Evidence map›Paper›PMID 40629040›Full record

ArticleNature biotechnology2026

Modifications of microbiome-derived cell-free RNA in plasma discriminates colorectal cancer samples.

Cheng-Wei Ju, Ruitu Lyu, Han Li, Jiangbo Wei, Alberto J Parra Vitela, Urszula Dougherty, Akushika Kwesi, Alexander Luna, Xuanhao Zhu, Shenghai Shen and 18 more

Abstract read
In one paragraph

Article in Nature biotechnology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing 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

14 citing papers in PubMed.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

28 authors.

Cheng-Wei JuDepartment of Chemistry, The University of Chicago, Chicago, IL, USA.ORCID http://orcid.org/0000-0002-2250-8548
Ruitu LyuDepartment of Chemistry, The University of Chicago, Chicago, IL, USA.ORCID http://orcid.org/0000-0003-4597-1604
Han LiDepartment of Chemistry, The University of Chicago, Chicago, IL, USA.
Jiangbo WeiDepartment of Chemistry, The University of Chicago, Chicago, IL, USA.ORCID http://orcid.org/0000-0003-2691-6490
Alberto J Parra VitelaColon and Rectal Surgery, Advocate Lutheran General Hospital, Park Ridge, IL, USA.ORCID http://orcid.org/0000-0001-6204-7443
Urszula DoughertyDepartment of Medicine, The University of Chicago, Chicago, IL, USA.
Akushika KwesiDepartment of Medicine, The University of Chicago, Chicago, IL, USA.
Alexander LunaDepartment of Medicine, The University of Chicago, Chicago, IL, USA.
Xuanhao ZhuDepartment of Chemistry, The University of Chicago, Chicago, IL, USA.
Shenghai ShenDivision of Life Science, The Hong Kong University of Science and Technology, Hong Kong, China.
Yunzheng LiuDivision of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA.
Liangliang WangThe Laboratory of Microbiome and Microecological Technology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China.
Xiaolong CuiDepartment of Chemistry, The University of Chicago, Chicago, IL, USA.
Yuzhi XuDepartment of Chemistry, New York University, New York, NY, USA.
Bochen JiangDepartment of Chemistry, The University of Chicago, Chicago, IL, USA.ORCID http://orcid.org/0000-0001-6686-8847
Yiyi JiDepartment of Chemistry, The University of Chicago, Chicago, IL, USA.ORCID http://orcid.org/0000-0001-5598-0059
Peng XiaDepartment of Chemistry, The University of Chicago, Chicago, IL, USA.
Diana C West-SzymanskiDepartment of Chemistry, The University of Chicago, Chicago, IL, USA.
Chenxi SunDepartment of Chemistry, The University of Chicago, Chicago, IL, USA.ORCID http://orcid.org/0009-0000-7849-976X
Yuhao ZhongDepartment of Chemistry, The University of Chicago, Chicago, IL, USA.
Chang YeDepartment of Chemistry, The University of Chicago, Chicago, IL, USA.ORCID http://orcid.org/0000-0003-0236-5671
Angelica MoranDepartment of Pathology, The University of Chicago, Chicago, IL, USA.ORCID http://orcid.org/0000-0003-4013-2182
Christopher LehmannDepartment of Medicine, The University of Chicago, Chicago, IL, USA.
Eric PamerDepartment of Medicine, The University of Chicago, Chicago, IL, USA.ORCID http://orcid.org/0000-0002-6755-9904
Wei ZhangDepartment of Preventive Medicine and The Robert H. Lurie Comprehensive Cancer Center, Northwestern University Feinberg School of Medicine, Chicago, IL, USA.ORCID http://orcid.org/0000-0003-0875-263X
Marc BissonnetteDepartment of Medicine, The University of Chicago, Chicago, IL, USA. mbissonn@bsd.uchicago.edu.ORCID http://orcid.org/0000-0001-8420-4294
Li-Sheng ZhangDivision of Life Science, The Hong Kong University of Science and Technology, Hong Kong, China. zhangls@ust.hk.ORCID http://orcid.org/0000-0003-1872-9978
Chuan HeDepartment of Chemistry, The University of Chicago, Chicago, IL, USA. chuanhe@uchicago.edu.ORCID http://orcid.org/0000-0003-4319-7424

Funding

Transcriptome-wide base-resolution sequencing of pseudouridine in human normal and AD brain tissues-CEGS Admin supplement 2020-2021RM1HG008935 · NHGRI · UNIVERSITY OF CHICAGO · PI HE, CHUAN · 2016 to 2025
$24.4M
Development of 5hmC and 5mC biomarkers in cell-free circulating DNA for sensitive colon cancer detection and prognosisU01CA217078 · NCI · UNIVERSITY OF CHICAGO · PI BISSONNETTE, BRUCE MARC, ZHANG, WEI · 2017 to 2021
$3.2M
A highly sensitive linear amplification based DNA methylation profiling technique for clinical cancer researchR33CA269100 · NCI · UNIVERSITY OF CHICAGO · PI CHIU, BRIAN C-H, ZHANG, WEI · 2022 to 2024
$1.2M
Howard Hughes Medical InstituteNCI NIH HHS R33 CA269100NCI NIH HHS U01 CA217078NHGRI NIH HHS RM1 HG008935
6 · The paper itself

Abstract

Circulating cell-free RNA (cfRNA) in plasma represents a promising avenue for cancer detection. We report low-input multiple methylation sequencing, a method for profiling modification patterns in cfRNA, enabling the detection of diverse transfer RNAs and small noncoding RNAs derived from both the human genome and the microbiome. RNA modification patterns in microbiome-derived cfRNA accurately reflect host microbiota activity and hold potential for the early detection of colorectal cancer.

Indexed as

Cell-Free Nucleic AcidsColorectal NeoplasmsMicrobiotaBiomarkers, TumorHumansRNA, Small UntranslatedRNA, TransferSequence Analysis, RNABiomarkers, TumorCell-Free Nucleic AcidsRNA, Small UntranslatedRNA, Transfer

Identifiers

PMID40629040
PMCPMC13621429

What OpenQuestion holds

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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.