ArticleCell reports. Medicine2024
Microbiome preterm birth DREAM challenge: Crowdsourcing machine learning approaches to advance preterm birth research.
Erratum issuedAbstract read
In one paragraph
Article in Cell reports. Medicine, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 41 papers, 1 of them a synthesis that pooled it.
0numbers the graph read from it
0cells of the map it votes in
41citing papers in PubMed, 1 pooled it
–field-weighted citation impact
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
41 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Microbiota composition of the female reproductive tract and miscarriage: a systematic review and meta-analysis.NPJ biofilms and microbiomes · 2026Pooled it
- Assessing the Efficacy of Ligilactobacillus salivarius CLS0420 and Lacticaseibacillus paracasei CLPC0603 on Vaginal Well-Being in Healthy Women: A Pilot, Randomized, Double-Blind, Placebo-Controlled Trial.Probiotics and antimicrobial proteins · 2026Trial
- Interpretable deep neural network identifies robust biomarkers for diseases with mechanistic insights from omics data.Briefings in bioinformatics · 2026Article
- The SEA-AD DREAM Challenge: Community benchmarking human and AI agent solutions for Alzheimer's disease neuropathology prediction from single-nucleus transcriptomics.bioRxiv : the preprint server for biology · 2026Article
- Article
- The Pathophysiology of Spontaneous Preterm Birth: Emerging Mechanisms Reviewed by the Preterm Birth International Collaborative.Reproductive sciences (Thousand Oaks, Calif.) · 2026Review
- Complement and neutrophils are actively involved at the cervicovaginal interface in cases of adverse microbial composition, cervical shortening and spontaneous preterm birth.NPJ biofilms and microbiomes · 2026Article
- Association of vaginal microbiome, cytokines, and spontaneous preterm birth among Chinese women: a nested case-control study.Microbiology spectrum · 2026Article
- Benchmarking large language models for predictive modeling in biomedical research with a focus on reproductive health.Cell reports. Medicine · 2026Article
- Histidine Metabolic Pathway Modifies the Relationships Between 6:2 Cl-PFESA Exposure and Preterm Birth.Toxics · 2026Article
- Microbiome, Human Papillomavirus and Cervical Carcinogenesis.Current topics in microbiology and immunology · 2026Review
- Leakage-aware machine learning reveals structured clinical and vaginal microbiome patterns associated with preterm birth in a Mexican cohort.Frontiers in global women's health · 2026Article
- Vaginal microbiome structure in pregnancy and host factors predict preterm birth: Results from the ECHO Cohort.Annals of epidemiology · 2025Article
- Personalized colorectal cancer risk assessment through explainable AI and Gut microbiome profiling.Gut microbes · 2025Article
- Vaginal microbiome and its implications in preterm birth.Obstetrics & gynecology science · 2025Review
- Vaginal Microbiota in Short Cervix Pregnancy: Secondary Analysis of Pessary vs. Progesterone Trial.Diseases (Basel, Switzerland) · 2025Article
- ABO blood group antigens influence host-microbe interactions and risk of early spontaneous preterm birth.NPJ biofilms and microbiomes · 2025Article
- The Impact of Lifestyle on Reproductive Health: Microbial Complexity, Hormonal Dysfunction, and Pregnancy Outcomes.International journal of molecular sciences · 2025Review
- Vaginal Microbiome and Its Relationship with Assisted Reproduction: A Systematic Review and Meta-Analysis.Life (Basel, Switzerland) · 2025Review
- Placental epigenetic clocks derived from crowdsourcing: Implications for the study of accelerated aging in obstetrics.iScience · 2025Article
Corrections and comments
- Erratum issued
- Update of
Authors and funding
53 authors.
Jonathan L GolobDivision of Infectious Disease, Department of Internal Medicine, University of Michigan, Ann Arbor, MI, USA; March of Dimes Prematurity Research Center at the University of California San Francisco, San Francisco, CA, USA. Electronic address: golobj@umich.edu.
Tomiko T OskotskyMarch of Dimes Prematurity Research Center at the University of California San Francisco, San Francisco, CA, USA; Bakar Computational Health Sciences Institute, University of California San Francisco, San Francisco, CA, USA; Department of Pediatrics, University of California San Francisco, San Francisco, CA, USA. Electronic address: tomiko.oskotsky@ucsf.edu.
Alice S TangMarch of Dimes Prematurity Research Center at the University of California San Francisco, San Francisco, CA, USA; Bakar Computational Health Sciences Institute, University of California San Francisco, San Francisco, CA, USA; Department of Pediatrics, University of California San Francisco, San Francisco, CA, USA.
