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

Results: HTML CSV LaTeX

Showing element 1008 to 1057 of 3228 in total

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

Rank	network_comparison	red	description	green
1008	1.09485	5707.73	single-minded homolog 1. [swissprot;acc:p81133]	6249.1
1009	1.0948	5791.82	synapsin iii. [swissprot;acc:o14994]	6340.86
1010			aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468]
1011			hairy/enhancer-of-split related with yrpw motif 1 (hairy and enhancer of split related-1) (hesr-1) (cardiovascular helix-loop-helix factor 2) (hes-related repressor protein 2 herp2). [swissprot;acc:q9y5j3]
1012			actin binding lim protein 2. [refseq;acc:nm_032432]
1013			hairy/enhancer-of-split related with yrpw motif-like. [refseq;acc:nm_014571]
1014			synapsin ii. [swissprot;acc:q92777]
1015			mitochondrial ribosome recycling factor. [refseq;acc:nm_138777]
1016			peroxisomal targeting signal 1 receptor (peroxismore receptor 1) (peroxisomal c-terminal targeting signal import receptor) (pts1-bp) (peroxin-5) (pts1 receptor). [swissprot;acc:p50542]
1017			hairy/enhancer-of-split related with yrpw motif 2; gridlock; hes-related repressor protein 1. [refseq;acc:nm_012259]
1018			transcription factor hes-1 (hairy and enhancer of split 1) (hairy- like) (hhl) (hairy homolog). [swissprot;acc:q14469]
1019			delta3,5-delta2,4-dienoyl-coa isomerase, mitochondrial precursor (ec 5.3.3.-). [swissprot;acc:q13011]
1020			actin-binding lim protein 1 isoform a; lim actin-binding protein 1; limatin; actin-binding lim protein. [refseq;acc:nm_002313]
1021			synapsin i (brain protein 4.1). [swissprot;acc:p17600]
1022	1.09475	6435.94	protein kinase clk2 (ec 2.7.1.-) (cdc-like kinase 2). [swissprot;acc:p49760]	7045.75
1023	1.09474	6435.02	protein kinase clk3 (ec 2.7.1.-) (cdc-like kinase 3). [swissprot;acc:p49761]	7044.65
1024	1.09446	5706.5	cysteine-rich protein 1 (cysteine-rich intestinal protein) (crip) (cysteine-rich heart protein) (hcrhp). [swissprot;acc:p50238]	6245.55
1025	1.09434	5511.96	phosphomannomutase 2 (ec 5.4.2.8) (pmm 2). [swissprot;acc:o15305]	6031.95
1026	1.09427	5509.89	phosphomannomutase 1 (ec 5.4.2.8) (pmm 1) (pmmh-22). [swissprot;acc:q92871]	6029.29
1027	1.09422	6123.15	s-adenosylmethionine synthetase gamma form (ec 2.5.1.6) (methionine adenosyltransferase) (adomet synthetase) (mat-ii). [swissprot;acc:p31153]	6700.05
1028	1.09421	5704	nicotinate-nucleotide pyrophosphorylase [carboxylating] (ec 2.4.2.19) (quinolinate phosphoribosyltransferase [decarboxylating]) (qaprtase) (qprtase). [swissprot;acc:q15274]	6241.36
1029	1.0942	5635.26	beta-catenin (pro2286). [swissprot;acc:p35222]	6166.09
1030	1.09419	5048.33	casein kinase i, epsilon isoform (ec 2.7.1.-) (cki-epsilon) (ckie). [swissprot;acc:p49674]	5523.85
1031	1.09418	6136.99	membrane protein expressed in epithelial-like lung adenocarcinoma. [refseq;acc:nm_024792]	6714.98
1032		6138.91	ran binding protein 11. [refseq;acc:nm_016338]	6717.05
1033	1.09417	6080.91	fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757]	6653.52
1034	1.09414	6152.88	s-adenosylmethionine synthetase alpha and beta forms (ec 2.5.1.6) (methionine adenosyltransferase) (adomet synthetase) (mat-i/iii). [swissprot;acc:q00266]	6732.12
1035	1.09407	5054.73	casein kinase i, delta isoform (ec 2.7.1.-) (cki-delta) (ckid). [swissprot;acc:p48730]	5530.23
1036	1.09404	6077.65	fructose-1,6-bisphosphatase (ec 3.1.3.11) (d-fructose-1,6-bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:p09467]	6649.22
1037	1.094	6544.26	monoglyceride lipase; lysophospholipase-like. [refseq;acc:nm_007283]	7159.43
1038	1.09348	5417.95	myb proto-oncogene protein (c-myb). [swissprot;acc:p10242]	5924.41
1039	1.09304	5418.92	myb-related protein b (b-myb). [swissprot;acc:p10244]	5923.09
1040	1.09298	5421.93	rna-binding region containing protein 2 (hepatocellular carcinoma protein 1) (splicing factor hcc1). [swissprot;acc:q14498]	5926.08
1041	1.09294	5419.18	myb-related protein a (a-myb). [swissprot;acc:p10243]	5922.84
1042	1.09287	5887.52	similar to lim domain only 7 (fragment). [sptrembl;acc:q8n6m2]	6434.32
1043	1.09283	6344.41	15 kda selenoprotein precursor. [swissprot;acc:o60613]	6933.36
1044	1.09279	4757.46	mbd2 (methyl-cpg-binding protein)-interacting zinc finger protein. [refseq;acc:nm_015517]	5198.91
1045		5364.32	immature colon carcinoma transcript 1 (digestion substraction 1) (ds- 1). [swissprot;acc:q14197]	5862.09
1046		4757.46	skeletal muscle tropomodulin (sk-tmod) (tropomodulin 4). [swissprot;acc:q9nzq9]	5198.91
1047			ubiquitous tropomodulin (u-tmod) (tropomodulin 3). [swissprot;acc:q9nyl9]
1048			tropomodulin 1 (erythrocyte tropomodulin) (e-tmod). [swissprot;acc:p28289]
1049			sorting nexin 9 (sh3 and px domain-containing protein 1) (sdp1 protein). [swissprot;acc:q9y5x1]
1050			neuronal tropomodulin (n-tmod) (tropomodulin 2). [swissprot;acc:q9nzr1]
1051			homeobox protein dlx-2. [swissprot;acc:q07687]
1052			homeobox protein dlx-5. [swissprot;acc:p56178]
1053			fetal brain protein 239 (239fb). [swissprot;acc:q15777]
1054			homeobox protein dlx-3. [swissprot;acc:o60479]
1055			activated p21cdc42hs kinase. [refseq;acc:nm_005781]
1056			mitogen-activated protein kinase kinase kinase 7 interacting protein 2 isoform 1; tak1-binding protein 2. [refseq;acc:nm_015093]
1057	1.0926	5412.23	tata element modulatory factor (tmf). [swissprot;acc:p82094]	5913.4

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.