ArticleNucleic acids research2003
PEP: Predictions for Entire Proteomes.
Article in Nucleic acids research, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 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
13 citing papers in PubMed.
- Genotyping-by-sequencing data of 272 crested wheatgrass (Data in brief · 2017Article
- The accurate assessment of small-angle X-ray scattering data.Acta crystallographica. Section D, Biological crystallography · 2015Article
- Energetic determinants of protein binding specificity: insights into protein interaction networks.Proteomics · 2009Article
- PROTEUS2: a web server for comprehensive protein structure prediction and structure-based annotation.Nucleic acids research · 2008Article
- Improving the accuracy of protein secondary structure prediction using structural alignment.BMC bioinformatics · 2006Article
- The proteome: structure, function and evolution.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2006Review
- NMPdb: Database of Nuclear Matrix Proteins.Nucleic acids research · 2005Article
- CHOP: parsing proteins into structural domains.Nucleic acids research · 2004Article
- Predicting transmembrane beta-barrels in proteomes.Nucleic acids research · 2004Article
- NORSp: Predictions of long regions without regular secondary structure.Nucleic acids research · 2003Article
- LOC3D: annotate sub-cellular localization for protein structures.Nucleic acids research · 2003Article
- SPINE 2: a system for collaborative structural proteomics within a federated database framework.Nucleic acids research · 2003Article
- NLSdb: database of nuclear localization signals.Nucleic acids research · 2003Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
PEP is a database of Predictions for Entire Proteomes. The database contains summaries of analyses of protein sequences from a range of organisms representing all three major kingdoms of life: eukaryotes, prokaryotes and archaea. All proteins publicly available for organisms were aligned against SWISS-PROT, TrEMBL and PDB. Additionally, the following annotations are provided: secondary structure, transmembrane helices, coiled coils, regions of low complexity, signal peptides, PROSITE motifs, nuclear localization signals and classes of cellular function. Proteins that contain long regions without regular secondary structure are also identified. We have produced a related database of structural domain-like fragments derived from PEP and clusters based on homology between all fragments. The PEP database, fragments and clusters are distributed freely as a set of flat files and have been integrated into SRS. The PEP group of databases can be accessed from: http://cubic.bioc.columbia.edu/pep.
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.