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

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/