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 401 to 450 of 33156 in total

Network Comparison Type  : Divided
Filtered  : 1

Rank	Hugo	description	Value Type	Interaction Map	red	green	network_comparison
51	GBAS	nipsnap2 protein (glioblastoma amplified sequence). [swissprot;acc:o75323]	Rooted	Low confidence	55.0884	62.0722	1.12677
	HOXC5	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]	Squared		122475	159767	1.30449
	JPH2	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	Ranked		234.802	260.98	1.11149
	KHDRBS2	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	Rooted	High confidence	27.7254	44.0299	1.58807
	NEUROD4	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]	Measured		779.167	1390.33	1.78438
	SPATA6	spermatogenesis associated 6. [refseq;acc:nm_019073]	Ranked		133	105	1.26667
	STAMBP	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]	Squared		28994.2	17134.8	1.69212
	XKR7	dj310o13.4 (novel protein similar to predicted c. elegans and c. intestinalis proteins) (fragment). [sptrembl;acc:q9nug5]	Measured	Low confidence	7563.09	8732.2	1.15458
52	no value	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Squared		122475	159767	1.30449
	AMPD2	amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]	Ranked	High confidence	133	105	1.26667
	ATG4B	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	Measured	Low confidence	13195.9	11486.4	1.14883
	CHD5	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]		High confidence	779.167	1390.33	1.78438
	NEURL	neuralized-like. [refseq;acc:nm_004210]	Rooted		27.9107	44.1656	1.58239
	NIPSNAP1	nipsnap1 protein. [swissprot;acc:q9bpw8]		Low confidence	55.133	62.1073	1.1265
	SMPD2	sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906]	Ranked		234.802	260.98	1.11149
	VPS24	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	Squared	High confidence	28994.2	17134.8	1.69212
53	BOK	bcl2-related ovarian killer. [refseq;acc:nm_032515]	Measured	Low confidence	4955.33	5659.35	1.14207
	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]		High confidence	779.167	1390.33	1.78438
	CHMP4A	protein hspc134 (protein cda04). [swissprot;acc:q9by43]	Squared		28994.2	17134.8	1.69212
	HOXD4	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016]		Low confidence	122475	159767	1.30449
	JUNB	transcription factor jun-b. [swissprot;acc:p17275]	Ranked	High confidence	201.144	158.868	1.26611
	JUND	transcription factor jun-d. [swissprot;acc:p17535]	Rooted	Low confidence	67.1245	75.5619	1.1257
	NDUFS4	nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [swissprot;acc:o43181]		High confidence	30.8986	46.4619	1.50369
	TMEM33	db83 protein. [swissprot;acc:p57088]	Ranked	Low confidence	234.802	260.98	1.11149
54	CPEB3	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]			267.448	240.822	1.11056
	DTX2	deltex 2. [refseq;acc:nm_020892]	Measured	High confidence	1618.84	2651.88	1.63814
	HOXB5	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067]	Squared	Low confidence	122475	159767	1.30449
	JUNB	transcription factor jun-b. [swissprot;acc:p17275]	Rooted		67.118	75.5523	1.12566
	JUND	transcription factor jun-d. [swissprot;acc:p17535]	Ranked	High confidence	200.941	158.941	1.26425
	MAGED4	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	Squared		219048	129762	1.68808
	SEPT8	septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599]	Measured	Low confidence	13203.5	15033.4	1.13859
	UFC1	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	Rooted	High confidence	40.0958	58.7986	1.46645
55	no value	60s ribosomal protein l37a. [swissprot;acc:p12751]		Low confidence	57.2649	64.3669	1.12402
	CPEB4	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Ranked		267.376	240.78	1.11046
	DTX1	deltex homolog 1; hdx-1. [refseq;acc:nm_004416]	Measured	High confidence	1629.21	2662.12	1.63399
	HOXA5	homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719]	Squared	Low confidence	122475	159767	1.30449
	KCND2	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]	Rooted	High confidence	41.6734	28.9323	1.44038
	MAGEE2	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	Squared		219048	129762	1.68808
	PRKRAP1	protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690]	Ranked		320.927	254.434	1.26134
	SEPT10	septin 10 isoform 1. [refseq;acc:nm_144710]	Measured	Low confidence	13081.2	14872.6	1.13694
56	no value	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]	Ranked	High confidence	266.856	336.233	1.25998
		homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	Squared	Low confidence	122475	159767	1.30449
		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Measured		15464.1	17572.7	1.13635
		melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	Squared	High confidence	219048	129762	1.68808
	CTH	cystathionine gamma-lyase (ec 4.4.1.1) (gamma-cystathionase). [swissprot;acc:p32929]	Rooted		41.6851	28.9509	1.43986
	GSTO2	ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]		Low confidence	62.7951	70.575	1.12389
	PBK	t-lak cell-originated protein kinase; spermatogenesis-related protein kinase; pdz-binding kinase; pbk; mapkk-like protein kinase; serine/threonine protein kinase. [refseq;acc:nm_018492]	Measured	High confidence	1631.67	2664.55	1.63302
	T	brachyury protein (t protein). [swissprot;acc:o15178]	Ranked	Low confidence	224.922	202.592	1.11022
57	FOS	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]			202.802	182.73	1.10985
	GNG12	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6]		High confidence	266.856	336.233	1.25998

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.