Alennie RoldanMarch of Dimes Prematurity Research Center at the University of California San Francisco, San Francisco, CA, USA; Bakar Computational Health Sciences Institute, University of California San Francisco, San Francisco, CA, USA; Department of Pediatrics, University of California San Francisco, San Francisco, CA, USA.
Verena ChungSage Bionetworks, Seattle, WA, USA.
Connie W Y HaBenioff Center for Microbiome Medicine, Department of Medicine, University of California, San Francisco, San Francisco, CA, USA.
Ronald J WongDepartment of Pediatrics, Stanford University School of Medicine, Stanford, CA, USA; March of Dimes Prematurity Research Center at Stanford University, Stanford, CA, USA.
Kaitlin J FlynnSage Bionetworks, Seattle, WA, USA.
Antonio Parraga-LeoBakar Computational Health Sciences Institute, University of California San Francisco, San Francisco, CA, USA; Department of Pediatrics, University of California San Francisco, San Francisco, CA, USA; Department of Pediatrics, Obstetrics and Gynaecology, Universidad de Valencia, Valencia, Spain; IVIRMA Global Research Alliance, IVI Foundation, Instituto de Investigación Sanitaria La Fe (IIS La Fe), Valencia, Spain.
Camilla WibrandBakar Computational Health Sciences Institute, University of California San Francisco, San Francisco, CA, USA; Department of Pediatrics, University of California San Francisco, San Francisco, CA, USA.
Samuel S MinotData Core, Shared Resources, Fred Hutchinson Cancer Center, Seattle, WA, USA.
Boris OskotskyBakar Computational Health Sciences Institute, University of California San Francisco, San Francisco, CA, USA.
Gaia AndreolettiMarch of Dimes Prematurity Research Center at the University of California San Francisco, San Francisco, CA, USA; Bakar Computational Health Sciences Institute, University of California San Francisco, San Francisco, CA, USA; Department of Pediatrics, University of California San Francisco, San Francisco, CA, USA.
Idit KostiMarch of Dimes Prematurity Research Center at the University of California San Francisco, San Francisco, CA, USA; Bakar Computational Health Sciences Institute, University of California San Francisco, San Francisco, CA, USA; Department of Pediatrics, University of California San Francisco, San Francisco, CA, USA.
Julie BletzSage Bionetworks, Seattle, WA, USA.
Amber NelsonSage Bionetworks, Seattle, WA, USA.
Jifan GaoDepartment of Biostatistics and Medical Informatics, University of Wisconsin-Madison, Madison, WI, USA.
Zhoujingpeng WeiDepartment of Biostatistics and Medical Informatics, University of Wisconsin-Madison, Madison, WI, USA.
Guanhua ChenDepartment of Biostatistics and Medical Informatics, University of Wisconsin-Madison, Madison, WI, USA.
Zheng-Zheng TangDepartment of Biostatistics and Medical Informatics, University of Wisconsin-Madison, Madison, WI, USA.
Pierfrancesco NovielliDipartimento di Scienze del Suolo, della Pianta e degli Alimenti, Università degli Studi di Bari Aldo Moro, Bari, Italy; Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy.
Donato RomanoDipartimento di Scienze del Suolo, della Pianta e degli Alimenti, Università degli Studi di Bari Aldo Moro, Bari, Italy; Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy.
Ester PantaleoIstituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy; Dipartimento Interateneo di Fisica "M, Merlin", Università degli Studi di Bari Aldo Moro, Bari, Italy.
Nicola AmorosoIstituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy; Dipartimento di Farmacia - Scienze del Farmaco, Università degli Studi di Bari Aldo Moro, Bari, Italy.
Alfonso MonacoIstituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy; Dipartimento Interateneo di Fisica "M, Merlin", Università degli Studi di Bari Aldo Moro, Bari, Italy.
Mirco VaccaDipartimento di Scienze del Suolo, della Pianta e degli Alimenti, Università degli Studi di Bari Aldo Moro, Bari, Italy.
Maria De AngelisDipartimento di Scienze del Suolo, della Pianta e degli Alimenti, Università degli Studi di Bari Aldo Moro, Bari, Italy.
Roberto BellottiIstituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy; Dipartimento Interateneo di Fisica "M, Merlin", Università degli Studi di Bari Aldo Moro, Bari, Italy.
