MK5 Microarray Data

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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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description	Filtered	Rank	Gene	Value Type	Network Comparison Type	Interaction Map	red	network_comparison	green

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Showing element 501 to 550 of 3730 in total

Value Type  : Measured
Network Comparison Type  : Divided
Interaction Map  : High confidence

description	Filtered	Rank	red	network_comparison	green
blood group rh(d) polypeptide (rhesus d antigen) (rhxiii) (rh polypeptide 2) (rhpii). [swissprot;acc:q02161]	0	183	375.07	1.22281	306.727
	1	2271	6568.51	1.04589	6869.97
bloom's syndrome protein (ec 3.6.1.-) (recq protein-like 3) (dna helicase, recq-like, type 2). [swissprot;acc:p54132]	0	453	1337.29	1.01438	1356.52
	1	861	5734.15	1.10329	6326.41
bomapin (protease inhibitor 10) (serpin b10). [swissprot;acc:p48595]		2406	5078.5	1.03884	5275.76
bone morphogenetic protein 5 precursor (bmp-5). [swissprot;acc:p22003]		3069	0.00001	1	0.00001
bone morphogenetic protein 6 precursor (bmp-6). [swissprot;acc:p22004]		2896
bone morphogenetic protein 7 precursor (bmp-7) (osteogenic protein 1) (op-1). [swissprot;acc:p18075]		3128
bone morphogenetic protein 8 precursor (bmp-8) (osteogenic protein 2) (op-2). [swissprot;acc:p34820]	0	74	501.151	1.71473	859.34
	1	2773	0.00001	1	0.00001
brachyury protein (t protein). [swissprot;acc:o15178]		1631	6179.59	1.07016	6613.15
brain protein 16. [refseq;acc:nm_016458]	0	274	2155.75	1.12172	2418.14
	1	1923	5774.02	1.06217	6133.01
brain protein 44. [swissprot;acc:o95563]		328	15999.1	1.18801	19007.1
branched-chain amino acid aminotransferase, cytosolic (ec 2.6.1.42) (bcat(c)) (eca39 protein). [swissprot;acc:p54687]		1213	5890.62	1.08588	6396.53
branched-chain amino acid aminotransferase, mitochondrial precursor (ec 2.6.1.42) (bcat(m)) (placental protein 18) (pp18). [swissprot;acc:o15382]		1215	5892.05	1.08575	6397.28
brca1 associated protein. [refseq;acc:nm_006768]	0	502	0.00001	1	0.00001
	1	3161
brca1-associated ring domain protein 1 (bard-1). [swissprot;acc:q99728]		1939	5669.9	1.061	6015.75
brca2 and cdkn1a-interacting protein isoform bccipalpha; brca2 and cdkn1a-interacting protein; cdk inhibitor p21 binding protein; bccipalpha; bccipbeta; tok-1alpha; tok-1beta. [refseq;acc:nm_016567]		2116	3672.49	1.0546	3482.34
breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]		173	4579.34	1.29727	5940.64
breast cancer type 1 susceptibility protein. [swissprot;acc:p38398]		2442	5454.62	1.0336	5637.88
breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872]		418	5493.1	1.15603	6350.19
brefeldin a-inhibited guanine nucleotide-exchange protein 1 (brefeldin a-inhibited gep 1) (p200 arf-gep1) (p200 arf guanine nucleotide exchange factor). [swissprot;acc:q9y6d6]		1425	5628.53	1.0773	6063.61
brefeldin a-inhibited guanine nucleotide-exchange protein 2 (brefeldin a-inhibited gep 2). [swissprot;acc:q9y6d5]		1423
brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [refseq;acc:nm_020732]		443	6252.27	1.15038	7192.51
bromodomain and phd finger-containing protein 3 (fragment). [swissprot;acc:q9uld4]		3149	0.00001	1	0.00001
bromodomain containing 7; bromodomain protein; bromodomain-containing 7. [refseq;acc:nm_013263]		1925	7260.23	1.06213	7711.29
bromodomain-containing protein 1 (br140-like protein). [swissprot;acc:o95696]		3139	0.00001	1	0.00001
bromodomain-containing protein 2 (ring3 protein) (o27.1.1). [swissprot;acc:p25440]		1892	5438.52	1.06334	5783.01
bromodomain-containing protein 3 (ring3-like protein). [swissprot;acc:q15059]		1891	5438.18		5782.62
bromodomain-containing protein 4 (hunk1 protein). [swissprot;acc:o60885]		1888	5438.6	1.06335	5783.11
bs4 protein (ny-ren-18 antigen). [swissprot;acc:q9y5a7]		3214	0.00001	1	0.00001
bullous pemphigoid antigen 1 isoforms 1/2/3/4/5/8 (230 kda bullous pemphigoid antigen) (bpa) (hemidesmosomal plaque protein) (dystonia musculorum protein) (fragment). [swissprot;acc:q03001]		2664	4608.91	1.00702	4576.78
bup protein. [refseq;acc:nm_012071]		2911	0.00001	1	0.00001
bystin. [swissprot;acc:q13895]	0	343	2930.88	1.0699	3135.76
	1	950	4280.99	1.09718	4697.02
c-1-tetrahydrofolate synthase, cytoplasmic (c1-thf synthase) [includes: methylenetetrahydrofolate dehydrogenase (ec 1.5.1.5); methenyltetrahydrofolate cyclohydrolase (ec 3.5.4.9); formyltetrahydrofolate synthetase (ec 6.3.4.3)]. [swissprot;acc:p11586]		2102	4860.34	1.05493	5127.3
c-jun-amino-terminal kinase interacting protein 3 (jnk-interacting protein 3) (jip-3) (jnk map kinase scaffold protein 3) (mitogen- activated protein kinase 8-interacting protein 3). [swissprot;acc:q9upt6]		1962	5941.24	1.06001	6297.78
c-terminal binding protein 1 (ctbp1). [swissprot;acc:q13363]		1638	9895.77	1.07002	9248.18
c-terminal binding protein 2 (ctbp2). [swissprot;acc:p56545]		1630	9903.22	1.07018	9253.79
c-type lectin superfamily member 1 precursor (cartilage-derived c-type lectin). [swissprot;acc:o75596]		488	10872.4	1.14483	12447
c1 domain-containing phosphatase and tensin-like protein isoform 2; putative protein tyrosine phosphatase; c1 domain-containing phosphatase and tensin-like protein; tensin 2. [refseq;acc:nm_015319]		1528	5869.97	1.07347	6301.24
c18b11 homolog (44.9kd). [refseq;acc:nm_152260]		707	5317.78	1.11781	5944.25
c316g12.2 (novel protein similar to predicted yeast, worm and archae- bacterial proteins) (similar to und313) (s. cervisiae) (hypothetical protein). [sptrembl;acc:q9ujk0]		2120	6951.29	1.05434	7329
c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	0	261	1295.81	1.12945	1463.55
	1	2174	3641.45	1.05152	3463.02
c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5]		2421	7355.46	1.0376	7088.93
ca2+-dependent endoplasmic reticulum nucleoside diphosphatase; apyrase; soluble calcium-activated nucleotidase scan-1. [refseq;acc:nm_138793]		874	9921.43	1.10278	10941.2
caax prenyl protease 1 homolog (ec 3.4.24.-) (prenyl protein-specific endoprotease 1) (farnesylated-proteins converting enzyme 1) (face-1) (zinc metalloproteinase ste24 homolog). [swissprot;acc:o75844]		941	4970.21	1.09761	5455.34

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.