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CUBIC: Columbia University Bioinformatics Center
38303
CUBIC: Columbia University Bioinformatics Center
http://cubic.bioc.columbia.edu/
Features PredictProtein service for sequence analysis and protein structure prediction, META for single-page interface to validated sequence analysis, PredictNLS for prediction and analysis of nuclear localization signals, EVA for evaluation of automatic protein structure prediction servers, and DSSPcont for continuous assignment of protein secondary structure.
Biology > Bioinformatics > Online Services
bioinformatics computational biology protein secondary structure function subcellular localization prediction tools solvent accessibility signal peptides sorting signals genomes threading redundancy reduction nuclear localiza
Jan 6, 2008
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Other links at Biology > Bioinformatics > Online Services
Transterm - an interactive database of mRNA regions and motifs from all species and genomes. Users can browse the pre-computed data tables, search the sequence databases or search their own sequences.
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An interesting tool to discover and visualize over- or under-represented words in genetic sequences. Requires Java support in browser. Also available as a downloadable program.
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Hosts Irish embnet node, Gives links to Database browsing and interrogation at SRS, European (EBI) servers, Blast server for parasite genomes (EBI), US (NCBI) servers, Protein structure prediction, PredictProtein Server in Heidelberg, Gene identification, splice sites, exons, introns and a list of gene structure prediction programs
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4. QGRS Mapper
Generates information on composition and distribution of putative Quadruplex forming G-Rich Sequences (QGRS) in nucleotide sequences and NCBI genes.
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5. Scansite
Scansite searches for motifs within proteins that are likely to be phosphorylated by specific protein kinases or bind to domains such as SH2 domains, 14-3-3 domains or PDZ domains.
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Offers a number of educational programs including LESLIE, LOGIST, CHAOS, CELLS, WITCOM, PRED and LEWONTIN.
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Free service for retrieving all synonyms for a given gene or protein name.
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Gene sequence extraction of regions around the 5'-end (promoter) and/or the translation initiation site (TIS) of a gene.
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9. ReadSeq
Converts amino acid and nucleotide sequence data formats including FASTA, GenBank, Phylip and others.
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10. BIOBASE
are regulatory genomic signals and regions that govern transcriptional control based on TRANSFAC - The Transcription Factor Database. It compiles data about gene regulatory DNA sequences and protein factors binding to and acting through them.
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