development egfr signaling via small gtpases pathway Search Results


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Top 20 Proteins from the 196 Tumor Unique Proteins from the <t> ERBB2+ </t> Gastric Cancer Sample Set
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Top 20 Proteins from the 196 Tumor Unique Proteins from the ERBB2+ Gastric Cancer Sample Set

Journal: Journal of proteome research

Article Title: Integrated Proteomic and Genomic Analysis of Gastric Cancer Patient Tissues

doi: 10.1021/acs.jproteome.5b00827

Figure Lengend Snippet: Top 20 Proteins from the 196 Tumor Unique Proteins from the ERBB2+ Gastric Cancer Sample Set

Article Snippet: On the basis of the oncogene list information, for ERBB2+ gastric cancer set, four pathways, namely, ERBB family signaling, development EGFR signaling via small GTPases, development EGFR signaling, and cytoskeleton remodeling integrin outside-in signaling pathway from the GeneGo database, 33 were examined for integration of the proteomic and transcriptomic data and are listed in Supplementary Figure S-4 (a–d).

Techniques: Over Expression, Binding Assay, Expressing, Biomarker Discovery, Marker

ERBB signaling pathway analysis. (a) Summation of the RNA-Seq and proteomic values for genes present in the ERBB signaling pathway from KEGG.34 Red circle: RNA-Seq ≥1 cutoff value. (The red box means the RPKM value is higher than the cut off. The red color is selected only for better clarity. Note this is a different format for visual clarity as the red circles provid best contrast with the green boxes used in the KEGG figures.) Blue cross = RNA-Seq <1. Blue star = proteomics spectral count value >0. Yellow box = proteomics spectral count value >3 only in ERBB2+ tumor sample. (b) Simplified ERBB signaling pathway that lists only the subpathways with a high number of protein observations (ERBB2+ vs ERBB2− patient samples). All genes illustrated have RPKM value >1, green box: spectral counts ≥1; the red star: higher spectral counts in ERBB2+ set (also spectral counts in tumor is higher than control). Note that color is selected only for visual clarity.

Journal: Journal of proteome research

Article Title: Integrated Proteomic and Genomic Analysis of Gastric Cancer Patient Tissues

doi: 10.1021/acs.jproteome.5b00827

Figure Lengend Snippet: ERBB signaling pathway analysis. (a) Summation of the RNA-Seq and proteomic values for genes present in the ERBB signaling pathway from KEGG.34 Red circle: RNA-Seq ≥1 cutoff value. (The red box means the RPKM value is higher than the cut off. The red color is selected only for better clarity. Note this is a different format for visual clarity as the red circles provid best contrast with the green boxes used in the KEGG figures.) Blue cross = RNA-Seq <1. Blue star = proteomics spectral count value >0. Yellow box = proteomics spectral count value >3 only in ERBB2+ tumor sample. (b) Simplified ERBB signaling pathway that lists only the subpathways with a high number of protein observations (ERBB2+ vs ERBB2− patient samples). All genes illustrated have RPKM value >1, green box: spectral counts ≥1; the red star: higher spectral counts in ERBB2+ set (also spectral counts in tumor is higher than control). Note that color is selected only for visual clarity.

Article Snippet: On the basis of the oncogene list information, for ERBB2+ gastric cancer set, four pathways, namely, ERBB family signaling, development EGFR signaling via small GTPases, development EGFR signaling, and cytoskeleton remodeling integrin outside-in signaling pathway from the GeneGo database, 33 were examined for integration of the proteomic and transcriptomic data and are listed in Supplementary Figure S-4 (a–d).

Techniques: RNA Sequencing, Control