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Organizing and summarizing search results for you- Kyoto Encyclopaedia of Genes and Genomes (KEGG)
- Reactome
- BioCyc
- Ingenuity Pathway Analysis (IPA) database
- BioCarta
- NCI-PID
- WikiPathways
- PANTHER
- MetaCyc
PLOShttps://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1009105Pathway analysis in metabolomics: Recommendations for ... - PLOSPathway sets can be obtained from several databases, for example, the Kyoto Encyclopaedia of Genes and Genomes (KEGG) [ 15 ], Reactome [ 16 ], and BioCyc [ 17] databases, or commer…BMChttps://genomebiology.biomedcentral.com/articles/10.1186/s13059-019-1790-4Identifying significantly impacted pathways: a comprehensive ...One of the most common techniques used to address this problem is to leverage the knowledge contained in various pathway databases such as Kyoto Encyclopedia of Genes and Genomes (…Wikipediahttps://en.wikipedia.org/wiki/Pathway_analysisPathway analysis - WikipediaPathway collections and interaction networks constitute the knowledge base required for a pathway analysis. Pathway content, structure, format, and functionality vary between diffe…MetaCychttps://metacyc.org/MetaCyc: Metabolic Pathways From all Domains of LifeMetaCyc contains pathways involved in both primary and secondary metabolism, as well as associated metabolites, reactions, enzymes, and genes. The goal of MetaCyc is to catalog the…BioCychttps://www.biocyc.org/BioCyc Pathway/Genome Database CollectionBioCyc is a collection of 20,040 Pathway/Genome Databases (PGDBs) for model eukaryotes and for thousands of microbes, plus software tools for exploring them. BioCyc is an en cyc lo… KEGG PATHWAY Database - GenomeNet
KEGG PATHWAY is a collection of manually drawn pathway maps representing our knowledge of the molecular interaction, reaction and relation networks for: 1. Metabolism
KEGG
Pathway viewer, Brite viewer and Genome browser with mapping capabilities: …
Genes
KEGG GENES is a collection of genes and proteins in complete genomes of cellular …
Disease
The Human Diseases category of the KEGG PATHWAY database is a …
Network
KEGG NETWORK represents a renewed attempt by KEGG to capture knowledge …
Compound
KEGG COMPOUND is one of the four original databases, together with KEGG …
Glycolysis / Gluconeogenesis
Glycolysis is the process of converting glucose into pyruvate and generating …
Orthology (Ko)
The KO (KEGG Orthology) database is a database of molecular functions …
Brite
KEGG BRITE is a collection of hierarchical classification systems capturing …
Drug
KEGG DRUG is a comprehensive drug information resource for approved drugs …
Pathway Commons: A Resource for Biological …
Pathway Commons aims to collect and disseminate biological pathway and interaction data. Data is collected from partner databases and is represented in the BioPAX standard.
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PathBank
PathBank is an interactive, visual database containing more than 600 000 machine-readable pathways found in model organisms such as humans, mice, E. coli, yeast, and Arabidopsis thaliana. The majority of these pathways are not …
Reactome Pathway Database
Reactome is a free, open-source, curated and peer reviewed pathway database. Our goal is to provide intuitive bioinformatics tools for the visualization, interpretation and analysis of …
ConsensusPathDB
ConsensusPathDB-human integrates interaction networks in Homo sapiens including binary and complex protein-protein, genetic, metabolic, signaling, gene regulatory and drug-target …
BioCyc Pathway/Genome Database Collection
Learn the entire process of building a BioCyc-like Pathway/Genome Database (PGDB) for an organism with a sequenced and annotated genome. Build a PGDB for your own lab or for the whole scientific community.
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Home | WikiPathways
Choose from dozens of tools to perform pathway analysis. Visualize your data in the context of pathway diagrams. Publish results as images linked to an active database. and many more...
