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

Results: HTML CSV LaTeX

Showing element 7764 to 7813 of 29840 in total

Value Type  : Ranked
Interaction Map  : High confidence

Rank	description	Network Comparison Type	Filtered	red	green	network_comparison
76	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [swissprot;acc:o60359]	Subtracted	1	254.693	202.668	52.025
77	nanos (fragment). [sptrembl;acc:q8wy41]		0	8782	11350	2568
	regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754]	Divided		8821.32	11366.5	1.28853
	voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [swissprot;acc:q9y698]		1	254.692	202.668	1.2567
		Subtracted				52.024
78	e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409]		0	7853.67	10406.3	2552.63
	repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273]	Divided		7584.72	9706.12	1.27969
	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1]	Subtracted	1	254.691	202.668	52.023
	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [swissprot;acc:q8wxs5]	Divided		254.693		1.2567
79	nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [swissprot;acc:q9h1b4]		0	9465.55	12106.5	1.27901
	regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754]	Subtracted		8821.32	11366.5	2545.18
	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [swissprot;acc:o60359]	Divided	1	254.693	202.668	1.2567
	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]	Subtracted		254.614	202.646	51.968
80	deltex homolog 1; hdx-1. [refseq;acc:nm_004416]	Divided	0	9102.34	11617.9	1.27636
		Subtracted				2515.56
	son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583]		1	294.053	242.562	51.491
	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1]	Divided		254.691	202.668	1.25669
81	collagen alpha 5(iv) chain precursor. [swissprot;acc:p29400]	Subtracted	0	7704.7	10174.1	2469.4
	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839]		1	252.371	202.016	50.355
	selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611]	Divided	0	14463	11356	1.2736
	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]		1	254.614	202.646	1.25645
82	dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6]		0	7706.5	6058	1.27212
	dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2]	Subtracted		14466.8	12031.7	2435.1
	guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775]	Divided	1	267.636	335.359	1.25304
	ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807]	Subtracted		252.329	202.004	50.325
83	homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272]			252.309	201.998	50.311
	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	Divided		88.2482	110.265	1.24949
	small nuclear ribonucleoprotein associated proteins b and b' (snrnp-b) (sm protein b/b') (sm-b/sm-b') (smb/smb'). [swissprot;acc:p14678]		0	18359.8	14447.8	1.27077
	transcription initiation factor iie, beta subunit (tfiie-beta). [swissprot;acc:p29084]	Subtracted		18079	15652	2427
84	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	Divided	1	88.2482	110.265	1.24949
	homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838]	Subtracted		252.296	201.995	50.301
	syntaxin 1a (neuron-specific antigen hpc-1). [swissprot;acc:q16623]	Divided	0	12460.6	15781	1.26647
	transketolase-like 1 (ec 2.2.1.1) (transketolase 2) (tk 2) (transketolase related protein). [swissprot;acc:p51854]	Subtracted		12946.3	10519.7	2426.6
85	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	Divided	1	88.2482	110.265	1.24949
	sad1/unc-84 protein-like 1. [swissprot;acc:o94901]	Subtracted		296.677	247.559	49.118
	transducin beta-like 2 protein (ws beta-transducin repeats protein) (ws-betatrp) (williams-beuren syndrome chromosome region 13 protein). [swissprot;acc:q9y4p3]	Divided	0	9688.47	12104.2	1.24934
		Subtracted				2415.73
86	alpha crystallin a chain. [swissprot;acc:p02489]			16372.4	13972.2	2400.2
	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]		1	335	286	49
	high mobility group protein 1 (hmg-1). [swissprot;acc:p09429]	Divided	0	5677.96	4546.87	1.24876
	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]		1	88.2482	110.265	1.24949
87	chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286]	Subtracted		249.663	298.263	48.6
	dj579f20.1 (high-mobility group (nonhistone chromosomal) protein 1-like 1). [sptrembl;acc:q9nqj4]	Divided	0	5677.89	4547.43	1.24859
	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]	Subtracted		16411.9	14027.1	2384.8
	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	Divided	1	88.2482	110.265	1.24949
88	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]
	high mobility group protein 1-like 10 (hmg-1l10). [swissprot;acc:q9ugv6]		0	5677.86	4547.66	1.24852
	muscle-specific beta 1 integrin binding protein. [refseq;acc:nm_014446]	Subtracted		12787.8	10454.7	2333.1
	regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795]		1	249.663	298.263	48.6
89	aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [swissprot;acc:p41181]		0	12049	14370.7	2321.7

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.