ReviewGenome research2004
The Ensembl core software libraries.
Review in Genome research, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 78 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
78 citing papers in PubMed.
- IMGT Nomenclature and IMGT Unique Numbering: The Two Pillars of 35 Years of Immunoinformatics for Immunoglobulins (IG) or Antibodies and T Cell Receptors (TR).Methods in molecular biology (Clifton, N.J.) · 2026Article
- Genome sequence assembly and annotation ofNAR genomics and bioinformatics · 2025Article
- High-quality chromosome scale genome assemblies of two important Sorghum inbred lines, Tx2783 and RTx436.NAR genomics and bioinformatics · 2024Article
- Generalised interrelations among mutation rates drive the genomic compliance of Chargaff's second parity rule.Nucleic acids research · 2023Article
- Pan-genome inversion index reveals evolutionary insights into the subpopulation structure of Asian rice.Nature communications · 2023Article
- Antibody Sequence and Structure Analyses Using IMGTMethods in molecular biology (Clifton, N.J.) · 2023Article
- Ten new high-quality genome assemblies for diverse bioenergy sorghum genotypes.Frontiers in plant science · 2022Article
- K-mer counting and curated libraries drive efficient annotation of repeats in plant genomes.The plant genome · 2021Article
- De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes.Science (New York, N.Y.) · 2021Article
- Full-length transcript sequencing accelerates the transcriptome research of Gymnocypris namensis, an iconic fish of the Tibetan Plateau.Scientific reports · 2020Article
- WormBase ParaSite - a comprehensive resource for helminth genomics.Molecular and biochemical parasitology · 2017Article
- Ensembl 2017.Nucleic acids research · 2017Article
- Ensembl core software resources: storage and programmatic access for DNA sequence and genome annotation.Database : the journal of biological databases and curation · 2017Article
- The Tetraodon nigroviridis reference transcriptome: developmental transition, length retention and microsynteny of long non-coding RNAs in a compact vertebrate genome.Scientific reports · 2016Article
- Ensembl comparative genomics resources.Database : the journal of biological databases and curation · 2016Article
- Cluster Analysis of p53 Binding Site Sequences Reveals Subsets with Different Functions.Cancer informatics · 2016Article
- The Ensembl gene annotation system.Database : the journal of biological databases and curation · 2016Article
- Molecular Evolution of the TET Gene Family in Mammals.International journal of molecular sciences · 2015Article
- Inferring bona fide transfrags in RNA-Seq derived-transcriptome assemblies of non-model organisms.BMC bioinformatics · 2015Article
- Adaptive evolution of formyl peptide receptors in mammals.Journal of molecular evolution · 2015Article
18 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
6 authors.
Funding
Abstract
Systems for managing genomic data must store a vast quantity of information. Ensembl stores these data in several MySQL databases. The core software libraries provide a practical and effective means for programmers to access these data. By encapsulating the underlying database structure, the libraries present end users with a simple, abstract interface to a complex data model. Programs that use the libraries rather than SQL to access the data are unaffected by most schema changes. The architecture of the core software libraries, the schema, and the factors influencing their design are described. All code and data are freely available.
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.