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

Results: HTML CSV LaTeX

Showing element 7412 to 7461 of 25824 in total

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

Rank	description	Value Type	red	green	network_comparison
1853	tubulin-tyrosine ligase. [refseq;acc:nm_153712]	Ranked	217.924	215.564	1.01095
1854	dna fragmentation factor 40 kda subunit (ec 3.-.-.-) (dff-40) (caspase-activated deoxyribonuclease) (caspase-activated dnase) (cad) (caspase-activated nuclease) (cpan). [swissprot;acc:o76075]	Rooted	62.7784	64.64	1.02965
	keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060]	Measured	6076.66	6463.14	1.0636
	translation initiation factor eif-2b epsilon subunit (eif-2b gdp-gtp exchange factor). [swissprot;acc:q13144]	Ranked	222.215	224.637	1.0109
	utrophin (dystrophin-related protein 1) (drp1) (drp). [swissprot;acc:p46939]	Squared	26167.1	28674.2	1.09581
1855	adamts-9 precursor (ec 3.4.24.-) (a disintegrin and metalloproteinase with thrombospondin motifs 9) (adam-ts 9) (adam-ts9). [swissprot;acc:q9p2n4]	Rooted	62.7784	64.64	1.02965
	g-rich sequence factor-1 (grsf-1). [swissprot;acc:q12849]	Ranked	217.891	215.542	1.0109
	keratin associated protein 4-2; keratin associated protein 4.2. [refseq;acc:nm_033062]	Measured	6076.66	6463.14	1.0636
	lipoamide acyltransferase component of branched-chain alpha-keto acid dehydrogenase complex, mitochondrial precursor (ec 2.3.1.-) (e2) (dihydrolipoamide branched chain transacylase) (bckad e2 subunit). [swissprot;acc:p11182]	Squared	26167.1	28674.2	1.09581
1856	dna fragmentation factor alpha subunit (dna fragmentation factor 45 kda subunit) (dff-45) (inhibitor of cad) (icad). [swissprot;acc:o00273]	Rooted	62.7784	64.64	1.02965
	dystrophin. [swissprot;acc:p11532]	Squared	26167.1	28674.2	1.09581
	heterogeneous nuclear ribonucleoprotein h3 (hnrnp h3) (hnrnp 2h9). [swissprot;acc:p31942]	Ranked	217.892	215.543	1.0109
	keratin associated protein 4.3 (fragment). [sptrembl;acc:q9byr4]	Measured	6076.66	6463.14	1.0636
1857	angiomotin. [refseq;acc:nm_133265]	Squared	26167.1	28674.2	1.09581
	ankyrin 3 (ank-3) (ankyrin g). [swissprot;acc:q12955]	Rooted	62.7784	64.64	1.02965
	keratin associated protein 2-4; keratin associated protein 2.4. [refseq;acc:nm_033184]	Measured	6076.66	6463.15	1.0636
	translation initiation factor eif-2b gamma subunit (eif-2b gdp-gtp exchange factor). [swissprot;acc:q9nr50]	Ranked	222.215	224.637	1.0109
1858	angiomotin like 2; leman coiled-coil protein; angiomotin-like protein 2. [refseq;acc:nm_016201]	Squared	26167.1	28674.2	1.09581
	ankyrin 2 (brain ankyrin) (ankyrin b) (ankyrin, nonerythroid). [swissprot;acc:q01484]	Rooted	62.7784	64.64	1.02965
	heterogeneous nuclear ribonucleoprotein f (hnrnp f). [swissprot;acc:p52597]	Ranked	217.893	215.545	1.01089
	keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059]	Measured	6076.66	6463.13	1.0636
1859	adp-ribosylation factor-like protein 3. [swissprot;acc:p36405]	Rooted	62.7784	64.64	1.02965
	alpha-1-syntrophin (59 kda dystrophin-associated protein a1, acidic component 1) (pro-tgf-alpha cytoplasmic domain-interacting protein 1) (tacip1) (syntrophin 1). [swissprot;acc:q13424]	Squared	26167.1	28674.2	1.09581
	heterogeneous nuclear ribonucleoprotein h (hnrnp h). [swissprot;acc:p31943]	Ranked	217.895	215.547	1.01089
