Sentence examples for manually curated pathways from inspiring English sources

This approach relies on the strength of 913 manually curated pathways from the Pathway Interaction Database [22].

IPA analyzes gene sets in the context of manually curated pathways and networks.

In all, 264 manually curated pathways and functionally related gene sets were tested.

The Reactome pathway database [ 23, 24] browser provides a zommable visualization of manually curated pathways for 19 organisms.

In our experiments we have restrained the complexity by using manually curated pathways and subsets of differentially expressed genes.

Two manually curated pathways (interferon signaling pathway and the inflammasome pathway) were also included (see Materials and Methods).

We then used GSEA to interrogate two a priori defined molecular signature databases at the Broad Institute (www.broad.mit.edu/gsea/msigdb/index.jsp): a manually curated pathway database (c2.cp.v2.5.symbols) and a transcription factor targets database (c3.tft.gmt5.symbols.gmt) [19].

For example the Kyoto Encyclopedia of Genes and Genomes (KEGG) contains a large collection of manually curated pathway maps.

The pathway data were derived from HumanCyc [ 36], Reactome[ 37] and NCI nature Pathway Interaction database [ 38], three manually curated pathway databases.

A manually curated pathway database (Ingenuity Pathway Analysis, IPA) was used to identify pathways among the disease-associated genes (see additional figure 1).

For this purpose, we exploited the SPIKE database of manually curated pathway maps, where each map describes a specific cellular pathway composed of tens of proteins (Paz et al., 2011).