Sabina TangaroDipartimento di Scienze del Suolo, della Pianta e degli Alimenti, Università degli Studi di Bari Aldo Moro, Bari, Italy; Istituto Nazionale di Fisica Nucleare, Sezione di Bari, Bari, Italy.
Abigail KuntzlemanDepartment of Biological Sciences, Michigan Technological University, Houghton, MI, USA.
Isaac BigcraftDepartment of Biological Sciences, Michigan Technological University, Houghton, MI, USA.
Stephen TechtmannDepartment of Biological Sciences, Michigan Technological University, Houghton, MI, USA.
Daehun BaeSchool of Electrical Engineering and Computer Science, Gwangju Institute of Science and Technology (GIST), Gwangju, Republic of Korea.
Eunyoung KimSchool of Electrical Engineering and Computer Science, Gwangju Institute of Science and Technology (GIST), Gwangju, Republic of Korea.
Jongbum JeonKorea Bioinformation Center (KOBIC), Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, Republic of Korea.
Soobok JoeKorea Bioinformation Center (KOBIC), Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, Republic of Korea.
Preterm Birth DREAM Community
Kevin R TheisDepartment of Biochemistry, Microbiology and Immunology, Wayne State University, Detroit, MI, USA.
Sherrianne NgImperial College Parturition Research Group, Division of the Institute of Reproductive and Developmental Biology, Imperial College London, London, UK; March of Dimes Prematurity Research Centre at Imperial College London, London, UK.
Yun S LeeImperial College Parturition Research Group, Division of the Institute of Reproductive and Developmental Biology, Imperial College London, London, UK; March of Dimes Prematurity Research Centre at Imperial College London, London, UK.
Patricia Diaz-GimenoIVIRMA Global Research Alliance, IVI Foundation, Instituto de Investigación Sanitaria La Fe (IIS La Fe), Valencia, Spain.
Phillip R BennettImperial College Parturition Research Group, Division of the Institute of Reproductive and Developmental Biology, Imperial College London, London, UK; March of Dimes Prematurity Research Centre at Imperial College London, London, UK.
David A MacIntyreImperial College Parturition Research Group, Division of the Institute of Reproductive and Developmental Biology, Imperial College London, London, UK; March of Dimes Prematurity Research Centre at Imperial College London, London, UK.
Gustavo StolovitzkyCenter for Computational Biology and Bioinformatics, Columbia University, New York, NY, USA; Thomas J. Watson Research Center, IBM, Yorktown Heights, NY, USA; Sema4, Stamford, CT, USA.
Susan V LynchBenioff Center for Microbiome Medicine, Department of Medicine, University of California, San Francisco, San Francisco, CA, USA; Division of Gastroenterology, Department of Medicine, University of California, San Francisco, San Francisco, CA, USA.
Jake AlbrechtSage Bionetworks, Seattle, WA, USA.
Nardhy Gomez-LopezDepartment of Biochemistry, Microbiology and Immunology, Wayne State University, Detroit, MI, USA; Perinatology Research Branch, Division of Obstetrics and Maternal-Fetal Medicine, Division of Intramural Research, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health, US Department of Health and Human Services, Detroit, MI, USA.
Roberto RomeroPerinatology Research Branch, Division of Obstetrics and Maternal-Fetal Medicine, Division of Intramural Research, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health, US Department of Health and Human Services, Detroit, MI, USA; Department of Obstetrics and Gynecology, University of Michigan, Ann Arbor, MI, USA; Department of Epidemiology and Biostatistics, Michigan State University, East Lansing, MI, USA; Center for Molecular Medicine and Genetics, Wayne State University, Detroit, MI, USA; Detroit Medical Center, Detroit, MI, USA; Department of Obstetrics and Gynecology, Florida International University, Miami, FL, USA.
David K StevensonDepartment of Pediatrics, Stanford University School of Medicine, Stanford, CA, USA; Center for Academic Medicine, Stanford University School of Medicine, Stanford, CA, USA.
Nima AghaeepourDepartment of Pediatrics, Stanford University School of Medicine, Stanford, CA, USA; Department of Anesthesiology, Perioperative, and Pain Medicine, Stanford University School of Medicine, Stanford, CA, USA; Department of Biomedical Data Sciences, Stanford University School of Medicine, Stanford, CA, USA.
Adi L TarcaPerinatology Research Branch, Division of Obstetrics and Maternal-Fetal Medicine, Division of Intramural Research, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health, US Department of Health and Human Services, Detroit, MI, USA; Center for Molecular Medicine and Genetics, Wayne State University, Detroit, MI, USA; Department of Obstetrics and Gynecology, Wayne State University School of Medicine, Detroit, MI, USA; Department of Computer Science, Wayne State University College of Engineering, Detroit, MI, USA.
