Peter D Karp
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Explore the profile of Peter D Karp including associated specialties, affiliations and a list of published articles.
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117
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9351
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Recent Articles
1.
Moore L, Caspi R, Boyd D, Berkmen M, Mackie A, Paley S, et al.
Nucleic Acids Res
. 2024 Oct;
52(20):12201-12207.
PMID: 39373482
The model organism Escherichia coli K-12 has one of the most extensively annotated genomes in terms of functional characterization, yet a significant number of genes, ∼35%, are still considered poorly...
2.
Swart A, Caspi R, Paley S, Karp P
Front Bioinform
. 2024 Sep;
4:1395981.
PMID: 39318761
We present a tool for multi-omics data analysis that enables simultaneous visualization of up to four types of omics data on organism-scale metabolic network diagrams. The tool's interactive web-based metabolic...
3.
Paley S, Caspi R, OMaille P, Karp P
Front Microbiol
. 2024 Aug;
15:1447632.
PMID: 39144229
The Comparative Genome Dashboard is a web-based software tool for interactive exploration of the similarities and differences in gene functions between organisms. It provides a high-level graphical survey of cellular...
4.
Caspi R, Karp P
Access Microbiol
. 2024 Jul;
6(6).
PMID: 39045247
ChatGPT and Bard (now called Gemini), two conversational AI models developed by OpenAI and Google AI, respectively, have garnered considerable attention for their ability to engage in natural language conversations...
5.
Midford P, Cadigan J, Karp P
bioRxiv
. 2024 Jul;
PMID: 38979392
Introduction: Operon prediction is a valuable component of microbial-genome annotation because operon organization can yield inferences about gene function, and because knowledge of operon structure can aid the interpretation of...
6.
Herson J, Krummenacker M, Spaulding A, OMaille P, Karp P
mSystems
. 2024 Jul;
9(7):e0026724.
PMID: 38958457
Importance: Genome browsers provide graphical depictions of genome information to speed the uptake of complex genome data by scientists. They provide search operations to help scientists find information and zoom...
7.
Paley S, Caspi R, OMaille P, Karp P
bioRxiv
. 2024 Jun;
PMID: 38915637
The Comparative Genome Dashboard is a web-based software tool for interactive exploration of the similarities and differences in gene functions between organisms. It provides a high-level graphical survey of cellular...
8.
Sun G, DeFelice M, Gillies T, Ahn-Horst T, Andrews C, Krummenacker M, et al.
Cell Syst
. 2024 Feb;
15(3):227-245.e7.
PMID: 38417437
Many bacteria use operons to coregulate genes, but it remains unclear how operons benefit bacteria. We integrated E. coli's 788 polycistronic operons and 1,231 transcription units into an existing whole-cell...
9.
Moore L, Caspi R, Campbell D, Casey J, Crevecoeur S, Lea-Smith D, et al.
Front Microbiol
. 2024 Feb;
15:1340413.
PMID: 38357349
CyanoCyc is a web portal that integrates an exceptionally rich database collection of information about cyanobacterial genomes with an extensive suite of bioinformatics tools. It was developed to address the...
10.
Paley S, Karp P
Metabolites
. 2024 Jan;
14(1).
PMID: 38276300
The Omics Dashboard is a software tool for interactive exploration and analysis of metabolomics, transcriptomics, proteomics, and multi-omics datasets. Organized as a hierarchy of cellular systems, the Dashboard at its...