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

Results: HTML CSV LaTeX

Showing element 2208 to 2257 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

description	Rank	Network Comparison Type	Hugo	red	green	network_comparison
gdp-mannose pyrophosphorylase a; mannose-1-phosphate guanylyltransferase (gdp). [refseq;acc:nm_013335]	1894	Divided	GMPPA	222.842	225.17	1.01045
gdp-mannose pyrophosphorylase b isoform 1; mannose-1-phosphate guanylyltransferase; amphoterin induced gene 3. [refseq;acc:nm_013334]	1857	Subtracted	GMPPB			2.328
	1893	Divided				1.01045
general control of amino acid synthesis protein 5-like 2 (ec 2.3.1.-) (histone acetyltransferase gcn5) (hsgcn5). [swissprot;acc:q92830]	2732		GCN5L2	202.233	202.175	1.00029
		Subtracted				0.058
general vesicular transport factor p115 (transcytosis associated protein) (tap) (vesicle docking protein). [swissprot;acc:o60763]	1890		USO1	220.659	218.452	2.207
	1923	Divided				1.0101
geranylgeranyl pyrophosphate synthetase (ggpp synthetase) (ggppsase) (geranylgeranyl diphosphate synthase) [includes: dimethylallyltransferase (ec 2.5.1.1); geranyltranstransferase (ec 2.5.1.10); farnesyltranstransferase (ec 2.5.1.29)]. [swissprot;acc:o95749]	2520	Subtracted	GGPS1	236.51	236.008	0.502
	2536	Divided				1.00213
geranylgeranyl transferase type i beta subunit (ec 2.5.1.-) (type i protein geranyl-geranyltransferase beta subunit) (ggtase-i-beta). [swissprot;acc:p53609]	1358	Subtracted	PGGT1B	225.039	229.573	4.534
	1438	Divided				1.02015
geranylgeranyl transferase type ii beta subunit (ec 2.5.1.-) (rab geranylgeranyltransferase beta subunit) (rab geranyl- geranyltransferase beta subunit) (rab gg transferase beta) (rab ggtase beta). [swissprot;acc:p53611]	2963		RABGGTB	0.00001	0.00001	1
		Subtracted		0	0	0
germ cell specific y-box binding protein; contrin. [refseq;acc:nm_015982]	2679		YBX2	208.438	208.635	0.197
	2685	Divided				1.00095
germ cell-less. [refseq;acc:nm_022471]	1780		no value	206.335	203.877	1.01206
	1804	Subtracted				2.458
gk001 protein. [refseq;acc:nm_020198]	2704	Divided	CCDC47	188.435	188.311	1.00066
	2712	Subtracted				0.124
glia maturation factor gamma (gmf-gamma). [swissprot;acc:o60234]	1323		GMFG	216.542	211.908	4.634
	1373	Divided				1.02187
glioma pathogenesis-related protein (glipr) (rtvp-1 protein). [swissprot;acc:p48060]	2953		GLIPR1	0.00001	0.00001	1
		Subtracted		0	0	0
glioma tumor suppressor candidate region gene 2 protein (p60). [swissprot;acc:q9nzm5]	3104	Divided	SNORD23	0.00001	0.00001	1
		Subtracted		0	0	0
glioma-amplified sequence-41; numa binding protein 1. [refseq;acc:nm_006530]	3007	Divided	YEATS4	0.00001	0.00001	1
		Subtracted		0	0	0
glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 1 (ec 2.6.1.16) (hexosephosphate aminotransferase 1) (d-fructose-6- phosphate amidotransferase 1) (gfat 1) (gfat1). [swissprot;acc:q06210]	2058		no value	222.548	224.293	1.745
	2084	Divided				1.00784
glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 2 (ec 2.6.1.16) (hexosephosphate aminotransferase 2) (d-fructose-6- phosphate amidotransferase 2) (gfat 2) (gfat2). [swissprot;acc:o94808]	2063	Subtracted	GFPT2	222.609	224.344	1.735
	2090	Divided				1.00779
glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926]	3058		GNPDA1	0.00001	0.00001	1
		Subtracted		0	0	0
glucosamine-6-phosphate isomerase. [refseq;acc:nm_138335]	2861	Divided	GNPDA2	0.00001	0.00001	1
		Subtracted		0	0	0
glucose-6-phosphate 1-dehydrogenase (ec 1.1.1.49) (g6pd). [swissprot;acc:p11413]	1686		G6PD	216.079	219.024	2.945
	1701	Divided				1.01363
glucose-6-phosphate isomerase (ec 5.3.1.9) (gpi) (phosphoglucose isomerase) (pgi) (phosphohexose isomerase) (phi) (neuroleukin) (nlk) (sperm antigen-36) (sa-36). [swissprot;acc:p06744]	1441	Subtracted	GPI	217.704	221.839	4.135
	1491	Divided				1.01899
glutamate carboxypeptidase-like protein 2 precursor. [swissprot;acc:q96kn2]	2361	Subtracted	CNDP1	208.958	209.82	0.862
	2365	Divided				1.00413
glutamate decarboxylase, 65 kda isoform (ec 4.1.1.15) (gad-65) (65 kda glutamic acid decarboxylase). [swissprot;acc:q05329]	109	Subtracted	GAD2	209.299	249.187	39.888
	165	Divided				1.19058
glutamate decarboxylase, 67 kda isoform (ec 4.1.1.15) (gad-67) (67 kda glutamic acid decarboxylase). [swissprot;acc:q99259]	111	Subtracted	GAD1			39.888
	167	Divided				1.19058
glutamate dehydrogenase 1, mitochondrial precursor (ec 1.4.1.3) (gdh). [swissprot;acc:p00367]	1444		GLUDP5	203.908	207.998	1.02006
	1450	Subtracted				4.09
glutamate dehydrogenase 2, mitochondrial precursor (ec 1.4.1.3) (gdh). [swissprot;acc:p49448]	1443	Divided	GLUD2			1.02006
	1449	Subtracted				4.09
glutamate--cysteine ligase catalytic subunit (ec 6.3.2.2) (gamma- glutamylcysteine synthetase) (gamma-ecs) (gcs heavy chain). [swissprot;acc:p48506]	1228		GCLC	213.079	218.325	5.246

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.