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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

Results: HTML CSV LaTeX

Showing element 1308 to 1357 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Value Type	Network Comparison Type	red	green	network_comparison
164	HOXD4	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016]	Squared	Divided	173408	242989	1.40126
	MAGEA9	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	Measured		23693.7	18263	1.29736
	MSI2	musashi 2 isoform a. [refseq;acc:nm_138962]	Rooted	Subtracted	54.9787	66.2416	11.2629
	MXD1	mad protein (max dimerizer). [swissprot;acc:q05195]		Divided	55.646	65.1534	1.17086
	SLC39A6	liv-1 protein, estrogen regulated. [refseq;acc:nm_012319]	Ranked		209.299	249.187	1.19058
165	CLEC3B	tetranectin precursor (tn) (plasminogen-kringle 4 binding protein). [swissprot;acc:p05452]	Squared	Subtracted	59016.1	75486.9	16470.8
	GAD2	glutamate decarboxylase, 65 kda isoform (ec 4.1.1.15) (gad-65) (65 kda glutamic acid decarboxylase). [swissprot;acc:q05329]	Ranked	Divided	209.299	249.187	1.19058
	HOXB5	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067]	Squared		173408	242989	1.40126
	MAGEA8	melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]	Measured		23693.7	18263	1.29736
	MSI1	musashi 1. [refseq;acc:nm_002442]	Rooted	Subtracted	54.9787	66.2416	11.2629
	MXI1	max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]		Divided	55.6486	65.1478	1.1707
	PYGB	glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]	Measured	Subtracted	4489.19	2765.82	1723.37
	SPATA6	spermatogenesis associated 6. [refseq;acc:nm_019073]	Ranked		133	105	28
166	CTBP2	c-terminal binding protein 2 (ctbp2). [swissprot;acc:p56545]	Squared		69201.8	53013.4	16188.4
	HOXA5	homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719]		Divided	173408	242989	1.40126
	MAGEC1	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]	Measured		23693.7	18263	1.29736
	MXD4	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	Rooted		55.6495	65.1458	1.17064
	NAPG	gamma-soluble nsf attachment protein (snap-gamma) (n-ethylmaleimide- sensitive factor attachment protein, gamma). [swissprot;acc:q99747]	Ranked		209.299	249.187	1.19058
	NEUROD4	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]		Subtracted	312	284	28
	PYGL	glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]	Measured		4489.19	2765.82	1723.37
	ZC3H14	nuclear protein ukp68. [refseq;acc:nm_024824]	Rooted		54.9787	66.2416	11.2629
167	no value	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	Squared	Divided	173408	242989	1.40126
	AMPD2	amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]	Ranked	Subtracted	133	105	28
	CANT1	ca2+-dependent endoplasmic reticulum nucleoside diphosphatase; apyrase; soluble calcium-activated nucleotidase scan-1. [refseq;acc:nm_138793]	Squared		64975.9	81151.2	16175.3
	FLNB	filamin b, beta (actin binding protein 278); beta filamin; filamin 1 (actin-binding protein-280)-like; filamin b, beta (actin-binding protein-278); filamin b, beta. [refseq;acc:nm_001457]	Rooted		55.6161	66.7332	11.1171
	GAD1	glutamate decarboxylase, 67 kda isoform (ec 4.1.1.15) (gad-67) (67 kda glutamic acid decarboxylase). [swissprot;acc:q99259]	Ranked	Divided	209.299	249.187	1.19058
	MAGEA4	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]	Measured		23693.7	18263	1.29736
	MYO15A	myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7]		Subtracted	4489.19	2765.82	1723.37
	RAB24	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]	Rooted	Divided	55.65	65.1448	1.17062
168	no value	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	Ranked		82.5916	98.0548	1.18722
		melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]	Measured		23693.7	18263	1.29736
	BCL6B	b-cell cll/lymphoma 6, member b (zinc finger protein); zinc finger protein 62. [refseq;acc:nm_181844]	Squared	Subtracted	69165.6	52992.1	16173.5
	CHD5	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]	Ranked		312	284	28
	HSD17B14	retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246]	Squared	Divided	173408	242989	1.40126
	PYGM	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]	Measured	Subtracted	4489.19	2765.82	1723.37
	REV1	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]	Rooted		55.6161	66.7332	11.1171
	SNRPD3	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]		Divided	56.3709	65.8949	1.16895
169	no value	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	Measured	Subtracted	4245.52	5942.75	1697.23
	ATG3	apg3p; pc3-96 protein. [refseq;acc:nm_022488]	Ranked	Divided	82.5916	98.0548	1.18722
	CDK2AP1	cyclin-dependent kinase 2-associated protein 1 (cdk2-associated protein 1) (putative oral cancer suppressor) (deleted in oral cancer- 1) (doc-1). [swissprot;acc:o14519]		Subtracted	312	284	28
	COPS3	cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653]	Rooted	Divided	62.762	53.7761	1.1671
	MAGEA10	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	Measured		23693.7	18263	1.29736
	PASK	pas domain containing serine/threonine kinase; pas-serine/threonine kinase. [refseq;acc:nm_015148]	Squared	Subtracted	69165	52991.7	16173.3
	PRMT1	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	Rooted		55.6161	66.7332	11.1171
	SYMPK	symplekin. [swissprot;acc:q92797]	Squared	Divided	124118	88668.8	1.39979
170	no value	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	Measured	Subtracted	4247.86	5941.88	1694.02
	B9D1	b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681]	Rooted	Divided	53.4993	45.9227	1.16499
	BCL6	b-cell lymphoma 6 protein (bcl-6) (zinc finger protein 51) (laz-3 protein) (bcl-5). [swissprot;acc:p41182]	Squared	Subtracted	69165	52991.7	16173.3
	CTPS2	cytidine triphosphate synthase ii; ctp synthetase type 2; utp-ammonia ligase; ctp synthetase isoform; cytidine 5'-triphosphate synthetase 2. [refseq;acc:nm_019857]		Divided	96730.5	69286.7	1.39609
	MAGEB4	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	Measured		23693.7	18263	1.29736

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
- Hugo is the HGNC identifier if it exists
- 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.