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Links tagged with 'forecasting'

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BIOBASE Gene Regulation databasesDatabase Content

http://www.gene-regulation.com/pub/databases.html

Protein > Interactions, Pathways, Enzymes

includes: TRANSFAC - transcription factor database; Patho DB - mutated forms of transcription factors and binding sites that are pathologically relevant; S/MARt DB - scaffold matrix transaction database; TRANSPATH - gene regulatory pathway database.

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tagsanimals binding sites chromatin chromosomes database management systems developmental gene expression regulation dna-binding proteins eukaryotic cells forecasting gene expression profiling gene expression regulation genetic databases genetic promoter regions genetic transcription humans macromolecular substances mice nuclear matrix nuclear proteins nucleic acid databases oligonucleotide array sequence analysis protein databases saccharomyces signal transduction systems integration tissue distribution transcription factors

CIBEXDatabase Content

http://cibex.nig.ac.jp/

Expression > Transcript Expression Analysis

The Center for Information Biology gene EXpression database (CIBEX) is a public repository for gene expression experimental data. The database system is compliant with the MIAME standard.

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tagscomputational biology database management systems forecasting gene expression gene expression profiling genetic databases information systems oligonucleotide array sequence analysis software design

DIPDatabase Content

http://dip.doe-mbi.ucla.edu/

Protein > Interactions, Pathways, Enzymes

The Database of Interacting Proteins (DIP) allows users to search for interacting proteins. Results lists can be searched and/or visualized (statically or dynamically). Users can submit new protein-protein interactions and update database entries.

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tagsanimals bacterial proteins computational biology factual databases forecasting fungal proteins helicobacter pylori humans information services macromolecular substances molecular models precipitin tests protein binding protein databases proteins reproducibility of results tertiary protein structure two-hybrid system techniques

euGenes: Genomic Information for Eukaryotic OrganismsDatabase Content

http://iubio.bio.indiana.edu:8089/

Model Organisms > General Resources

Summary of gene and genomic information automatically maintained from primary eukaryotic organism databases: gene symbol, full name, chromosome, genetic and molecular maps, gene products, links to extended gene information.

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tagsanimals arabidopsis caenorhabditis elegans chromosome mapping database management systems drosophila forecasting genetic databases genome humans mice saccharomyces sequence homology zebrafish

GlyNest and CASPERTool Content

http://www.glycosciences.de/sweetdb/start.php?action=form_shift_estimation

Other Molecules > Carbohydrates

GlyNest and CASPER are two independent services, available through this common interface, for predicting NMR spectra given a glycan chemical structure.

This content is being maintained by luetteke.

NAR Web Server Issue 2006
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tagsalgorithms automatic data processing bacterial capsules bacterial polysaccharides biomolecular nuclear magnetic resonance carbohydrate conformation carbohydrate sequence carbohydrates carbon isotopes computational biology computer simulation factual databases forecasting glycopeptides glycoproteins hydrogen magnetic resonance spectroscopy molecular models molecular sequence data molecular structure o antigens oligosaccharides polysaccharides systems integration three-dimensional imaging

NCBI GEODatabase Content

http://www.ncbi.nlm.nih.gov/geo/

Expression > Databases

The Gene Expression Omnibus (GEO) database stores over 20,000 microarray- and sequence-based functional genomics studies, and continues to handle the majority of direct high-throughput data submissions from the research community. Multiple mechanisms are provided to help users effectively search, browse, download and visualize the data at the level of individual genes or entire studies.

NAR Database Issue 2011
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tagsanimals computational biology database management systems forecasting gene expression profiling genetic databases genome genomics humans information systems national library of medicine (u.s.) oligonucleotide array sequence analysis software design united states
setsNational Center for Biotechnology Information (NCBI)

Netgene2Tool Content

http://www.cbs.dtu.dk/services/NetGene2/

Expression > Splicing

The NetGene2 server is a service producing neural network predictions of splice sites in human, C. elegans and A. thaliana DNA.

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tagsalgorithms arabidopsis artificial intelligence exons expert systems factual databases forecasting genetic models green fluorescent proteins introns luminescent proteins molecular sequence data neural networks (computer) plant dna plant rna reproducibility of results rna precursors rna splicing

PBETool Content

http://bioinformatics.univ-reunion.fr/PBE/

Protein > 3-D Structure Comparison

Protein Blocks Expert (PBE) uses a structural alphabet of short structural motifs to compare protein structures. PBE uses as its structural alphabet a set of protein blocks derived from structurally aligned homologous proteins present in the PALI Database.

NAR Web Server Issue 2006
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tagsamino acid motifs artificial intelligence bayes theorem cluster analysis computer simulation factual databases forecasting ligases molecular models neural networks (computer) peptide fragments protein conformation protein databases protein folding protein sequence analysis proteins secondary protein structure sequence alignment ubiquitins

SCORDatabase Content

http://scor.berkeley.edu/

RNA > Functional RNAs
RNA > General Resources
RNA > Motifs

The Structural Classification of RNA (SCOR) is a database designed to provide a comprehensive perspective and understanding of RNA motif structure, function, tertiary interactions and their relationships.

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tagsanimals base pairing biomolecular nuclear magnetic resonance computational biology conserved sequence forecasting humans nucleic acid conformation nucleic acid databases rna structure-activity relationship x-ray crystallography

TRAMPLETool Content

http://gpcr.biocomp.unibo.it/biodec/

Protein > 2-D Structure Prediction
Protein > Localization and Targeting

TRAMPLE is a tool for the prediction of transmembrane helices, transmembrane strands, secondary structure, and signal peptides.

NAR Web Server Issue 2005
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tagsalgorithms amino acid sequence amino acid sequence homology animals bacterial outer membrane proteins biological models chemical models computer security computer simulation database management systems double-blind method escherichia coli evaluation studies as topic factual databases forecasting haemophilus influenzae humans markov chains membrane proteins molecular models molecular sequence data neural networks (computer) porins protein folding protein sequence analysis protein sorting signals reproducibility of results rhodopseudomonas secondary protein structure sequence alignment software design statistical models

TwinscanTool Content

http://genes.cs.wustl.edu/

DNA > Gene Prediction

Twinscan is a system for predicting gene-structure in eukaryotic genomic sequences. In order to make its predictions, Twinscan combines the information from predicted coding regions and splice sites with conserservation measurements between the target sequence and sequences from a closely related genome. Currently sequences from mammalian genomes, and those of Arabidopsis thaliana, C. elegans, C. briggsae and strains JEC21 and H99 of Cryptococcus neoformans can be processed using Twinscan.

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tagsalgorithms animals base composition base sequence chromosome mapping computational biology conserved sequence dna exons forecasting gc rich sequence genes genome human genome humans mice molecular evolution nucleic acid sequence homology predictive value of tests sensitivity and specificity sequence alignment statistical models synteny