Daniel Berenberg, Tommi Vatanen +9 more

Role of dietary fiber in the recovery of the human gut microbiome and its metabolome

Cell Host & Microbe(2021)10.1016/j.chom.2020.12.012

N/A

0DataRank · unranked

313 citations

Kyle Bittinger, Yuan Gao, Elliot S. Friedman, Lisa Nessel, Unmesha Roy Paladhi +11 more

Gut microbiome-mediated metabolism effects on immunity in rural and urban African populations

Nature Communications(2021)10.1038/s41467-021-25213-2

N/A

0DataRank · unranked

93 citations

Godfrey S. Temba, Hera Vlamakis, Vesla Kullaya, Furaha S. Lyamuya, Blandina T. Mmbaga +6 more

Single-cell analyses of Crohn’s disease tissues reveal intestinal intraepithelial T cells heterogeneity and altered subset distributions

Nature Communications(2021)10.1038/s41467-021-22164-6

N/A

0DataRank · unranked

239 citations

Ramya Gamini, Marina Cella, Jorge Schettini, Mattia Bugatti, Shanrong Zhao +11 more

Multi-omics reveal microbial determinants impacting responses to biologic therapies in inflammatory bowel disease

Cell Host & Microbe(2021)10.1016/j.chom.2021.06.019

N/A

0DataRank · unranked

220 citations

Damian R. Plichta, Larson Hogstrom, Nienke Z. Borren, Helena Lau, Sara Gregory +7 more

Capsular polysaccharide correlates with immune response to the human gut microbe Ruminococcus gnavus

Proceedings of the National Academy of Sciences(2021)10.1073/pnas.2007595118

N/A

0DataRank · unranked

131 citations

Eric M. Brown, Chelsi D. Cassilly, Hera Vlamakis, Ramnik J. Xavier, Jon Clardy +1 more