_Nucleic Acids Research_ 37(Database issue):D954-9, DOI "10.1093/nar/gkn611":http://dx.doi.org/10.1093/nar/gkn611 Usadel B et al (2006) PageMan: an interactive ontology tool to generate, display, and annotate overview graphs for profiling experiments. _BMC Bioinformatics_ 7:535. doi:10.1038/npre.2009.3218Birgit KerstenDi...
4b, c). Given its function as a phosphatase, PTPN1 might play a role in the signal transduction related to mitochondria. The transmembrane proteins SLC35A4, uORF, and TRABD, which were highly uncharacterized proteins without clear knowledge of functions in the database, might be potentially ...
Then, the top module and hub genes within the protein鈥損rotein interaction network were identified. Furthermore, the co-expression network of the top module was constructed using the HIPPIE database. Additionally, the gene regulatory network was constructed based on miRNAs and circRNAs. Finally, ...
Broackes-Carter F, Chen C, Duesbury M, Dumousseau M, Feuermann M, Hinz U, Jandrasits C, Jimenez RC, Khadake J, Mahadevan U, Masson P, Pedruzzi I, Pfeiffenberger E, Porras P, Raghunath A, Roechert B, Orchard S, Hermjakob H: The IntAct molecular interaction database in 2012. ...
Equivalences and related mappings that are available from the OBO Foundry and other primary sources can be accessed throughInspector Javert's Xref Databaseon Zenodo which was described inthis blog post. Summary statistics of the manually curated mappings and predicted mappings are automatically generated...
Each of the sequence reads was BLASTN-searched against a database consisting of reference sequences representing 1,156 oral and 12,013 non-oral species. Unassigned reads were then screened for high-quality non-chimeras and subjected tode novospecies-level operational taxonomy unit (OTU) calling ...
The NCBI Gene Expression Omnibus database (http://www.ncbi.nlm.nih.gov) was searched for human primary cell expression datasets. Data sets were selected based on the following three criteria: (1) chip platform (Affymetrix human genome U133 plus 2.0 expression arrays); (2) cell type studied...
The sequences containing 'N' are manually filtered out, which results in a total of 1856 sequences. The second set is the non-promoter sequences of the human genome. For this data set, we consider using the Exon/Intron Database (EID), which incorporates information on the exon/intron ...
16 Significantly different genes (FWER, P < .05) identified by expression array analysis were then imported into DAVID (the database for annotation, visualization and integrated discovery) bioinformatics resources17,18 to extract biologic features and meaning associated with large gene lists. To ...
This study performed bioinformatics analysis to mine the gene sequencing data of patients with PCRC and normal samples from a public database and extracted high-quality genetic data sets for further analysis. Gene Set Enrichment Analysis (GSEA) was used to perform the Gene Ontology (GO) Analysis...