The DOI matches its Crossref record; 12 of the 12 references it cites were found in a registry or an index.
Phenotypic Landscape of a Bacterial Cell
Open accessAbstract
Summary The explosion of sequence information in bacteria makes developing high-throughput, cost-effective approaches to matching genes with phenotypes imperative. Using E. coli as proof of principle, we show that combining large-scale chemical genomics with quantitative fitness measurements provides a high-quality data set rich in discovery. Probing growth profiles of a mutant library in hundreds of conditions in parallel yielded > 10,000 phenotypes that allowed us to study gene essentiality, discover leads for gene function and drug action, and understand higher-order organization of the bacterial chromosome. We highlight new information derived from the study, including insights into a gene involved in multiple antibiotic resistance and the synergy between a broadly used combinatory antibiotic therapy, trimethoprim and sulfonamides. This data set, publicly available at http://ecoliwiki.net/tools/chemgen/, is a valuable resource for both the microbiological and bioinformatic communities, as it provides high-confidence associations between hundreds of annotated and uncharacterized genes as well as inferences about the mode of action of several poorly understood drugs.
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Self-citationSchuldiner, M., Collins, S. R., Thompson, N. J., Denic, V., Bhamidipati, A., Punna, T., Ihmels, J., Andrews, B., Boone, C., Greenblatt, J. F., et al. (2005) · Cell · doi:10.1016/j.cell.2005.08.031 · Cited by 870
Self-citationA Catalog of Reference Genomes from the Human Microbiome
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Global Functional Atlas of Escherichia coli Encompassing Previously Uncharacterized Proteins
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“coli (Hu et al., 2009), we find that the fraction of mutant orphan genes A B”
Conservation and Rewiring of Functional Modules Revealed by an Epistasis Map in Fission Yeast
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Self-citation
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Maier, L., Pruteanu, M., Kuhn, M., Zeller, G., Telzerow, A., Anderson, E. E., Brochado, A. R., Fernandez, K. C., Dose, H., Mori, H., et al. (2018) · Nature · doi:10.1038/nature25979 · Cited by 1,905
Self-citationMultidrug evolutionary strategies to reverse antibiotic resistance
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Mutant phenotypes for thousands of bacterial genes of unknown function
Price, M. N., Wetmore, K. M., Waters, R. J., Callaghan, M., Ray, J., Liu, H., Kuehl, J. V., Melnyk, R. A., Lamson, J. S., Suh, Y., et al. (2018) · Nature · doi:10.1038/s41586-018-0124-0 · Cited by 576
Small Proteins Can No Longer Be Ignored
Storz, G., Wolf, Y. I., & Ramamurthi, K. S. (2014) · Annual Review of Biochemistry · doi:10.1146/annurev-biochem-070611-102400 · Cited by 359
Bacterial Adaptation through Loss of Function
Hottes, A. K., Freddolino, L., Khare, A., Donnell, Z. N., Liu, J. C., & Tavazoie, S. (2013) · PLoS Genetics · doi:10.1371/journal.pgen.1003617 · Cited by 270
Metadata
- Authors
- Nichols, R. J., Sen, S., Choo, Y. J., Beltrao, P., Zietek, M., Chaba, R., Lee, S., Kazmierczak, K. M., Lee, K. J., Wong, A., Shales, M., Lovett, S., Winkler, M. E., Krogan, N. J., Typas, A., & Gross, C. A.
- Venue
- Cell
- Publisher
- Elsevier BV
- Published
- 2011-01
- Volume
- 144
- Issue
- 1
- Pages
- 143-156
- ISSN
- 0092-8674 (ISSN-L)
- OpenAlex
- W2048593866
- Cited by
- 713
- References
- 12
- FWCI
- 15.93
- Type
- journal article
- Language
- en
- Open access
- bronze
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- Nichols, R. J., Sen, S., Choo, Y. J., Beltrao, P., Zietek, M., Chaba, R., Lee, S., Kazmierczak, K. M., Lee, K. J., Wong, A., Shales, M., Lovett, S., Winkler, M. E., Krogan, N. J., Typas, A., & Gross, C. A. (2011). Phenotypic Landscape of a Bacterial Cell. Cell. https://doi.org/10.1016/j.cell.2010.11.052
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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.
