The DOI matches its Crossref record; 57 of the 57 references it cites were found in a registry or an index.
A Comprehensive Genomic Binding Map of Gene and Chromatin Regulatory Proteins in Saccharomyces
Open accessAbstract
SUMMARY Hundreds of different proteins regulate and implement transcription in Saccharomyces. Yet their inter-relationships have not been investigated on a comprehensive scale. Here we determined the genome-wide binding locations of 200 transcription-related proteins, under normal and acute heat shock conditions. This study distinguishes binding between distal versus proximal promoter regions as well as the 3' ends of genes for nearly all mRNA and tRNA genes. This study reveals 1) a greater diversity and specialization of regulation associated with the SAGA transcription pathway compared to the TFIID pathway, 2) new regulators enriched at tRNA genes, 3) a global co-occupancy network of >20,000 unique regulator combinations that show a high degree of regulatory interconnections among lowly-expressed genes, 4) regulators of the SAGA pathway located largely distal to the core promoter and regulators of the TFIID pathway located proximally, and 5) distinct mobilization of SAGA- versus TFIID-linked regulators during acute heat shock.
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.
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
Cytoscape: A software Environment for integrated models of biomolecular interaction networks
Shannon, P., Markiel, A., Ozier, O., Baliga, N. S., Wang, J. T., Ramage, D., Amin, N., Schwikowski, B., & Ideker, T. (2003) · Genome Research · doi:10.1101/gr.1239303 · Cited by 51,888
Cluster analysis and display of genome-wide expression patterns
Eisen, M. B., Spellman, P. T., Brown, P. O., & Botstein, D. (1998) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.95.25.14863 · Cited by 16,184
The Role of Chromatin during Transcription
Li, B., Carey, M., & Workman, J. L. (2007) · Cell · doi:10.1016/j.cell.2007.01.015 · Cited by 3,533
Transcriptional Regulatory Networks in Saccharomyces cerevisiae
Lee, T. I., Rinaldi, N. J., Robert, F., Odom, D. T., Bar-Joseph, Z., Gerber, G. K., Hannett, N. M., Harbison, C. T., Thompson, C. M., Simon, I., et al. (2002) · Science · doi:10.1126/science.1075090 · Cited by 2,956
Transcriptional regulatory code of a eukaryotic genome
Harbison, C. T., Gordon, D. B., Lee, T. I., Rinaldi, N. J., Macisaac, K. D., Danford, T. W., Hannett, N. M., Tagne, J.-B., Reynolds, D. B., Yoo, J., et al. (2004) · Nature · doi:10.1038/nature02800 · Cited by 2,143
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
Remodeling of Yeast Genome Expression in Response to Environmental Changes
Causton, H. C., Ren, B., Koh, S. S., Harbison, C. T., Kanin, E., Jennings, E. G., Lee, T. I., True, H. L., Lander, E. S., & Young, R. A. (2001) · Molecular Biology of the Cell · doi:10.1091/mbc.12.2.323 · Cited by 1,370
c-Myc Regulates Transcriptional Pause Release
Rahl, P. B., Lin, C. Y., Seila, A. C., Flynn, R. A., McCuine, S., Burge, C. B., Sharp, P. A., & Young, R. A. (2010) · Cell · doi:10.1016/j.cell.2010.03.030 · Cited by 1,279
Ubiquitination of histone H2B regulates H3 methylation and gene silencing in yeast
Sun, Z.-W., & Allis, C. D. (2002) · Nature · doi:10.1038/nature00883 · Cited by 1,072
A Unified Theory of Gene Expression
Orphanides, G., & Reinberg, D. (2002) · Cell · doi:10.1016/s0092-8674(02)00655-4 · Cited by 897
Cited by
Controlling gene expression in response to stress
de Nadal, E., Ammerer, G., & Posas, F. (2011) · Nature Reviews Genetics · doi:10.1038/nrg3055 · Cited by 719
Formaldehyde Crosslinking: A Tool for the Study of Chromatin Complexes
Hoffman, E. A., Frey, B. L., Smith, L. M., & Auble, D. T. (2015) · Journal of Biological Chemistry · doi:10.1074/jbc.r115.651679 · Cited by 441
The Ccr4‐Not complex is a key regulator of eukaryotic gene expression
Collart, M. A. (2016) · WIREs RNA · doi:10.1002/wrna.1332 · Cited by 359
Ram, O., Goren, A., Amit, I., Shoresh, N., Yosef, N., Ernst, J., Kellis, M., Gymrek, M., Issner, R., Coyne, M., et al. (2011) · Cell · doi:10.1016/j.cell.2011.09.057 · Cited by 331
A Role for Snf2-Related Nucleosome-Spacing Enzymes in Genome-Wide Nucleosome Organization
Gkikopoulos, T., Schofield, P., Singh, V., Pinskaya, M., Mellor, J., Smolle, M., Workman, J. L., Barton, G. J., & Owen-Hughes, T. (2011) · Science · doi:10.1126/science.1206097 · Cited by 289
Metadata
- Authors
- Venters, B. J., Wachi, S., Mavrich, T. N., Andersen, B. E., Jena, P., Sinnamon, A. J., Jain, P., Rolleri, N. S., Jiang, C., Hemeryck-Walsh, C., & Pugh, B. F.
- Venue
- Molecular Cell
- Publisher
- Elsevier BV
- Published
- 2011-02
- Volume
- 41
- Issue
- 4
- Pages
- 480-492
- ISSN
- 1097-2765 (ISSN-L)
- OpenAlex
- W2144688273
- Cited by
- 294
- References
- 57
- FWCI
- 11.64
- Type
- journal article
- Language
- en
- Open access
- bronze
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
How to cite
Cite CoChat for the checks on this page, and the paper for its own findings.
- This page
- CoChat. (2026). Citation check: A Comprehensive Genomic Binding Map of Gene and Chromatin Regulatory Proteins in Saccharomyces. https://app.cochat.ai/papers/10.1016/j.molcel.2011.01.015
- The paper
- Venters, B. J., Wachi, S., Mavrich, T. N., Andersen, B. E., Jena, P., Sinnamon, A. J., Jain, P., Rolleri, N. S., Jiang, C., Hemeryck-Walsh, C., & Pugh, B. F. (2011). A Comprehensive Genomic Binding Map of Gene and Chromatin Regulatory Proteins in Saccharomyces. Molecular Cell. https://doi.org/10.1016/j.molcel.2011.01.015
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
