Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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Gene Rank description Value Type Interaction Map Filtered Network Comparison Type network_comparison red green
Results: HTML CSV LaTeX Showing element 101 to 150 of 16578 in total
Value Type  : Measured
Filtered  : 1
Rank
description
Interaction Map
Network Comparison Type
network_comparison
red
green
26 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6] High confidence Divided 2.0534 1833.01 892.67
hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] Subtracted 5430.7 23693.7 18263
septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599] Low confidence 1829.9 13203.5 15033.4
sperm associated antigen 7. [refseq;acc:nm_004890] Divided 1.20939 23318 19280.8
27 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] High confidence 2.04922 1834.33 895.134
melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] Subtracted 5430.7 23693.7 18263
microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] Low confidence 1815.7 13470.1 11654.4
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] Divided 1.20152 3840.85 4614.87
28 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798] High confidence 2.04912 1834.36 895.194
microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] Low confidence Subtracted 1814.4 13466.8 11652.4
necdin. [swissprot;acc:q99608] High confidence 5430.7 23693.7 18263
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] Low confidence Divided 1.2003 3098.94 3719.66
29 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08] High confidence 2.04858 1834.52 895.507
melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] Subtracted 5430.7 23693.7 18263
septin 10 isoform 1. [refseq;acc:nm_144710] Low confidence 1791.4 13081.2 14872.6
tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] Divided 1.19818 3121.28 3739.84
30 bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090] 1.19288 36474.3 43509.4
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670] High confidence 2.04837 1834.59 895.633
melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] Subtracted 5430.7 23693.7 18263
phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [swissprot;acc:q07326] Low confidence 1780.5 3278 5058.5
31 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151] High confidence Divided 2.04827 1834.63 895.697
melanoma antigen, family b, 6. [refseq;acc:nm_173523] Subtracted 5430.7 23693.7 18263
n33 protein. [swissprot;acc:q13454] Low confidence 1780.5 3278 5058.5
vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274] Divided 1.19287 36469.3 43503.3
32 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] High confidence 2.04793 1834.73 895.893
implantation-associated protein. [refseq;acc:nm_032121] Low confidence Subtracted 1780.5 3278 5058.5
melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] High confidence 5430.7 23693.7 18263
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] Low confidence Divided 1.19275 36360.3 43368.8
33 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] High confidence 2.04611 1835.3 896.972
melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] Subtracted 5430.7 23693.7 18263
septin 6. [swissprot;acc:q14141] Low confidence 1767.9 13005.8 14773.7
vitelliform macular dystrophy 2-like protein 1. [refseq;acc:nm_017682] Divided 1.19275 36360.3 43368.8
34 cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847] Subtracted 1758.96 5492.04 7251
guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] High confidence Divided 2.02382 1836.71 907.546
melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] Subtracted 5430.7 23693.7 18263
protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] Low confidence Divided 1.1897 5339.5 6352.4
35 deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] 1.18866 33111.4 39358.1
guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] High confidence 2.02378 1836.71 907.564
melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] Subtracted 5430.7 23693.7 18263
rhomboid-related protein 4 (ec 3.4.21.-) (ventrhoid transmembrane protein). [swissprot;acc:p58872] Low confidence 1736.6 23239.9 21503.3
36 bax inhibitor-1 (bi-1) (testis enhanced gene transcript). [swissprot;acc:p55061]
guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086] High confidence Divided 2.02344 1836.76 907.741
melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365] Subtracted 5430.7 23693.7 18263
proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100] Low confidence Divided 1.17513 6462.09 7593.77
37 guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488] High confidence 2.02339 1836.76 907.763
jun dimerization protein. [refseq;acc:nm_130469] Low confidence 1.17513 6462.09 7593.77
melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] High confidence Subtracted 5430.7 23693.7 18263
rhomboid-related protein 1 (ec 3.4.21.-) (rrp) (rhomboid-like protein 1). [swissprot;acc:o75783] Low confidence 1736.6 23239.9 21503.3
38 cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] 1709.5 13195.9 11486.4
guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087] High confidence Divided 2.02337 1836.76 907.774

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.
- http://analysis.yellowcouch.org/