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 951 to 1000 of 3228 in total

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

Rank	description	green	red	network_comparison
951	triple functional domain protein (ptprf interacting protein). [swissprot;acc:o75962]	209.827	217.253	1.03539
952	target of myb1-like 2; target of myb1 (chicken) homolog-like 2. [refseq;acc:nm_144678]	209.83	217.252	1.03537
953	polymyositis/scleroderma autoantigen 2 (autoantigen pm/scl 2) (polymyositis/scleroderma autoantigen 100 kda) (pm/scl-100) (p100 polymyositis-scleroderma overlap syndrome associated autoantigen). [swissprot;acc:q01780]	205.466	198.494	1.03512
954	maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [swissprot;acc:o43708]	276.773	267.447	1.03487
955	mitochondrial 60s ribosomal protein l27 (l27mt) (hspc250). [swissprot;acc:q9p0m9]	239.205	231.163	1.03479
956	vinexin (sh3-containing adaptor molecule-1) (scam-1). [swissprot;acc:o60504]	204.732	211.812	1.03458
957	a-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (a-raf-1) (proto-oncogene pks). [swissprot;acc:p10398]	134.399	129.913	1.03453
958	raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (raf-1) (c-raf). [swissprot;acc:p04049]	134.406	129.921	1.03452
959	guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388]	229.677	237.558	1.03431
960	zuotin related factor-1 (m-phase phosphoprotein 11). [swissprot;acc:q99543]
961	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, epsilon isoform (pp2a, b subunit, b' epsilon isoform) (pp2a, b subunit, b56 epsilon isoform) (pp2a, b subunit, pr61 epsilon isoform) (pp2a, b subunit, r5 epsilon isoform). [swissprot;acc:q16537]	134.527	130.066	1.0343
962	cyclin g2. [swissprot;acc:q16589]
963	cyclin g1 (cyclin g). [swissprot;acc:p51959]
964	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, alpha isoform (pp2a, b subunit, b' alpha isoform) (pp2a, b subunit, b56 alpha isoform) (pp2a, b subunit, pr61 alpha isoform) (pp2a, b subunit, r5 alpha isoform). [swissprot;acc:q15172]
965	partitioning defective-6 homolog gamma (par-6 gamma) (par6d). [swissprot;acc:q9byg4]	204.964	211.987	1.03426
966	tubby protein homolog. [swissprot;acc:p50607]
967	protein kinase c, iota type (ec 2.7.1.37) (npkc-iota) (atypical protein kinase c-lamda/iota) (apkc-lambda/iota). [swissprot;acc:p41743]
968	numb protein homolog (h-numb) (protein s171). [swissprot;acc:p49757]
969	tbc1 domain family member 5. [swissprot;acc:q92609]
970	tubby related protein 1 (tubby-like protein 1). [swissprot;acc:o00294]
971	vacuolar protein sorting 29 (vesicle protein sorting 29) (hvps29) (mds007) (pep11) (dc7/dc15). [swissprot;acc:q9ubq0]
972	numb-like protein (numb-r). [swissprot;acc:q9y6r0]
973	tubby related protein 3 (tubby-like protein 3). [swissprot;acc:o75386]
974	vacuolar protein sorting 35 (vesicle protein sorting 35) (hvps35) (maternal-embryonic 3). [swissprot;acc:q96qk1]
975	protein kinase c, zeta type (ec 2.7.1.37) (npkc-zeta). [swissprot;acc:q05513]
976	t-cell activation wd repeat protein. [refseq;acc:nm_139281]	235.322	243.34	1.03407
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

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.