Evidence map›Paper›PMID 41279524›Full record

ArticlebioRxiv : the preprint server for biology2025

Transcript-Capture sequencing enriches mRNA of

Eleanor I Lamont, Richard M Jones, Jessica Assadi, Robert Morrison, Taeksun Song, Xiang Yu, Danielle M Weiner, Laura E Via, Jill Winter, Shuyi Ma and 3 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing 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

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

13 authors.

Eleanor I LamontDepartment of Microbiology, University of Washington, Seattle, WA, 98195, USA.ORCID 0000-0001-6537-7755
Richard M JonesDepartment of Microbiology, University of Washington, Seattle, WA, 98195, USA.
Jessica AssadiDepartment of Microbiology, University of Washington, Seattle, WA, 98195, USA.
Robert MorrisonLaboratory of Malaria Immunology and Vaccinology, National Institute of Allergy and Infectious Diseases, NIH, Bethesda, MD, 20892, USA.
Taeksun SongInstitute of Infectious Disease and Molecular Medicine, University of Cape Town, Observatory 7925, Republic of South Africa.
Xiang YuTuberculosis Research Section, Laboratory of Clinical Immunology and Microbiology, Division of Intramural Research, National Institute of Allergy and Infectious Disease, National Institutes of Health, Bethesda, MD, 20892, USA.
Danielle M WeinerTuberculosis Research Section, Laboratory of Clinical Immunology and Microbiology, Division of Intramural Research, National Institute of Allergy and Infectious Disease, National Institutes of Health, Bethesda, MD, 20892, USA.
Laura E ViaTuberculosis Research Section, Laboratory of Clinical Immunology and Microbiology, Division of Intramural Research, National Institute of Allergy and Infectious Disease, National Institutes of Health, Bethesda, MD, 20892, USA.
Jill WinterCatalysis Foundation for Health, San Ramon, CA, 94608, USA.
Shuyi MaCenter for Global Infectious Disease Research, Seattle Children's Research Institute, Seattle, WA, 98101, USA.ORCID 0000-0002-3347-3491
Robert J WilkinsonInstitute of Infectious Disease and Molecular Medicine, University of Cape Town, Observatory 7925, Republic of South Africa.
Clifton E BarryInstitute of Infectious Disease and Molecular Medicine, University of Cape Town, Observatory 7925, Republic of South Africa.
David R ShermanDepartment of Microbiology, University of Washington, Seattle, WA, 98195, USA.

Funding

Systems Biology CoreU19AI162598 · NIAID · RUTGERS BIOMEDICAL AND HEALTH SCIENCES · PI ALLAND, DAVID, ELLNER, JERROLD J. · 2021 to 2025
$13.9M
NRSA Training CoreTL1TR002318 · NCATS · UNIVERSITY OF WASHINGTON · PI Megan Moore · 2017 to 2026
$8.4M
Seattle Tuberculosis Research Advancement CenterP30AI168034 · NIAID · UNIVERSITY OF WASHINGTON · PI Rhea N Coler, CHETAN SESHADRI · 2022 to 2026
$6.3M
Gates Foundation INV-010245NCATS NIH HHS TL1 TR002318NIAID NIH HHS P30 AI168034NIAID NIH HHS U19 AI162598Wellcome Trust CC2112
6 · The paper itself

Abstract

Bacterial gene expression from sites of infection are poorly studied due to low levels of bacterial mRNA present in clinical samples. Here, we develop Transcript-Capture Seq, which uses customizable biotinylated probes generated in-house to enrich bacteria-specific RNA from host samples before Next Generation Sequencing (NGS). This method results in a >200-fold increase in bacterial mRNA reads from mixed samples and allows analysis of the complete bacterial transcriptome from clinical samples. We apply Transcript-Capture to models of tuberculosis (TB) infection as well as sputum samples from TB patients. TB patients exhibit unexplained heterogeneity in disease progression, and the activity of

Identifiers

PMID41279524
PMCPMC12636508

What OpenQuestion holds

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Registered trials

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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.