The DOI matches its Crossref record; 47 of the 48 references it cites were found in a registry or an index.
The site of HIV-1 integration in the human genome determines basal transcriptional activity and response to Tat transactivation
Open accessAbstract
Because of the heterogeneity of chromatin, the site of integration of human immunodeficiency virus (HIV) in the genome could have dramatic effects on its transcriptional activity. We have used an HIV-1-derived retroviral vector, in which the green fluorescent protein is under the control of the HIV promoter, to generate by infection 34 Jurkat clonal cell lines each containing a single integration of the HIV-1 vector. In the absence of Tat, a 75-fold difference in expression level between the highest and lowest expressing clones was observed. Basal promoter activity was low in 80% of the clones and moderate to high in the remaining 20% of clones. We found that differences in expression levels are due to the integration site and are not controlled by DNA methylation or histone acetylation. Tat activated transcription in each clone, and an inverse correlation was observed between basal transcriptional activity and inducibility by Tat. These observations demonstrate that the chromatin environment influences basal HIV gene expression and that the HIV Tat protein activates transcription independently of the chromatin environment.
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.
Integrity signals
Registry
Cites
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.
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?
The cited source doesn’t support the claim as written.
In the citing paper
“However, it is now becoming clearer that certain retroviruses like HIV tend to target gene-rich, transcriptionally active, euchromatic regions within the host’s chromosome to integrate.”
From Beyond reverse transcription: molecular mechanisms and emerging paradigms in retroviral replication (2026) · cites this paper as Jordan et al. 2001
Checked by a reasoning model — may be wrong.
Experimental — accuracy not yet measuredThe source backs part of the claim, not all of it — or backs it for a different population, condition or comparison.
In the citing paper
“For example, proviral integration in the transcriptionally active regions could potentially favor expression of the viral genes, whereas integration in the transcriptionally silent regions (heterochromatin) may not be in favor of viral expression and may even force the virus to stay transcriptionally silent (Jordan et al. 2001, Lewinski et al. 2006, Einkauf et al. 2022, Teixeira et al. 2024).”
From Beyond reverse transcription: molecular mechanisms and emerging paradigms in retroviral replication (2026) · cites this paper as Jordan et al. 2001
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.
Citations
Cites
A Third-Generation Lentivirus Vector with a Conditional Packaging System
Dull, T., Zufferey, R., Kelly, M., Mandel, R. J., Nguyen, M., Trono, D., & Naldini, L. (1998) · Journal of Virology · doi:10.1128/jvi.72.11.8463-8471.1998 · Cited by 3,341
Dissecting the regulatory circuitry of a eukaryotic genome
Holstege, F. C. P., Jennings, E. G., Wyrick, J. J., Lee, T. I., Hengartner, C. J., Green, M. R., Golub, T. R., Lander, E. S., & Young, R. A. (1998) · Cell · doi:10.1016/s0092-8674(00)81641-4 · Cited by 1,670
Ory, D., Neugeboren, B. I., & Mulligan, R. C. (1996) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.93.21.11400 · Cited by 926
Anti-termination of transcription within the long terminal repeat of HIV-1 by tat gene product
Kao, S.-Y., Calman, A. F., Luciw, P. A., & Peterlin, B. M. (1987) · Nature · doi:10.1038/330489a0 · Cited by 908
HIV-1 Genome Nuclear Import Is Mediated by a Central DNA Flap
