ArticleNucleic acids research2002
SYSTERS, GeneNest, SpliceNest: exploring sequence space from genome to protein.
Article in Nucleic acids research, 2002. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 62 citations in OpenAlex.
- Review: Alternative Splicing (AS) of Genes As An Approach for Generating Protein Complexity.Current genomics · 2013Article
- clusterMaker: a multi-algorithm clustering plugin for Cytoscape.BMC bioinformatics · 2011Article
- Repeats and EST analysis for new organisms.BMC genomics · 2008Article
- ASTALAVISTA: dynamic and flexible analysis of alternative splicing events in custom gene datasets.Nucleic acids research · 2007Article
- A new advance in alternative splicing databases: from catalogue to detailed analysis of regulation of expression and function of human alternative splicing variants.BMC bioinformatics · 2007Article
- Gene identification and analysis of transcripts differentially regulated in fracture healing by EST sequencing in the domestic sheep.BMC genomics · 2006Article
- Verification of predicted alternatively spliced Wnt genes reveals two new splice variants (CTNNB1 and LRP5) and altered Axin-1 expression during tumour progression.BMC genomics · 2006Article
- SIMAP: the similarity matrix of proteins.Nucleic acids research · 2006Article
- Genome cluster database. A sequence family analysis platform for Arabidopsis and rice.Plant physiology · 2005Article
- ECgene: genome-based EST clustering and gene modeling for alternative splicing.Genome research · 2005Article
- Comparative promoter region analysis powered by CORG.BMC genomics · 2005Article
- The SYSTERS Protein Family Database in 2005.Nucleic acids research · 2005Article
- ECgene: genome annotation for alternative splicing.Nucleic acids research · 2005Article
- The Cell Wall Navigator database. A systems-based approach to organism-unrestricted mining of protein families involved in cell wall metabolism.Plant physiology · 2004Article
- ASmodeler: gene modeling of alternative splicing from genomic alignment of mRNA, EST and protein sequences.Nucleic acids research · 2004Article
- Cell-type-specific processing of the amyloid precursor protein by Presenilin during Drosophila development.EMBO reports · 2004Article
- PHYTOPROT: a database of clusters of plant proteins.Nucleic acids research · 2004Article
- Protein families and TRIBES in genome sequence space.Nucleic acids research · 2003Article
- A novel algorithm for computational identification of contaminated EST libraries.Nucleic acids research · 2003Article
- An integrated gene annotation and transcriptional profiling approach towards the full gene content of the Drosophila genome.Genome biology · 2003Article
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We have integrated the protein families from SYSTERS and the expressed sequence tag (EST) clusters from our database GeneNest with SpliceNest, a new database mapping EST contigs into genomic DNA. The SYSTERS protein sequence cluster set provides an automatically generated classification of all sequences of the SWISS-PROT, TrEMBL and PIR databases into disjoint protein family and superfamily clusters. GeneNest is a database and software package for producing and visualizing gene indices from ESTs and mRNAs. Currently, the database comprises gene indices of human, mouse, Arabidopsis thaliana and zebrafish. SpliceNest is a web-based graphical tool to explore gene structure, including alternative splicing, based on a mapping of the EST consensus sequences from GeneNest to the complete human genome. The integration of SYSTERS, GeneNest and SpliceNest into one framework now permits an overall exploration of the whole sequence space covering protein, mRNA and EST sequences, as well as genomic DNA. The databases are available for querying and browsing at http://cmb.molgen.mpg.de.
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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.