	keratin associated protein 4.9 (fragment). [sptrembl;acc:q9byq8]	Measured	6076.66	6463.13	1.0636
1860	dystrobrevin beta (beta-dystrobrevin) (dtn-b). [swissprot;acc:o60941]	Squared	26167.2	28674.1	1.0958
	heterogeneous nuclear ribonucleoprotein h' (hnrnp h') (ftp-3). [swissprot;acc:p55795]	Ranked	217.895	215.547	1.01089
	keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854]	Measured	6076.66	6463.13	1.0636
	unc-119 protein homolog (retinal protein 4) (hrg4). [swissprot;acc:q13432]	Rooted	62.7784	64.64	1.02965
1861	26s proteasome non-atpase regulatory subunit 8 (26s proteasome regulatory subunit s14) (p31). [swissprot;acc:p48556]
	beta-catenin (pro2286). [swissprot;acc:p35222]	Squared	26746.2	29303.5	1.09561
	cytochrome b5 reductase b5r.2. [refseq;acc:nm_016229]	Ranked	210.856	213.147	1.01087
	keratin associated protein 1.5. [refseq;acc:nm_031957]	Measured	6076.66	6463.14	1.0636
1862	cytochrome b5 reductase 1 (b5r.1). [refseq;acc:nm_016243]	Ranked	210.856	213.147	1.01087
	dna-directed rna polymerase ii 23 kda polypeptide (ec 2.7.7.6) (rpb25) (xap4) (rpb5) (rpabc1). [swissprot;acc:p19388]	Squared	14336.6	15706.2	1.09553
	mitochondrial 28s ribosomal protein s22 (s22mt) (mrp-s22) (gk002). [swissprot;acc:p82650]	Rooted	63.2302	65.1018	1.0296
	star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095]	Measured	6076.66	6463.13	1.0636
1863	g-rich sequence factor-1 (grsf-1). [swissprot;acc:q12849]	Squared	26779	29336.9	1.09552
	keratin, ultra high-sulfur matrix protein b (uhs keratin b) (uhs kerb). [swissprot;acc:o75690]	Measured	6076.66	6463.14	1.0636
	nadh-cytochrome b5 reductase (ec 1.6.2.2) (b5r). [swissprot;acc:p00387]	Ranked	210.856	213.147	1.01087
	nefa-interacting nuclear protein nip30. [refseq;acc:nm_024946]	Rooted	63.2302	65.1018	1.0296
1864	fuse-binding protein-interacting repressor isoform b; siah binding protein 1; pyrimidine tract binding splicing factor; ro ribonucleoprotein-binding protein 1; poly-u binding splicing factor puf60. [refseq;acc:nm_014281]	Ranked	203.071	200.89	1.01086
	heterogeneous nuclear ribonucleoprotein h3 (hnrnp h3) (hnrnp 2h9). [swissprot;acc:p31942]	Squared	26778.4	29336.2	1.09552
	keratin, ultra high-sulfur matrix protein a (uhs keratin a) (uhs kera). [swissprot;acc:p26371]	Measured	6076.66	6463.14	1.0636
	lim homeobox transcription factor 1 alpha (lim/homeobox protein lmx1a) (lim-homeobox protein 1.1) (lmx-1.1). [swissprot;acc:q8te12]	Rooted	63.2302	65.1018	1.0296
1865	eukaryotic translation initiation factor 2 subunit 3 (eukaryotic translation initiation factor 2 gamma subunit) (eif-2-gamma). [swissprot;acc:p41091]	Ranked	221.639	224.046	1.01086
	heterogeneous nuclear ribonucleoprotein f (hnrnp f). [swissprot;acc:p52597]	Squared	26777.3	29334.8	1.09551
	mitochondrial precursor proteins import receptor (translocase of outer membrane tom70). [swissprot;acc:o94826]	Rooted	63.2302	65.1018	1.0296
	star-related lipid transfer protein 5 (stard5) (start domain- containing protein 5). [swissprot;acc:q9nsy2]	Measured	6076.66	6463.12	1.0636
1866	heterogeneous nuclear ribonucleoprotein h (hnrnp h). [swissprot;acc:p31943]	Squared	26776.3	29333.6	1.09551

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.