Evidence map›Paper›PMID 40894860›Full record

ArticleiScience2025

Integrated 'omics analysis reveals human milk oligosaccharide biosynthesis programs in human lactocytes.

Sarah Kate Nyquist, Laasya Devi Annepureddy, Kristija Sejane, Annalee Furst, G Devon Trahan, Michael C Rudolph, Alecia-Jane Twigger, Lars Bode, Barbara E Engelhardt, Jayne F Martin Carli and 1 more

Abstract read
In one paragraph

Article in iScience, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

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.

2 · The registry

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.

3 · Its place in the literature

Who cites it

2 citing papers in PubMed.

  1. Article
  2. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

11 authors.

Sarah Kate NyquistGladstone Institute of Data Science & Biotechnology, San Francisco, CA 94158, USA.
Laasya Devi AnnepureddyThayer School of Engineering, Dartmouth College, Hanover, NH 03755, USA.
Kristija SejaneDepartment of Pediatrics, Larsson-Rosenquist Foundation Mother-Milk-Infant Center of Research Excellence (MOMI CORE), and the Human Milk Institute (HMI), University of California, San Diego, La Jolla, CA 92093, USA.
Annalee FurstDepartment of Pediatrics, Larsson-Rosenquist Foundation Mother-Milk-Infant Center of Research Excellence (MOMI CORE), and the Human Milk Institute (HMI), University of California, San Diego, La Jolla, CA 92093, USA.
G Devon TrahanDepartment of Pediatrics, Section of Hematology, Oncology, and Bone Marrow Transplant, University of Colorado Anschutz Medical Campus, Aurora, CO 80045, USA.
Michael C RudolphHarold Hamm Diabetes Center, Department of Biochemistry and Physiology, University of Oklahoma Health Sciences Center, Oklahoma City, OK 73104, USA.
Alecia-Jane TwiggerDepartment of Pharmacology, University of Cambridge, Cambridge, England.
Lars BodeDepartment of Pediatrics, Larsson-Rosenquist Foundation Mother-Milk-Infant Center of Research Excellence (MOMI CORE), and the Human Milk Institute (HMI), University of California, San Diego, La Jolla, CA 92093, USA.
Barbara E EngelhardtGladstone Institute of Data Science & Biotechnology, San Francisco, CA 94158, USA.
Jayne F Martin CarliDepartment of Obstetrics and Gynecology, Division of Reproductive Sciences, University of Colorado Anschutz Medical Campus, Aurora, CO 80045, USA.
Britt Anne GoodsThayer School of Engineering, Dartmouth College, Hanover, NH 03755, USA.

Funding

PILOT STUDY--SUBSTRATE METABOLISM IN EXTREMELY LOW BIRTH WEIGHT INFANTSP30DK048520 · NIDDK · UNIVERSITY OF COLORADO DENVER · PI JANINE A HIGGINS · 1995 to 2026
$32.6M
Zhao - Proj 2P20GM130454 · NIGMS · DARTMOUTH COLLEGE · PI Shannon Soucy · 2019 to 2026
$27.2M
The Cellular Geography of Therapeutic Resistance in CancerU2CCA233195 · NCI · DANA-FARBER CANCER INST · PI JOHNSON, BRUCE E. · 2018 to 2023
$13.7M
A kinetic framework to map the genetic determinants of alternative RNA isoform expressionR01HG012967 · NHGRI · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI Barbara Engelhardt, Athma A Pai · 2023 to 2026
$3.0M
Harnessing Cells from Human Milk; Linking Lactation to MetabolismR00HD107496 · NICHD · UNIVERSITY OF COLORADO DENVER · PI Jayne Frances Martin Carli · 2024 to 2026
$742k
Transcriptional variation in human milkF32HD114427 · NICHD · J. DAVID GLADSTONE INSTITUTES · PI Sarah Kate Nyquist · 2024 to 2026
$230k
Harnessing Cells from Human Milk; Linking Lactation to MetabolismK99HD107496 · NICHD · UNIVERSITY OF COLORADO DENVER · PI MARTIN CARLI, JAYNE FRANCES · 2022 to 2023
$211k
NCI NIH HHS U2C CA233195NHGRI NIH HHS R01 HG012967NICHD NIH HHS F32 HD114427NICHD NIH HHS K99 HD107496NICHD NIH HHS R00 HD107496NIDDK NIH HHS P30 DK048520NIGMS NIH HHS P20 GM130454
6 · The paper itself

Abstract

Human milk oligosaccharides (HMOs) are integral to infant health. Yet, their complex biosynthesis pathways in the mammary gland during lactation remain under-characterized. To address this knowledge gap, we performed integrated analyses of single-cell RNA-sequencing (scRNA-seq) datasets combined with select HMO concentration measures. We identify differential expression patterns of known HMO synthesis genes in epithelial subsets and nominate several candidate genes that vary with HMO concentration. Additionally, we identify novel gene patterns and transcription factors that may regulate the expression of HMO biosynthesis genes and the cellular pathways supporting HMO production. Finally, we demonstrate that co-expression of HMO synthesis genes and milk fat synthesis genes is limited, suggesting that distinct epithelial cell subtypes may be responsible for the production of different milk components. Our study suggests that HMO synthesis may be achieved through cell-type specialization within the lactocyte compartment.

Indexed as

GlycobiologyIntegrative aspects of cell biologyMolecular networkOmics

Identifiers

PMID40894860
PMCPMC12396498

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.