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Global Biostatistics and Data Science Research Guide
Databases, tools, software, journals, books, lab protocols and websites of use in bioinformatics/biomedical informatics.
UniProtKB/Swiss-Prot is the manually annotated and reviewed section of the UniProt Knowledgebase (UniProtKB).
It is a high quality annotated and non-redundant protein sequence database, which brings together experimental results, computed features and scientific conclusions.
Since 2002, it is maintained by the UniProt consortium and is accessible via the UniProt website.
The National Center for Biotechnology Information advances science and health by providing access to biomedical and genomic information. The US repository of biotechnology information, tools and downloads.
The European bioinformatics databank, EMBL-EBI provides freely available data from life science experiments, performs basic research in computational biology and offers an extensive user training programme, supporting researchers in academia and industry.
DNA Data Bank of Japan is the sole nucleotide sequence data bank in Asia, which is officially certified to collect nucleotide sequences from researchers and to issue the internationally recognized accession number to data submitters
UniProt (Universal Protein Resource) is the manually annotated and reviewed section of the UniProt Knowledgebase(UniProtKB). It is a high quality annotated and non-redundant protein sequence database which brings together experimental results, computed features, scientific conclusions and a central repository of protein sequence and function created by joining the information contained in Swill-Prot, TrEMBL, and PIR.
Finds regions of similarity between biological sequences. A basic bioinformatics tool compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. From the National Center for Biotechnology Information
PSI-BLAST (Position-Specific Iterative Basic Local Alignment Search Tool) derives a position-specific scoring matrix (PSSM) or profile from the multiple sequence alignment of sequences detected above a given score threshold using protein–protein BLAST.
Includes a) numerous sequenced genomes including several which have been assembled; b) studies that examine transcript and protein existence, abundance, and differential expression; c) epigenomic and functional studies to define regulatory and other sequence elements; and d) population studies to define small and large variations in the genome, transcriptome, proteome, epigenome, or the microbiome.
Ensembl is a genome browser for vertebrate genomes that supports research in comparative genomics, evolution, sequence variation and transcriptional regulation. Ensembl annotate genes, computes multiple alignments, predicts regulatory function and collects disease data. Ensembl tools include BLAST, BLAT, BioMart and the Variant Effect Predictor (VEP) for all supported species.
GEO is a public functional genomics data repository supporting MIAME-compliant data submissions. Array- and sequence-based data are accepted. Tools are provided to help users query and download experiments and curated gene expression profiles.
KEGG is a database resource for understanding high-level functions and utilities of the biological system, such as the cell, the organism and the ecosystem, from molecular-level information, especially large-scale molecular datasets generated by genome sequencing and other high-throughput experimental technologies.
The Database for Annotation, Visualization and Integrated Discovery (DAVID ) v6.8 comprises a full Knowledgebase update to the sixth version of our original web-accessible programs. DAVID now provides a comprehensive set of functional annotation tools for investigators to understand biological meaning behind large list of genes.
Access to scientific databases and software tools in different areas of life sciences including proteomics, genomics, phylogeny, systems biology, population genetics, and transcriptomics. From the Swiss Institute of Bioinformatics.