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

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

Results: HTML CSV LaTeX

Showing element 2827 to 2876 of 3228 in total

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

description	Rank	green	network_comparison	red
thiosulfate sulfurtransferase (ec 2.8.1.1) (rhodanese). [swissprot;acc:q16762]	1024	199.266	1.03195	205.632
thousand and one amino acid protein kinase. [refseq;acc:nm_004783]	2906	0.00001	1	0.00001
thrombospondin 3 precursor. [swissprot;acc:p49746]	227	269.234	1.12186	239.99
thymic stromal co-transporter. [refseq;acc:nm_033051]	472	267.226	1.07686	248.152
thymidine kinase 2, mitochondrial precursor (ec 2.7.1.21) (mt-tk). [swissprot;acc:o00142]	2837	0.00001	1	0.00001
thymidylate kinase (ec 2.7.4.9) (dtmp kinase). [swissprot;acc:p23919]	2104	207.813	1.00729	209.328
thymidylate synthase (ec 2.1.1.45) (ts) (tsase). [swissprot;acc:p04818]	1590	228.769	1.01621	225.119
thymus-specific serine protease precursor (ec 3.4.-.-). [swissprot;acc:q9nqe7]	2703	188.311	1.00066	188.435
thyroid receptor interacting protein 12 (trip12). [swissprot;acc:q14669]	1460	209.851	1.0196	205.817
thyroid receptor interacting protein 3 (trip-3) (fragment). [swissprot;acc:q15649]	1621	225.185	1.01521	228.611
tigger transposable element derived 1; jerky (mouse) homolog-like. [refseq;acc:nm_145702]	2816	0.00001	1	0.00001
tigger transposable element derived 6. [refseq;acc:nm_030953]	2853
tigger transposable element derived 7; jerky (mouse) homolog-like. [refseq;acc:nm_033208]	2944
tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	133	290	1.2069	350
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	132
toll-like receptor 2 precursor (toll/interleukin 1 receptor-like protein 4). [swissprot;acc:o60603]	2540	216.699	1.00205	217.144
topoisomerase (dna) ii binding protein. [refseq;acc:nm_007027]	2642	194.328	1.00119	194.097
topoisomerase-related function protein 4-2. [refseq;acc:nm_022447]	2073	227.433	1.00806	229.267
trabid protein. [swissprot;acc:q9ugi0]	3210	0.00001	1	0.00001
traf and tnf receptor-associated protein; ets1-associated protein 2. [refseq;acc:nm_016614]	2031	216.562	1.00879	218.466
trans-prenyltransferase; polyprenyl pyrophosphate synthetase. [refseq;acc:nm_014317]	2322	234.905	1.00476	236.023
transaldolase (ec 2.2.1.2). [swissprot;acc:p37837]	2364	213.697	1.00414	212.816
transcription elongation factor a protein 1 (transcription elongation factor s-ii protein 1) (transcription elongation factor tfiis.o). [swissprot;acc:p23193]	1619	231.246	1.01527	227.768
transcription elongation factor a protein 2 (transcription elongation factor s-ii protein 2) (testis-specific s-ii) (transcription elongation factor tfiis.l). [swissprot;acc:q15560]	1618
transcription factor 12 (transcription factor htf-4) (e-box-binding protein) (dna-binding protein htf4). [swissprot;acc:q99081]	2948	0.00001	1	0.00001
transcription factor 4 (immunoglobulin transcription factor 2) (itf-2) (sl3-3 enhancer factor 2) (sef-2). [swissprot;acc:p15884]	2940
transcription factor 8 (nil-2-a zinc finger protein) (negative regulator of il2). [swissprot;acc:p37275]	2279	190.909	1.00538	191.936
transcription factor ap-2 alpha (ap2-alpha) (activating enhancer- binding protein 2 alpha) (ap-2 transcription factor) (activator protein-2) (ap-2). [swissprot;acc:p05549]	2969	0.00001	1	0.00001
transcription factor ap-2 beta (ap2-beta) (activating enhancer-binding protein 2 beta). [swissprot;acc:q92481]	3220
transcription factor ap-2 gamma (ap2-gamma) (activating enhancer- binding protein 2 gamma) (transcription factor erf-1). [swissprot;acc:q92754]	3164
transcription factor btf3 (rna polymerase b transcription factor 3). [swissprot;acc:p20290]	865	203.814	1.03997	211.961
transcription factor btf3 homolog 3. [swissprot;acc:q13892]	870	203.832	1.03962	211.908
transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653]	1192	215.237	1.02558	220.742
transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]	406	244.304	1.08731	265.634
transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188]	374	244.168	1.09436	267.208
transcription factor e2-alpha (immunoglobulin enhancer binding factor e12/e47) (transcription factor-3) (tcf-3) (immunoglobulin transcription factor-1) (transcription factor itf-1) (kappa-e2-binding factor). [swissprot;acc:p15923]	3182	0.00001	1	0.00001
transcription factor e2f1 (e2f-1) (retinoblastoma binding protein 3) (rbbp-3) (prb-binding protein e2f-1) (pbr3) (retinoblastoma-associated protein 1) (rbap-1). [swissprot;acc:q01094]	384	244.236	1.09083	266.421
transcription factor e2f2 (e2f-2). [swissprot;acc:q14209]	385
transcription factor hes-1 (hairy and enhancer of split 1) (hairy- like) (hhl) (hairy homolog). [swissprot;acc:q14469]	666	216.576	1.0577	229.072
transcription factor iib. [refseq;acc:nm_013242]	823	197.471	1.04354	206.068
transcription factor iiia (factor a) (tfiiia). [swissprot;acc:q92664]	2486	218.72	1.00287	218.093
transcription factor iiib 90 kda subunit (tfiiib90) (htfiiib90) (b- related factor 1) (hbrf) (tata box-binding protein-associated factor, rna polymerase iii, subunit 2) (taf3b2). [swissprot;acc:q92994]	478	212.321	1.07409	228.051
transcription factor jun-b. [swissprot;acc:p17275]	53	158.868	1.26611	201.144
transcription factor jun-d. [swissprot;acc:p17535]	54	158.941	1.26425	200.941
transcription factor lbx1. [swissprot;acc:p52954]	157	298.263	1.19466	249.663
transcription factor maf (proto-oncogene c-maf). [swissprot;acc:o75444]	2792	0.00001	1	0.00001
transcription factor mafb (v-maf musculoaponeurotic fibrosarcoma oncogene homolog b). [swissprot;acc:q9y5q3]	2790
transcription factor maff (v-maf musculoaponeurotic fibrosarcoma oncogene homolog f) (u-maf). [swissprot;acc:q9ulx9]	2737	198.321	1.00022	198.278
transcription factor mafg (v-maf musculoaponeurotic fibrosarcoma oncogene homolog g) (hmaf). [swissprot;acc:o15525]	2736
transcription factor mafk (erythroid transcription factor nf-e2 p18 subunit). [swissprot;acc:o60675]	2738

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.