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 Value Type Interaction Map description Network Comparison Type red Filtered green network_comparison
Results: HTML CSV LaTeX Showing element 51 to 100 of 8289 in total
Value Type  : Measured
Network Comparison Type  : Divided
Filtered  : 1
Rank
Interaction Map
description
red
green
network_comparison
26 High confidence guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6] 1833.01 892.67 2.0534
Low confidence sperm associated antigen 7. [refseq;acc:nm_004890] 23318 19280.8 1.20939
27 High confidence guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] 1834.33 895.134 2.04922
Low confidence protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] 3840.85 4614.87 1.20152
28 High confidence guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798] 1834.36 895.194 2.04912
Low confidence tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] 3098.94 3719.66 1.2003
29 High confidence guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08] 1834.52 895.507 2.04858
Low confidence tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] 3121.28 3739.84 1.19818
30 High confidence guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670] 1834.59 895.633 2.04837
Low confidence bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090] 36474.3 43509.4 1.19288
31 High confidence guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151] 1834.63 895.697 2.04827
Low confidence vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274] 36469.3 43503.3 1.19287
32 High confidence guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] 1834.73 895.893 2.04793
Low confidence nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] 36360.3 43368.8 1.19275
33 High confidence guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] 1835.3 896.972 2.04611
Low confidence vitelliform macular dystrophy 2-like protein 1. [refseq;acc:nm_017682] 36360.3 43368.8 1.19275
34 High confidence guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] 1836.71 907.546 2.02382
Low confidence protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] 5339.5 6352.4 1.1897
35 High confidence guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] 1836.71 907.564 2.02378
Low confidence deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] 33111.4 39358.1 1.18866
36 High confidence guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086] 1836.76 907.741 2.02344
Low confidence proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100] 6462.09 7593.77 1.17513
37 High confidence guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488] 1836.76 907.763 2.02339
Low confidence jun dimerization protein. [refseq;acc:nm_130469] 6462.09 7593.77 1.17513
38 High confidence guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087] 1836.76 907.774 2.02337
Low confidence rab11-family interacting protein 4. [refseq;acc:nm_032932] 7407.56 8696.7 1.17403
39 High confidence guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899] 1836.8 907.903 2.02312
Low confidence eferin. [swissprot;acc:o75154] 7407.56 8696.7 1.17403
40 High confidence guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898] 1836.81 907.978 2.02297
Low confidence fos-related antigen 2. [swissprot;acc:p15408] 6480.59 7600.25 1.17277
41 High confidence guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754] 1836.81 907.978 2.02297
Low confidence protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] 6481.62 7600.61 1.17264
42 High confidence guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775] 1857.32 958.237 1.93827
Low confidence fos-related antigen 1 (fra-1). [swissprot;acc:p15407] 6485.05 7601.81 1.17221
43 High confidence guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520] 1881.02 1027.36 1.83093
Low confidence cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] 13689.1 11788.6 1.16122
44 High confidence guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901] 1931.34 1057.39 1.82652
Low confidence transcription factor jun-d. [swissprot;acc:p17535] 6614.51 7680.25 1.16112
45 High confidence guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0] 1926.69 1056.02 1.82448
Low confidence transcription factor jun-b. [swissprot;acc:p17275] 6613.42 7678.76 1.16109
46 High confidence neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784] 779.167 1390.33 1.78438
Low confidence transcription regulator protein bach1 (btb and cnc homolog 1) (ha2303). [swissprot;acc:o14867] 8313.02 9645.34 1.16027
47 High confidence chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873] 779.167 1390.33 1.78438
Low confidence nuclear factor erythroid 2 related factor 2 (nf-e2 related factor 2) (nfe2-related factor 2) (nuclear factor, erythroid derived 2, like 2) (hebp1). [swissprot;acc:q16236] 8313.02 9645.34 1.16027
48 High confidence doc-1 related protein (doc-1r). [swissprot;acc:o75956] 779.167 1390.33 1.78438
Low confidence transcription regulator protein bach2 (btb and cnc homolog 2). [swissprot;acc:q9byv9] 8313.02 9645.34 1.16027
49 High confidence neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8] 779.167 1390.33 1.78438
Low confidence microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] 13470.1 11654.4 1.1558
50 High confidence neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562] 779.167 1390.33 1.78438
Low confidence microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] 13466.8 11652.4 1.15571

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/