Zennou, V., Petit, C., Guétard, D., Nerhbass, U., Montagnier, L., & Charneau, P. (2000) · Cell · doi:10.1016/s0092-8674(00)80828-4 · Cited by 864
Miller, M. D., Farnet, C. M., & Bushman, F. D. (1997) · Journal of Virology · doi:10.1128/jvi.71.7.5382-5390.1997 · Cited by 620
Lint, C. M. V., Emiliani, S., Ott, M., & Verdin, E. M. (1996) · The EMBO Journal · doi:10.1002/j.1460-2075.1996.tb00449.x · Cited by 579
Self-citationP-TEFb kinase is required for HIV Tat transcriptional activation in vivo and in vitroPreprint
Mancebo, H. S. Y., Lee, G., Flygare, J. A., Tomassini, J. E., Luu, P., Zhu, Y., Peng, J., Blau, C., Hazuda, D. J., Price, D. H., et al. (1997) · Genes & Development · doi:10.1101/gad.11.20.2633 · Cited by 546
Binding and Stimulation of HIV-1 Integrase by a Human Homolog of Yeast Transcription Factor SNF5
Kalpana, G. V., Marmon, S., Wang, W., Crabtree, G. R., & Goff, S. P. (1994) · Science · doi:10.1126/science.7801128 · Cited by 530
Verdin, E. M., Paras, P., & Lint, C. M. V. (1993) · The EMBO Journal · doi:10.1002/j.1460-2075.1993.tb05994.x · Cited by 520
Self-citation
Cited by
Sorted by citations
HIV-1 Integration in the Human Genome Favors Active Genes and Local Hotspots
Schröder, A. R. W., Shinn, P., Chen, H., Berry, C., Ecker, J. R., & Bushman, F. (2002) · Cell · doi:10.1016/s0092-8674(02)00864-4 · Cited by 1,832
HIV reproducibly establishes a latent infection after acute infection of T cells in vitro
Jordan, A., Bisgrove, D., & Verdin, E. (2003) · The EMBO Journal · doi:10.1093/emboj/cdg188 · Cited by 914
Self-citationWeinberger, L. S., Burnett, J., Toettcher, J. E., Arkin, A. P., & Schaffer, D. V. (2005) · Cell · doi:10.1016/j.cell.2005.06.006 · Cited by 633
Harnessing the CRISPR/Cas9 system to disrupt latent HIV-1 provirus
Ebina, H., Misawa, N., Kanemura, Y., & Koyanagi, Y. (2013) · Scientific Reports · doi:10.1038/srep02510 · Cited by 565
HIV LatencyPreprint
Siliciano, R. F., & Greene, W. C. (2011) · Cold Spring Harbor Perspectives in Medicine · doi:10.1101/cshperspect.a007096 · Cited by 552
Metadata
- Authors
- Jordan, A., Defechereux, P., & Verdin, E.
- Affiliations
- University of California, San Francisco (US)
- Corresponding author
- Verdin, Eric
- Venue
- The EMBO Journal
- Published
- 2001-04-02
- Volume
- 20
- Issue
- 7
- Pages
- 1726-1738
- ISSN
- 0261-4189 (ISSN-L)
- 1460-2075
- PMC
- PMC145503
- OpenAlex
- W1964660012
- Cited by
- 467
- References
- 48
- Citations by year
- 2026: 13 · 2025: 21 · 2024: 19 · 2023: 18 · 2022: 15 · 2021: 15 · 2020: 21 · 2019: 21 · 2018: 20 · 2017: 26 · 2016: 25 · 2015: 27 · 2014: 14 · 2013: 15 · 2012: 14
- FWCI
- 6.25
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- The EMBO Journal (publishedVersion)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Funders
- Belgian American Educational Foundation
- National Institutes of Health
- National Institute of General Medical Sciences (GM51671-05A2, R01GM051671)
- Topics
- Life Sciences › Immunology and Microbiology › Virology › HIV Research and Treatment
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Virus-based gene therapy research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Keywords
- Tat transactivation, basal transcription, chromatin environment, HIV-1 promoter, retroviral vectors, Jurkat cells, DNA methylation, histone acetylation, HIV gene expression
- MeSH terms
- Binding Sites, Cell Line, Transformed, Genetic Vectors, HeLa Cells, Humans, Hydroxamic Acids, Promoter Regions, Genetic, Tetradecanoylphorbol Acetate, Transcription, Genetic, HIV-1, Transcriptional Activation, Gene Products, tat, Genome, Human, Gene Expression Regulation, Viral, HIV Long Terminal Repeat, Virus Integration, Cyclin-Dependent Kinases, Jurkat Cells, DNA Methylation, Cyclin-Dependent Kinase 9, tat Gene Products, Human Immunodeficiency Virus, Histone Deacetylase Inhibitors
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
