Difference between revisions of "ProjectsBlocks"

|Title=Lung Microbiome of COPD Patients

|Description=AnnoWiki is a Semantic MediaWiki based platform aimed to host, display and manage big data on genome annotations in a collaborative manner. This advanced Content Management System (CMS) is currently under development in the Bioinformatics Core. For more information, see a poster illustrating the application at http://www.slideshare.net/lucacozzuto/annowiki.

|Description=The Bioinformatics Core collaborates with the group of Yogi Jaeger (CRG) to assemble and annotate the genomes of three non-drosophilid diptera, Clogmia albipunctata, Megaselia abdita, and Episyrphus balteatus. We previously published the de novo transcriptomes of these flies [http://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-14-123].

|Description=MyMpn is an online resource devoted to studying the human pathogen Mycoplasma pneumoniae, a minimal bacterium causing lower respiratory tract infections. M. pneumoniae is also an interesting model organisms for the development of systems biology for unicellular organisms. The Bioinformatics Core designed and developed this database to host a wealth of omics-scale datasets generated by hundreds of experimental and computational analyses generated in the context of the mycoplasma project, an international collaboration between the The Design of Biological Systems Group at the CRG Barcelona and different research groups at the EMBL Heidelberg. For more information visit http://mympn.crg.eu/ or read the paper [http://nar.oxfordjournals.org/content/43/D1/D618].

|Title=Melon genome project

|Description=Melon (Cucumis melo L.) is a cucurbit with high economic impact and a well-known and appreciated product in Europe. Spain is the fifth world producer and the main exporter. Genoma España, a Governmental Foundation that promotes the development of research in Genomics and Proteomics, funded in 2008 the Project: "Development of genomic tools in Cucurbits, including the sequencing of the melon genome and its application for breeding these crop species", "MELONOMICS".  The Bioinformatics Core contributed to this study by predicting small non coding RNAs and detecting resistant genes predicted from the genomic sequence. Visit https://melonomics.net/ for more information or read the paper [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3406823/].

|Title=Common Bean genome project

|Description=The Bioinformatics Core collaborated with an international consortium to decode the Mesoamerican common bean (Phaseolus vulgaris). The findings are reported in the journal Genome Biology [http://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-0883-6]. The contribution of the core was to identify small ncRNAs and to assign functions to genes predicted from the genomic sequence.

|Title=SuperFly database

|Description=The Plant Resistance Genes database (PRGdb; http://prgdb.crg.eu/wiki/Main_Page) is a comprehensive resource on resistance genes (R-genes), a major class of genes in plant genomes that convey disease resistance against pathogens. Initiated in 2009, the database has grown more than 6-fold to recently include annotation derived from recent plant genome sequencing projects. Release 2.0 currently hosts useful biological information on a set of 112 known and 104 310 putative R-genes present in 233 plant species and conferring resistance to 122 different pathogens. Moreover, the website has been completely redesigned with the implementation of Semantic MediaWiki technologies, which makes this repository freely accessed and easily edited by any scientists. The Bionformatics Core participated to this project by providing the wiki infrastructure and redesigning the interface. The databased was published in NAR:[http://nar.oxfordjournals.org/content/41/D1/D1167.long]