ArticleNucleic acids research2009
SUPERFAMILY--sophisticated comparative genomics, data mining, visualization and phylogeny.
Article in Nucleic acids research, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 287 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
287 citing papers in PubMed.
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- A chromosomal-level genome assembly of Sinodiscula theae-sinensis strain Sthe1.Scientific data · 2026Article
- An integrative bioinformatics framework for functional annotation and prioritization of hypothetical proteins in Bacillus thuringiensis relevant to biological pest control.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2026Article
- Early Evolution of the Prokaryotic Transcription Factor Repertoire.Genome biology and evolution · 2026Article
- Chromosomal-level genome assembly of minute pirate bug Orius nagaii Yasunaga, 1993 (Hemiptera: Anthocoridae).Scientific data · 2026Article
- Nematode extracellular protein interactome expands connections between signaling pathways.Cell genomics · 2026Article
- A chromosomal-level genome assembly of Nadezhdiella cantori (Hope, 1843) (Coleoptera: Cerambycidae).Scientific data · 2026Article
- Chromosome-level genome assembly of Sinodiscula camellicola strain Scam5.Scientific data · 2026Article
- The chromosome-level genome assembly of Sitobion avenae Fabricius (Hemiptera: Aphididae).Scientific data · 2026Article
- Haplotype-resolved genome sequences of a springtail species, Folsomia candida (Collembola: Isotomidae).Scientific data · 2026Article
- A chromosome-level genome assembly of two-spotted cricket, Gryllus bimaculatus (Orthoptera: Grylloidea).Scientific data · 2026Article
- Chromosome-level genome assembly of Neoseiulus longispinosus (Phytoseiidae).Scientific data · 2026Article
- Prediction of eukaryotic cellular complexity in Asgard archaea using structural modelling.Nature microbiology · 2026Article
- Article
- Variability in mountain pine beetle (Coleoptera: Curculionidae) gene expression in response to increasing concentrations of species-specific double-stranded RNA.Journal of insect science (Online) · 2026Article
- Chromosome-level genome assembly of the traditional Chinese medical plant Pseudostellaria heterophylla.Scientific data · 2025Article
- A chromosomal-level genome assembly of Thanatophilus sinuatus Fabricius (Coleoptera: Staphylinidae).Scientific data · 2025Article
227 more citing papers are in PubMed but not listed here.
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
SUPERFAMILY provides structural, functional and evolutionary information for proteins from all completely sequenced genomes, and large sequence collections such as UniProt. Protein domain assignments for over 900 genomes are included in the database, which can be accessed at http://supfam.org/. Hidden Markov models based on Structural Classification of Proteins (SCOP) domain definitions at the superfamily level are used to provide structural annotation. We recently produced a new model library based on SCOP 1.73. Family level assignments are also available. From the web site users can submit sequences for SCOP domain classification; search for keywords such as superfamilies, families, organism names, models and sequence identifiers; find over- and underrepresented families or superfamilies within a genome relative to other genomes or groups of genomes; compare domain architectures across selections of genomes and finally build multiple sequence alignments between Protein Data Bank (PDB), genomic and custom sequences. Recent extensions to the database include InterPro abstracts and Gene Ontology terms for superfamiles, taxonomic visualization of the distribution of families across the tree of life, searches for functionally similar domain architectures and phylogenetic trees. The database, models and associated scripts are available for download from the ftp site.
Indexed as
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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.