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Functional analysis of large gene lists, derived in most cases from emerging high-throughput genomic, proteomic and bioinformatics scanning approaches, is still a challenging and daunting task. The gene-annotation enrich...

Materie / parole chiave: bioinformatics, computational biology; Medicine: Medicine (General): Computer applications to medicine. Medical informatics; Science: Biology (General)

Health and biomedical research are undergoing rapid advancement. New therapies, digital tools, and data-driven methods emerge on a daily basis, often accompanied by audacious claims and rapid shifts in attention. For rea...

Abstract Summary: The Biopython project is a mature open source international collaboration of volunteer developers, providing Python libraries for a wide range of bioinformatics problems. Biopython includes modules for ...

The Bioconductor project is an initiative for the collaborative creation of extensible software for computational biology and bioinformatics. The goals of the project include: fostering collaborative development and wide...

Materie / parole chiave: bioinformatics, computational biology; Medicine: Medicine (General): Computer applications to medicine. Medical informatics; Science: Biology (General)

Materie / parole chiave: bioinformatics, computational biology, systems biology, molecular biology, evolutionary biology; Science: Biology (General)

Materie / parole chiave: data visualisation, integrative bioinformatics, genomics, computational bioimaging; Medicine: Medicine (General): Computer applications to medicine. Medical informatics

Materie / parole chiave: genomics, proteomics, bioinformatics, epigenomics; Science: Biology (General); Medicine: Medicine (General): Computer applications to medicine. Medical informatics

Materie / parole chiave: bioinformatics, biotechnology, mathematical modelling, genomic variation, pathology, algorithms; Technology: Chemical technology: Biotechnology; Science: Biology (General)

Materie / parole chiave: bioinformatics, computational biology, genomics, gene expression, genetic and population analysis, data and text mining; Science: Biology (General): Genetics

Materie / parole chiave: genomics, proteomics, transcriptomics, epigenetics, bioinformatics; Medicine: Medicine (General): Computer applications to medicine. Medical informatics; Science: Biology (General): Genetics

Materie / parole chiave: molecular biology, biotechnology, medical informatics, software tools, databases, data integration; Technology: Chemical technology: Biotechnology

MOTIVATION: In 2001 and 2002, we published two papers (Bioinformatics, 17, 282-283, Bioinformatics, 18, 77-82) describing an ultrafast protein sequence clustering program called cd-hit. This program can efficiently clust...

Abstract Summary: We have developed ClueGO, an easy to use Cytoscape plug-in that strongly improves biological interpretation of large lists of genes. ClueGO integrates Gene Ontology (GO) terms as well as KEGG/BioCarta p...

The ExPASy (the Expert Protein Analysis System) World Wide Web server (http://www.expasy.org), is provided as a service to the life science community by a multidisciplinary team at the Swiss Institute of Bioinformatics (...

Abstract Proteins are essential to life, and understanding their structure can facilitate a mechanistic understanding of their function. Through an enormous experimental effort 1–4 , the structures of around 100,000 un...

The cBioPortal for Cancer Genomics (http://cbioportal.org) provides a Web resource for exploring, visualizing, and analyzing multidimensional cancer genomics data. The portal reduces molecular profiling data from cancer ...

MOTIVATION: Testing for correlations between different sets of genomic features is a fundamental task in genomics research. However, searching for overlaps between features with existing web-based methods is complicated ...

BACKGROUND: Sequence similarity searching is a very important bioinformatics task. While Basic Local Alignment Search Tool (BLAST) outperforms exact methods through its use of heuristics, the speed of the current BLAST s...

MOTIVATION: Genomics has revolutionized biological research, but quality assessment of the resulting assembled sequences is complicated and remains mostly limited to technical measures like N50. RESULTS: We propose a mea...

SUMMARY: A combination of bisulfite treatment of DNA and high-throughput sequencing (BS-Seq) can capture a snapshot of a cell's epigenomic state by revealing its genome-wide cytosine methylation at single base resolution...

SUMMARY: CD-HIT is a widely used program for clustering biological sequences to reduce sequence redundancy and improve the performance of other sequence analyses. In response to the rapid increase in the amount of sequen...

MOTIVATION: Clustering of individuals into populations on the basis of multilocus genotypes is informative in a variety of settings. In population-genetic clustering algorithms, such as BAPS, STRUCTURE and TESS, individu...