DAVID Functional Annotation Bioinformatics Microarray Analysis
Visualize genes on BioCarta & KEGG pathway maps. Display many-genes-to-many-terms relationships in 2D. Search for functionally related genes not in the list. List interacting …
PathON - Pathway Analysis Tool
What core components of a signaling pathway are up-regulated under experimental conditions? What transcription factor targets of a signaling pathway are up-regulated under experimental …
RaMP: Relational Database of Metabolomics Pathways
Mar 27, 2024 · Identify enriched pathways or chemical classes given an input list of analytes. RaMP (Relational database of Metabolomic Pathways) is a multi-sourced integrated database with comprehensive pathway, chemical, and …
Ingenuity Pathway Analysis | QIAGEN Digital Insights
Explore the hidden facets of your data with Ingenuity Pathway Analysis. Predict pathway and molecular activity and analyze regulatory networks to discover deep insights and actionable hypotheses in your data. Strengthen hypotheses and …
Other Databases - PathBank
Ingenuity Pathways Analysis (IPA), is a commercially available software that allows dynamic pathway modeling and analysis of biological and chemical systems. IPA has pathway building …
Pathguide: the pathway resource list
Pathguide contains information about 702 biological pathway related resources and molecular interaction related resources. Click on a link to go to the resource home page or 'Details' for a …
Plant Metabolic Pathway Databases | Plant Metabolic Network
PlantCyc provides access to manually curated or reviewed information about shared and unique metabolic pathways present in over 500 plant species. PMN Single-species/taxon Databases. …
MetaCyc: Metabolic Pathways From all Domains of Life
edit PGDBs, perform metabolic modeling, and query/update using APIs. BioCyc Quick Start Guide What is BioCyc? BioCyc Video Tutorials. What do bile acids have to do with a bear? And why …
Beginner for KEGG Pathway Analysis: The Complete Guide
Explore KEGG Pathway Analysis with our complete guide. Learn how to navigate the KEGG database, decode pathway maps, and apply enrichment analysis in transcriptome and multi …
Pathway Analysis: State of the Art - PMC - PubMed Central (PMC)
Pathway analysis is a set of widely used tools for research in life sciences intended to give meaning to high-throughput biological data. The methodology of these tools settles in the …
KEGG Pathway Analysis - CD Genomics
By ingeniously integrating genomic and molecular data, KEGG proffers a holistic database and a profound analytical platform, poised to illuminate the fundamental processes that underlie the …
A Review of Pathway Databases and Related Methods Analysis
In the pathway database analysis, we present a brief introduction on how to gain knowledge from fundamental pathway data in regard to specific human pathways and how to use pathway …
Transcriptome Analysis Revealed That Cell Wall Regulatory …
1 day ago · An R script was used to perform KEGG pathway enrichment analysis on genes in the gene set. Cluster analysis and the correlation analysis of genes are based on their expression …
Network based approach for drug target identification in early …
4 days ago · Furthermore, a pathway enrichment analysis has been performed on these genes, identifying several enriched pathways by using KEGG 12 and Reactome 13 databases. …
Exploring the mechanisms of PANoptosis in osteoarthritis and the ...
20 hours ago · These genes are linked to processes such as apoptosis, pyroptosis, and the inflammasome complex. Pathway analysis revealed necroptosis, Toll-like receptor, and …
PathBank
PathBank is an interactive, visual database containing more than 600 000 machine-readable pathways found in model organisms such as humans, mice, E. coli, yeast, and Arabidopsis …
Single-cell sequencing combined with urinary multi-omics analysis ...
Mar 24, 2025 · Objective This study aimed to elucidate the expression profile and biological implications of peroxidase 5 (PRDX5) in bladder cancer (BC), specifically investigating its …
CANDI: a web server for predicting molecular targets and …
Feb 27, 2025 · Predicted targets were then mapped to the Reactome pathway database to identify the biological processes affected. To facilitate the prediction of molecular targets and …
Bibliometric and Bioinformatics Analysis of Renal Impairment in ...
Oct 20, 2024 · Statistical Analysis. All the databases used in this study, A P-value less than 0.05 indicated that the difference was statistically significant. Results Annual Publications and …
MACAW: a method for semi-automatic detection of errors in …
3 days ago · Data analysis and visualization. All data was generated and analyzed in Python and R [113, 114]. ... The MetaCyc database of metabolic pathways and enzymes. Nucleic Acids …
An examination of the LPS-TLR4 immune response through the …
Mar 18, 2025 · The LPS-TLR4 immune response is a critical mechanism in the body's defense against Gram-negative bacterial infections, yet its dysregulation can lead to severe …
Investigating factors affecting the quality of life of women with ...
Feb 24, 2025 · Data analysis. The initial screening focused on the titles and abstracts, followed by a thorough examination of the full texts. ... Path analysis revealed that age and BMI had direct …
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