James C CostelloDepartment of Pharmacology, University of Colorado Anschutz Medical Campus, Aurora, CO, USA.
Marina SirotaMarch of Dimes Prematurity Research Center at the University of California San Francisco, San Francisco, CA, USA; Bakar Computational Health Sciences Institute, University of California San Francisco, San Francisco, CA, USA; Department of Pediatrics, University of California San Francisco, San Francisco, CA, USA. Electronic address: marina.sirota@ucsf.edu.
Funding
The Role Of Subclinical Infection And Cytokines In Preterm ParturitionZIAHD002400 · NICHD · EUNICE KENNEDY SHRIVER NATIONAL INSTITUTE OF CHILD HEALTH & HUMAN DEVELOPMENT · PI ROMERO, ROBERTO · 2009 to 2025
$254.4MStanford Alzheimer's Disease Research CenterAdmin Supp: Developing iPSC models for AD and PDP30AG066515 · NIA · STANFORD UNIVERSITY · PI Jennifer Kaci Fairchild · 2020 to 2026
$29.0MPreeclampsia to cardiovascular disease: Life course analysis of biomarkers and riskR01HL139844 · NHLBI · STANFORD UNIVERSITY · PI HLATKY, MARK A., WINN, VIRGINIA D · 2018 to 2021
$9.0MUCSF Stanford Endometriosis Center for Discovery, Innovation, Training and Community EngagementP01HD106414 · NICHD · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI GIUDICE, LINDA C · 2021 to 2025
$7.1MTrio Analysis of Recurrent Pregnancy Loss Integrated Bioinformatics Genomics Study (TRIOS)R01HD105256 · NICHD · STANFORD UNIVERSITY · PI LATHI, RUTH B, RAJKOVIC, ALEKSANDAR · 2021 to 2025
$7.0MSPRINT: Signature for Pain Recovery IN TeensR61NS114926 · NINDS · STANFORD UNIVERSITY · PI SIMONS, LAURA E · 2019 to 2019
$5.4MDietary Modulation of Neuroinflammation in Age-Related Memory DisordersR01AG058417 · NIA · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI SLOAN, RICHARD P, SMALL, SCOTT A · 2018 to 2022
$4.2MMachine Learning for Integrative Modeling of the Immune System in Clinical SettingsR35GM138353 · NIGMS · STANFORD UNIVERSITY · PI AGHAEEPOUR, NIMA · 2020 to 2024
$2.2MAdvanced Statistical Methods for Microbiome Data AnalysisR01GM140464 · NIGMS · UNIVERSITY OF WISCONSIN-MADISON · PI TANG, ZHENGZHENG · 2020 to 2023
$1.1MLeveraging Clinical Data for Phenotyping and Predictive Modelling of Alzheimer’s DiseaseF30AG079504 · NIA · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI TANG, ALICE SUMMER · 2022 to 2025
$187kNHLBI NIH HHS R01 HL139844NIA NIH HHS P30 AG066515NIA NIH HHS R01 AG058417NICHD NIH HHS P01 HD106414NICHD NIH HHS R01 HD105256NIGMS NIH HHS R01 GM140464NIGMS NIH HHS R35 GM138353NINDS NIH HHS R61 NS114926
Abstract
Every year, 11% of infants are born preterm with significant health consequences, with the vaginal microbiome a risk factor for preterm birth. We crowdsource models to predict (1) preterm birth (PTB; <37 weeks) or (2) early preterm birth (ePTB; <32 weeks) from 9 vaginal microbiome studies representing 3,578 samples from 1,268 pregnant individuals, aggregated from public raw data via phylogenetic harmonization. The predictive models are validated on two independent unpublished datasets representing 331 samples from 148 pregnant individuals. The top-performing models (among 148 and 121 submissions from 318 teams) achieve area under the receiver operator characteristic (AUROC) curve scores of 0.69 and 0.87 predicting PTB and ePTB, respectively. Alpha diversity, VALENCIA community state types, and composition are important features in the top-performing models, most of which are tree-based methods. This work is a model for translation of microbiome data into clinically relevant predictive models and to better understand preterm birth.
Indexed as
CrowdsourcingMicrobiotaPremature BirthFemaleHumansInfant, NewbornPhylogenyPregnancyVagina16S harmonizationcrowdsourcedDREAM challengemachine learningmicrobiomepredictive modelingpreterm birthvaginal microbiome
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