A nomenclature for intestinal in vitro cultures
Open accessAbstract
Many advances have been reported in the long-term culture of intestinal mucosal cells in recent years. A significant number of publications have described new culture media, cell formations, and growth patterns. Furthermore, it is now possible to study, e.g., the capabilities of isolated stem cells or the interactions between stem cells and mesenchyme. However, at the moment there is significant variation in the way these structures are described and named. A standardized nomenclature would benefit the ability to communicate and compare findings from different laboratories using the different culture systems. To address this issue, members of the NIH Intestinal Stem Cell Consortium herein propose a systematic nomenclature for in vitro cultures of the small and large intestine. We begin by describing the structures that are generated by preparative steps. We then define and describe structures produced in vitro, specifically: enterosphere, enteroid, reconstituted intestinal organoid, induced intestinal organoid, colonosphere, colonoid, and colonic organoid.
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.
Integrity signals
Registry
Cites
Statistics
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.
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?
Gene Expression Omnibus is generally recommended for transcriptomics-related organoid data.
“For transcriptomics-related data, such as gene expression, non-coding RNA, ChIP, genome methylation, high-throughput RT-PCR, SNP arrays, SAGE, protein arrays, Gene Expression Omnibus (GEO) is generally recommended231,232.”
From Organoids (2022) · cites this paper as [232]
The Abstract proposes terminology for intestinal in vitro cultures, not recommendations for storing research data. Searches of our copy for Gene Expression Omnibus (GEO), transcriptomics, and data repositories found no passage addressing the claimed recommendation. (LLM, conf=0.75)
Experimental — accuracy not yet measured
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
The citation lists haven’t been fetched yet
References 25 · Cited by 195
- Authors
- Stelzner, M., Helmrath, M., Dunn, J. C. Y., Henning, S. J., Houchen, C. W., Kuo, C., Lynch, J., Li, L., Magness, S. T., Martin, M. G., Wong, M. H., & Yu, J.
- Affiliations
- University of California, Los Angeles (US)
- University of Cincinnati (US)
- University of North Carolina at Chapel Hill (US)
- University of Oklahoma, Oklahoma City, Oklahoma;
- Stanford University (US)
- University of Pennsylvania (US)
- Stowers Institute for Medical Research (US)
- University of California, Los Angeles, Los Angeles, California;
- Oregon Health & Science University (US)
- University of Pittsburgh (US)
- Corresponding author
- Stelzner, Matthias
- ORCID
- Venue
- American Journal of Physiology-Gastrointestinal and Liver Physiology
- Publisher
- American Physiological Society
- Published
- 2012-06-15
- Volume
- 302
- Issue
- 12
- Pages
- G1359-G1363
- ISSN
- 0193-1857 (ISSN-L)
- 1522-1547
- PMC
- PMC3378093
- OpenAlex
- W2162101019
- Cited by
- 195
- References
- 25
- Citations by year
- 2026: 4 · 2025: 5 · 2024: 6 · 2023: 6 · 2022: 11 · 2021: 17 · 2020: 25 · 2019: 14 · 2018: 30 · 2017: 19 · 2016: 12 · 2015: 15 · 2014: 13 · 2013: 15 · 2012: 3
- FWCI
- 8.72
- Type
- journal article
- Language
- en
- Open access
- green
- europepmc.org
- Locations
- American Journal of Physiology-Gastrointestinal and Liver Physiology (publishedVersion)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Funders
- University of Toronto
- National Institutes of Health (K26OD012097, 5u01dk085508-05)
- National Institute of Diabetes and Digestive and Kidney Diseases (U24DK085532, U01DK085527, U01DK085535, U01DK85508, U01DK085551, U01DK085547, U01DK085570, U01DK085507, U01DK085525, U01DK085532)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Digestive system and related health
- Health Sciences › Medicine › Oncology › Cancer Cells and Metastasis
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Pluripotent Stem Cells Research
- Keywords
- intestinal organoids, nomenclature, enteroids, colonoids, colonospheres, colonic organoids, intestinal stem cells, culture media, small intestine, large intestine, standardized terminology
- MeSH terms
- Colon, Humans, Intestinal Mucosa, Intestine, Small, Terminology as Topic, Stem Cells, Cell Culture Techniques
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
