ArticleNucleic acids research2015
Pathways with PathWhiz.
Article in Nucleic acids research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
23 citing papers in PubMed.
- MiMeDB 2.0: the Human Microbial Metabolome Database for 2026.Nucleic acids research · 2026Article
- Metabolomics Data Analysis with the HMDB.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Circular van Krevelen diagram for visualizing metabolic pathways.bioRxiv : the preprint server for biology · 2025Article
- DrugRepoBank: a comprehensive database and discovery platform for accelerating drug repositioning.Database : the journal of biological databases and curation · 2024Article
- DrugBank 6.0: the DrugBank Knowledgebase for 2024.Nucleic acids research · 2024Article
- PathBank 2.0-the pathway database for model organism metabolomics.Nucleic acids research · 2024Article
- RTX-KG2: a system for building a semantically standardized knowledge graph for translational biomedicine.BMC bioinformatics · 2022Article
- OncoboxPD: human 51 672 molecular pathways database with tools for activity calculating and visualization.Computational and structural biotechnology journal · 2022Article
- Tumour-reprogrammed stromal BCAT1 fuels branched-chain ketoacid dependency in stromal-rich PDAC tumours.Nature metabolism · 2020Article
- PathBank: a comprehensive pathway database for model organisms.Nucleic acids research · 2020Article
- Navigating the disease landscape: knowledge representations for contextualizing molecular signatures.Briefings in bioinformatics · 2019Review
- Re-curation and rational enrichment of knowledge graphs in Biological Expression Language.Database : the journal of biological databases and curation · 2019Article
- Identification of novel immune-relevant drug target genes for Alzheimer's Disease by combining ontology inference with network analysis.CNS neuroscience & therapeutics · 2018Article
- Review of recent developments in GC-MS approaches to metabolomics-based research.Metabolomics : Official journal of the Metabolomic Society · 2018Review
- The role of the Human Metabolome Database in inborn errors of metabolism.Journal of inherited metabolic disease · 2018Review
- HMDB 4.0: the human metabolome database for 2018.Nucleic acids research · 2018Article
- DrugBank 5.0: a major update to the DrugBank database for 2018.Nucleic acids research · 2018Article
- From chromatogram to analyte to metabolite. How to pick horses for courses from the massive web resources for mass spectral plant metabolomics.GigaScience · 2017Review
- A Web Tool for Generating High Quality Machine-readable Biological Pathways.Journal of visualized experiments : JoVE · 2017Article
- YMDB 2.0: a significantly expanded version of the yeast metabolome database.Nucleic acids research · 2017Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors.
Funding
Abstract
PathWhiz (http://smpdb.ca/pathwhiz) is a web server designed to create colourful, visually pleasing and biologically accurate pathway diagrams that are both machine-readable and interactive. As a web server, PathWhiz is accessible from almost any place and compatible with essentially any operating system. It also houses a public library of pathways and pathway components that can be easily viewed and expanded upon by its users. PathWhiz allows users to readily generate biologically complex pathways by using a specially designed drawing palette to quickly render metabolites (including automated structure generation), proteins (including quaternary structures, covalent modifications and cofactors), nucleic acids, membranes, subcellular structures, cells, tissues and organs. Both small-molecule and protein/gene pathways can be constructed by combining multiple pathway processes such as reactions, interactions, binding events and transport activities. PathWhiz's pathway replication and propagation functions allow for existing pathways to be used to create new pathways or for existing pathways to be automatically propagated across species. PathWhiz pathways can be saved in BioPAX, SBGN-ML and SBML data exchange formats, as well as PNG, PWML, HTML image map or SVG images that can be viewed offline or explored using PathWhiz's interactive viewer. PathWhiz has been used to generate over 700 pathway diagrams for a number of popular databases including HMDB, DrugBank and SMPDB.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.