Suzanne Paley
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Explore the profile of Suzanne Paley including associated specialties, affiliations and a list of published articles.
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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.
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...
5.
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...
6.
Karp P, Paley S, Caspi R, Kothari A, Krummenacker M, Midford P, et al.
EcoSal Plus
. 2023 May;
11(1):eesp00022023.
PMID: 37220074
EcoCyc is a bioinformatics database available online at EcoCyc.org that describes the genome and the biochemical machinery of K-12 MG1655. The long-term goal of the project is to describe the...
7.
Proctor A, Parvinroo S, Richie T, Jia X, Lee S, Karp P, et al.
mSystems
. 2023 Feb;
8(2):e0120522.
PMID: 36749080
No abstract available.
8.
Karp P, Paley S, Krummenacker M, Kothari A, Wannemuehler M, Phillips G
Front Bioinform
. 2022 Oct;
2:869150.
PMID: 36304298
The Pathway Tools (PTools) software provides a suite of capabilities for storing and analyzing integrated collections of genomic and metabolic information in the form of organism-specific Pathway/Genome Databases (PGDBs). A...
9.
Proctor A, Parvinroo S, Richie T, Jia X, Lee S, Karp P, et al.
mSystems
. 2022 Aug;
7(5):e0029322.
PMID: 35968975
Animals colonized with a defined microbiota represent useful experimental systems to investigate microbiome function. The altered Schaedler flora (ASF) represents a consortium of eight murine bacterial species that have been...
10.
Hawkins C, Ginzburg D, Zhao K, Dwyer W, Xue B, Xu A, et al.
J Integr Plant Biol
. 2021 Aug;
63(11):1888-1905.
PMID: 34403192
To understand and engineer plant metabolism, we need a comprehensive and accurate annotation of all metabolic information across plant species. As a step towards this goal, we generated genome-scale metabolic...