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 Network Comparison Type description Value Type Interaction Map green red Filtered network_comparison
Results: HTML CSV LaTeX Showing element 51 to 100 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
description
green
red
network_comparison
26 Divided guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6] 892.67 1833.01 2.0534
Subtracted hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] 18263 23693.7 5430.7
27 Divided guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] 895.134 1834.33 2.04922
Subtracted melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] 18263 23693.7 5430.7
28 Divided guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798] 895.194 1834.36 2.04912
Subtracted necdin. [swissprot;acc:q99608] 18263 23693.7 5430.7
29 Divided guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08] 895.507 1834.52 2.04858
Subtracted melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] 18263 23693.7 5430.7
30 Divided guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670] 895.633 1834.59 2.04837
Subtracted melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] 18263 23693.7 5430.7
31 Divided guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151] 895.697 1834.63 2.04827
Subtracted melanoma antigen, family b, 6. [refseq;acc:nm_173523] 18263 23693.7 5430.7
32 Divided guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] 895.893 1834.73 2.04793
Subtracted melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] 18263 23693.7 5430.7
33 Divided guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] 896.972 1835.3 2.04611
Subtracted melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] 18263 23693.7 5430.7
34 Divided guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] 907.546 1836.71 2.02382
Subtracted melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] 18263 23693.7 5430.7
35 Divided guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] 907.564 1836.71 2.02378
Subtracted melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] 18263 23693.7 5430.7
36 Divided guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086] 907.741 1836.76 2.02344
Subtracted melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365] 18263 23693.7 5430.7
37 Divided guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488] 907.763 1836.76 2.02339
Subtracted melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] 18263 23693.7 5430.7
38 Divided guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087] 907.774 1836.76 2.02337
Subtracted melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] 18263 23693.7 5430.7
39 Divided guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899] 907.903 1836.8 2.02312
Subtracted melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366] 18263 23693.7 5430.7
40 Divided guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898] 907.978 1836.81 2.02297
Subtracted melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1] 18263 23693.7 5430.7
41 Divided guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754] 907.978 1836.81 2.02297
Subtracted trophinin. [swissprot;acc:q12816] 18263 23693.7 5430.7
42 Divided guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775] 958.237 1857.32 1.93827
Subtracted gaba-a receptor-associated protein. [sptrembl;acc:q9by60] 16426.1 21785.2 5359.1
43 Divided guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520] 1027.36 1881.02 1.83093
Subtracted apg3p; pc3-96 protein. [refseq;acc:nm_022488] 16426.1 21785.2 5359.1
44 Divided guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901] 1057.39 1931.34 1.82652
Subtracted deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] 33457.6 28136.5 5321.1
45 Divided guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0] 1056.02 1926.69 1.82448
Subtracted protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712] 22440.4 27642.5 5202.1
46 Divided neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784] 1390.33 779.167 1.78438
Subtracted cleavage and polyadenylation specific factor 4, 30kd subunit; cleavage-polyadenylation specificity factor, 30kd; no arches-like (zebrafish) zinc finger protein; cleavage-polyadenylation specificity factor. [refseq;acc:nm_006693] 20431.7 24896.4 4464.7
47 Divided chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873] 1390.33 779.167 1.78438
Subtracted trs85 homolog. [swissprot;acc:q9y2l5] 20431.7 24896.4 4464.7
48 Divided doc-1 related protein (doc-1r). [swissprot;acc:o75956] 1390.33 779.167 1.78438
Subtracted wd-repeat protein wdc146. [swissprot;acc:q9c0j8] 20369.9 24806.9 4437
49 Divided neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8] 1390.33 779.167 1.78438
Subtracted cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570] 20369.9 24806.9 4437
50 Divided neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562] 1390.33 779.167 1.78438
Subtracted cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0] 20127.8 24473.9 4346.1

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/