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.

MK5 Proteome Analysis - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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

Results: HTML CSV LaTeX

Showing element 977 to 1026 of 3228 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	green	red	network_comparison
977	prefoldin subunit 5 (c-myc binding protein mm-1) (myc modulator 1). [swissprot;acc:q99471]	221.421	228.953	1.03402
978	prefoldin subunit 6 (protein ke2). [swissprot;acc:o15212]
979	gcn5-like protein 1 (rt14 protein). [swissprot;acc:p78537]	195.386	202.027	1.03399
980	b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [swissprot;acc:p15056]	134.713	130.289	1.03396
981	exocyst complex component sec6. [swissprot;acc:o60645]	200.398	207.186	1.03387
982	cirhin; testis expressed gene 292; cirrhosis, autosomal recessive 1a. [refseq;acc:nm_032830]	235.351	243.312	1.03383
983	pbk1 protein. [sptrembl;acc:o76021]	235.353		1.03382
984	poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003]	120.654	116.71	1.03379
985	programmed cell death protein 5 (tfar19 protein) (tf-1 cell apoptosis related gene-19 protein). [swissprot;acc:o14737]	225.782	233.402	1.03375
986	exocyst complex component sec5. [swissprot;acc:q96kp1]	120.707	116.771	1.03371
987	serine protease htra2, mitochondrial precursor (ec 3.4.21.-) (high temperature requirement protein a2) (htra2) (omi stress-regulated endoprotease) (serine proteinase omi). [swissprot;acc:o43464]	211.338	218.459	1.03369
988	probable serine protease htra4 precursor (ec 3.4.21.-). [swissprot;acc:p83105]	211.343	218.461	1.03368
989	probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110]	211.345	218.462	1.03367
990	atp-dependent rna helicase rok1; atp-dependent rna helicase. [refseq;acc:nm_007010]	235.373	243.297
991	dolichol-phosphate mannosyltransferase (ec 2.4.1.83) (dolichol- phosphate mannose synthase) (dolichyl-phosphate beta-d- mannosyltransferase) (mannose-p-dolichol synthase) (mpd synthase) (dpm synthase). [swissprot;acc:o60762]	196.76	203.381	1.03365
992	serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]	211.357	218.468	1.03364
993	pinin, desmosome associated protein; pinin. [refseq;acc:nm_002687]	204.205	211.071	1.03362
994	poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3]	120.772	116.845	1.03361
995	mitotic spindle assembly checkpoint protein mad2b (mad2-like 2) (hrev7). [swissprot;acc:q9ui95]	212.547	219.656	1.03345
996	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]
997	nuclear pore complex protein nup88 (nucleoporin nup88) (88 kda nuclear pore complex protein). [swissprot;acc:q99567]
998	dynein intermediate chain 2, cytosolic (dh ic-2) (cytoplasmic dynein intermediate chain 2). [swissprot;acc:q13409]	218.271	225.557	1.03338
999	vinculin (metavinculin). [swissprot;acc:p18206]	208.95	215.92	1.03336
1000	sprouty homolog 4 (spry-4). [swissprot;acc:q9c004]	217.922	225.167	1.03325
1001	sprouty homolog 3 (spry-3). [swissprot;acc:o43610]
1002	sprouty homolog 1 (spry-1) (fragment). [swissprot;acc:o43609]
1003	sprouty homolog 2 (spry-2). [swissprot;acc:o43597]
1004	sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633]	231.059	238.725	1.03318
1005	dynein intermediate chain 1, cytosolic (dh ic-1) (cytoplasmic dynein intermediate chain 1). [swissprot;acc:o14576]	218.232	225.448	1.03307
1006	cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6]	120.375	116.524	1.03305
1007	ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967]	156.884	162.055	1.03296
1008	wd-repeat protein bing4. [swissprot;acc:o15213]	235.475	243.227	1.03292
1009	dihydropyrimidine dehydrogenase [nadp+] precursor (ec 1.3.1.2) (dpd) (dhpdhase) (dihydrouracil dehydrogenase) (dihydrothymine dehydrogenase). [swissprot;acc:q12882]	221.823	229.116	1.03288
1010	peroxisomal carnitine octanoyltransferase (ec 2.3.1.-) (cot). [swissprot;acc:q9ukg9]	210.648	217.523	1.03264
1011	retinoblastoma-like protein 2 (130 kda retinoblastoma-associated protein) (prb2) (p130) (rbr-2). [swissprot;acc:q08999]	210.189	217.026	1.03253
1012	retinoblastoma-like protein 1 (107 kda retinoblastoma-associated protein) (prb1) (p107). [swissprot;acc:p28749]	210.185	217.021	1.03252
1013	protein bap28. [swissprot;acc:q9h583]	236.647	244.312	1.03239
1014	apoptosis antagonizing transcription factor. [refseq;acc:nm_012138]	235.422	243.045	1.03238
1015	bai1-associated protein 1; ww domain-containing protein 3; atrophin-1 interacting protein 3. [refseq;acc:nm_004742]	228.906	221.73	1.03236
1016	importin alpha-4 subunit (karyopherin alpha-4 subunit) (qip1 protein). [swissprot;acc:o00629]	210.561	217.369	1.03233
1017	target of egr1, member 1 (nuclear); target of egr1, member 1. [refseq;acc:nm_025077]	210.558	217.365
1018	importin alpha-3 subunit (karyopherin alpha-3 subunit) (srp1-gamma). [swissprot;acc:o00505]	210.554	217.361
1019	tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677]	214.409	221.302	1.03215
1020	dopachrome tautomerase precursor (ec 5.3.3.12) (dt) (dct) (dopachrome delta-isomerase) (tyrosinase-related protein 2) (trp-2) (trp2). [swissprot;acc:p40126]		221.28	1.03205
1021	5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643]		221.278	1.03204
1022	cystathionine beta-synthase (ec 4.2.1.22) (serine sulfhydrase) (beta-thionase). [swissprot;acc:p35520]	199.266	205.632	1.03195
1023	transforming protein rhoc (h9). [swissprot;acc:p08134]
1024	thiosulfate sulfurtransferase (ec 2.8.1.1) (rhodanese). [swissprot;acc:q16762]
1025	3-mercaptopyruvate sulfurtransferase (ec 2.8.1.2) (mst). [swissprot;acc:p25325]
1026	transforming protein rhoa (h12). [swissprot;acc:p06749]

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.