There are several primary sequence databases available that are widely used in the field of bioinformatics. The three main primary databases are GenBank at the National Center for Biotechnology Information (NCBI), the DNA Database of Japan (DDBJ), and the European Molecular Biology Laboratory (EMBL...
GabiPD: The GABI Primary Database - a plant integrative 'omics' database Diego Mauricio Riaño-Pachón1,2, Axel Nagel1, Jost Neigenfind1, Robert Wagner1, Rico Basekow1, Elke Weber1, Bernd Mueller-Roeber2, Svenja Diehl3, Birgit Kersten1,2,§ 1 GabiPD team, Bioinformatics group, Max ...
We next investigated the applicability of these probes for capturing proteins in living cells (Fig.2f). After sequential incubation with photocatalystIr1and QM probe, the living HeLa cells were irradiated by blue LED to activate the QM probe for in situ protein labeling. Indeed, all four probes...
BioMart and bioconductor: a powerful link between biological databases and microarray data analysis. Bioinformatics (Oxford, England). 2005;21(16):3439–40. Article CAS PubMed Google Scholar Durinck S, Spellman PT, Birney E, Huber W. Mapping identifiers for the integration of genomic datasets ...
(gray) mitochondrial annotation according to the combined human MitoCarta3.0 and UniProt databases. A filter based on +/− catalyst ratio (set to 7.0) for further noise subtraction (non-specific proteins) is illustrated.dVenn diagram showing the overlap between captured mitochondrial proteomes of ...
Then, the DEGs were further annotated via the TRANSFAC, Tumor-Suppressor Gene, and Tumor-Associated Gene databases. A total of 1095 DEGs including 511 upregulated genes and 584 down-regulated ones were screened out. The nodes ofCCL5,ISG15,CDKN2A,EGFR, andERBB2showed a high connectivity degree...
The study aimed to explore the mechanism of artemisinin in treating primary Sjögren’s syndrome (pSS) based on network pharmacology and experimental validation. Methods Relevant targets of the artemisinin and pSS-related targets were integrated by public databases online. An artemisinin-pSS network wa...
electron transport chain OXPHOS system in mitochondria, mitochondrial complex 1 assembly model OXPHOS system, and NRF2 pathway (highlighted with red in the right facet of Fig.2) also stood out. Similar analysis done on other databases and on data from overexpressing cells is shown in Additional fi...
Facing the massive data sets, there are two major ways for data storage: data can be stored as files in file systems or in databases. Many distributed file systems have been proposed to provide efficient and reliable access to large-scale data using clusters of commodity hardware [45,46]. ...
The correlation between gene expression and OS of gliomas was assessed by Kaplan–Meier analysis using public databases available on GEPIA2 portal. The results in GBM patients showed that an increased expression of GZMB (HR = 1.5, logrank p = 0.035), SDC1 (HR = 1.6, logrank...