CoChat
Sign Up
PreprintCited by 1,960Gut microbiota and healthOral microbiology and periodontitis researchGenetic factors in colorectal cancer

The DOI matches its Crossref record; 2 of the 2 references it cites were found in a registry or an index.

Genomic analysis identifies association of Fusobacterium with colorectal carcinoma

Open access
Kostic, Aleksandar D., Gevers, Dirk, Pedamallu, Chandra Sekhar, Michaud, Monia, Duke, Fujiko, Earl, Ashlee M., Ojesina, Akinyemi I., Jung, Joonil, Bass, Adam J., Tabernero, Josep, Baselga, José, Liu, Chen, Shivdasani, Ramesh A., Ogino, Shuji, Birren, Bruce W., Huttenhower, Curtis, Garrett, Wendy S., Meyerson, Matthew·2012·Genome Research
DOI 10.1101/gr.126573.111PMC PMC3266036
Open this paper in CoChat — free accountOpen PDF

Abstract

The tumor microenvironment of colorectal carcinoma is a complex community of genomically altered cancer cells, nonneoplastic cells, and a diverse collection of microorganisms. Each of these components may contribute to carcinogenesis; however, the role of the microbiota is the least well understood. We have characterized the composition of the microbiota in colorectal carcinoma using whole genome sequences from nine tumor/normal pairs. Fusobacterium sequences were enriched in carcinomas, confirmed by quantitative PCR and 16S rDNA sequence analysis of 95 carcinoma/normal DNA pairs, while the Bacteroidetes and Firmicutes phyla were depleted in tumors. Fusobacteria were also visualized within colorectal tumors using FISH. These findings reveal alterations in the colorectal cancer microbiota; however, the precise role of Fusobacteria in colorectal carcinoma pathogenesis requires further investigation.

Overview

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Integrity signals

Registry

Crossref · 10.1101/gr.126573.111

Cites

2 of 2 references verified0 citation errors · 0 not checkable

Statistics

Verification

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

Citations

Cites

Research works printed but not linked: 26

  1. 10.1016/j.femsle.2005.05.055 · DOI
  2. Bass AJ , Lawrence MS , Brace LE , Ramos AH , Drier Y , Cibulskis K , Sougnez C , Voet D , Saksena G , Sivachenko A , . 2011. Genomic sequencing of colorectal adenocarcinomas identifies a recurrent VTI1A-TCF7L2 fusion. Nat Genet. doi: 10.1038/ng.936. · DOI
  3. 10.1016/j.femsim.2005.03.011 · DOI
  4. 10.1126/science.7997879 · DOI
  5. 10.1093/nar/gkn879 · DOI
  6. 10.1053/j.gastro.2009.01.073 · DOI
  7. Garrity GM , Lilburn TG , Cole JR , Harrison SH , Tindall BJ . 2007. Taxonomic outline of the Bacteria and Archaea , Release 7.7. http://www.taxonomicoutline.org/ · DOI
  8. 10.1016/j.cmet.2010.07.001 · DOI
  9. 10.1101/gr.112730.110 · DOI
  10. 10.1016/j.femsle.2005.01.029 · DOI
  11. 10.1038/nbt0111-4 · DOI
  12. 10.1111/j.1462-2920.2008.01706.x · DOI
  13. 10.1111/j.1600-0757.1994.tb00019.x · DOI
  14. 10.1111/j.1572-0241.2002.05613.x · DOI
  15. 10.1046/j.1440-1746.2002.02834.x · DOI
  16. 10.1038/nrc2857 · DOI · Paper page
  17. 10.1093/nar/gkm864 · DOI
  18. 10.2174/138161209788168191 · DOI
  19. 10.1128/AEM.01541-09 · DOI
  20. 10.1186/gb-2011-12-6-r60 · DOI · Paper page
  21. 10.1002/ibd.21606 · DOI
  22. 10.1136/gut.2009.191320 · DOI
  23. 10.1128/IAI.73.2.1171-1179.2005 · DOI
  24. 2006, Bacteria, inflammation, and colon cancer, World J Gastroenterol, 12, 6741, 10.3748/wjg.v12.i42.6741 · DOI
  25. Ye Y . 2010. Fast and accurate identification and quantification of abundant species from pyrosequences of 16S rRNA by consensus alignment. In The Proceedings of BIBM, 153–157. Institute of Electrical and Electronics Engineers (IEEE), New York. · DOI
  26. 2009, Human papillomavirus and cervical cancer, Indian J Med Res, 130, 209

Cited by

Sorted by citations

See all 1,960

Metadata

Authors
Kostic, A. D., Gevers, D., Pedamallu, C. S., Michaud, M., Duke, F., Earl, A. M., Ojesina, A. I., Jung, J., Bass, A. J., Tabernero, J., Baselga, J., Liu, C., Shivdasani, R. A., Ogino, S., Birren, B. W., Huttenhower, C., Garrett, W. S., & Meyerson, M.
Affiliations
  • Broad Institute (US)
  • Harvard University (US)
  • Universitat Autònoma de Barcelona (ES)
  • University of Florida Health (US)
  • Dana-Farber Cancer Institute (US)
  • Brigham and Women's Hospital (US)
ORCID
Venue
Genome Research
Publisher
Cold Spring Harbor Laboratory
Published
2011-10-18
Volume
22
Issue
2
Pages
292-298
ISSN
1088-9051 (ISSN-L)
DOI
10.1101/gr.126573.111
PMC
PMC3266036
OpenAlex
W2107097628
Cited by
1,960
References
2
Citations by year
2026: 101 · 2025: 146 · 2024: 163 · 2023: 162 · 2022: 172 · 2021: 194 · 2020: 175 · 2019: 164 · 2018: 143 · 2017: 122 · 2016: 108 · 2015: 88 · 2014: 92 · 2013: 84 · 2012: 37
Type
posted content
Language
en
Open access
Locations
  • Genome Research (publishedVersion)
  • PubMed Central (publishedVersion)
  • PubMed (publishedVersion)
  • Digital Access to Scholarship at Harvard (DASH) (Harvard University) (submittedVersion, cc-by)
  • HighWire Press Open Archive (submittedVersion)
Funders
  • Damon Runyon Cancer Research Foundation
  • Albert J. Ryan Foundation
  • University of Guelph
  • Broad Institute (U54HG003067)
  • National Institutes of Health (UL1TR000064)
  • Natural Sciences and Engineering Research Council of Canada
  • National Human Genome Research Institute (U54HG003067)
  • National Cancer Institute (P50CA127003, K08CA134931, RC2CA148317, R01CA154426)
  • National Institute of Diabetes and Digestive and Kidney Diseases (P30DK043351)
  • National Center for Advancing Translational Sciences
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
  • Health Sciences › Dentistry › Periodontics › Oral microbiology and periodontitis research
  • Health Sciences › Medicine › Pathology and Forensic Medicine › Genetic factors in colorectal cancer
Keywords
Fusobacterium, colorectal cancer, tumor microbiome, gut microbiota, tumor microenvironment, carcinogenesis, colorectal cancer pathogenesis
MeSH terms
Fusobacterium, Humans, Intestine, Large, Phylogeny, RNA, Ribosomal, 16S, Colorectal Neoplasms, Genome, Bacterial, Sequence Analysis, DNA, Metagenome

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review