A novel signaling pathway impact analysis

AL Tarca, S Draghici, P Khatri, SS Hassan… - …, 2009 - academic.oup.com
… In the absence of a gold standard, the best alternatives are to: (i) analyze the results of
the pathway analysis method in the light of the existing biological knowledge regarding the …

Ten years of pathway analysis: current approaches and outstanding challenges

P Khatri, M Sirota, AJ Butte - PLoS computational biology, 2012 - journals.plos.org
… of pathway analysis approaches, our goal here is to group approaches by the type of analysis
… A recent impact factor (IF) analytic approach was proposed to analyze signaling pathways. …

The JAK-STAT signaling network in the human B-cell: an extreme signaling pathway analysis

JA Papin, BO Palsson - Biophysical journal, 2004 - cell.com
… first such analysis of an actual biological signaling system. Extreme signaling pathway analysis
is a topologically based approach and assumes a balanced use of the signaling network. …

Notch signaling in breast cancer: From pathway analysis to therapy

BM Krishna, S Jana, J Singhal, D Horne, S Awasthi… - Cancer letters, 2019 - Elsevier
… This review suggests that Notch signaling pathwaysignaling pathway regulates the
transcriptional activity of key target genes through crosstalk with several other signaling pathways. …

Global downstream pathway analysis reveals a dependence of oncogenic NF-E2–related factor 2 mutation on the mTOR growth signaling pathway

T Shibata, S Saito, A Kokubu, T Suzuki, M Yamamoto… - Cancer research, 2010 - AACR
… range of biological processes in addition to the antioxidant pathway. … “pathway analysis
to connect the expression patterns of gene groups with specific phenotypes. This analysis

[HTML][HTML] Pathway analysis of seven common diseases assessed by genome-wide association

A Torkamani, EJ Topol, NJ Schork - Genomics, 2008 - Elsevier
… through Tubby [14], and G-protein GNG2, which modulates Serotonin signaling through …
in our analysis. The serotonin signaling pathway is also implicated in our pathway analysis of …

GAGE: generally applicable gene set enrichment for pathway analysis

W Luo, MS Friedman, K Shedden, KD Hankenson… - BMC …, 2009 - Springer
… , including the canonical BMP-TGF beta signaling, JAK-STAT signaling, Wnt signaling,
and estrogen signaling pathways–all of which are supported by the experimental literature. …

Analysis of calcium signaling pathways in plants

O Batistič, J Kudla - Biochimica et Biophysica Acta (BBA)-General Subjects, 2012 - Elsevier
BACKGROUND: Calcium serves as a versatile messenger in many adaptation and developmental
processes in plants. Ca 2+ signals are represented by stimulus-specific spatially and …

Pathway analysis of breast cancer genome-wide association study highlights three pathways and one canonical signaling cascade

I Menashe, D Maeder, M Garcia-Closas, JD Figueroa… - Cancer research, 2010 - AACR
… trend = 0.0019 for rs12460755) that is absent from the IGF-I signaling pathway. Interestingly,
the fibroblast growth factor signaling pathway was ranked 10th in our study (Table 1; P ES = …

Drug cytotoxicity and signaling pathway analysis with three-dimensional tumor spheroids in a microwell-based microfluidic chip for drug screening

Y Chen, D Gao, H Liu, S Lin, Y Jiang - Analytica chimica acta, 2015 - Elsevier
… then lysed on chip followed by signaling transduction pathway analysis. To our knowledge,
… testing and the offline detailed drug signaling pathway analysis combination on one system. …