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

Results: HTML CSV LaTeX

Showing element 308 to 357 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	description	Hugo	Network Comparison Type	Interaction Map	red	network_comparison	green
77	voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [swissprot;acc:q9y698]	CACNG2	Subtracted	High confidence	254.692	52.024	202.668
78	dna fragmentation factor 40 kda subunit (ec 3.-.-.-) (dff-40) (caspase-activated deoxyribonuclease) (caspase-activated dnase) (cad) (caspase-activated nuclease) (cpan). [swissprot;acc:o76075]	DFFB		Low confidence	233.922	18.613	215.309
	malignant cell expression-enhanced gene/tumor progression-enhanc. [refseq;acc:nm_024298]	LENG4	Divided		211	1.0978	231.635
	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1]	CACNG4	Subtracted	High confidence	254.691	52.023	202.668
	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [swissprot;acc:q8wxs5]	CACNG8	Divided		254.693	1.2567
79	amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410]	APBA1		Low confidence	229.144	1.09742	208.803
	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	DAB2IP	Subtracted		247.334	18.494	228.84
	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [swissprot;acc:o60359]	CACNG3	Divided	High confidence	254.693	1.2567	202.668
	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]	CACNG5	Subtracted		254.614	51.968	202.646
80	rad50-interacting protein 1. [refseq;acc:nm_021930]	RINT1	Divided	Low confidence	221.194	1.09499	202.005
	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]	SON	Subtracted	High confidence	294.053	51.491	242.562
	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]	no value		Low confidence	226.338	18.464	207.874
	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1]	CACNG4	Divided	High confidence	254.691	1.25669	202.668
81	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839]	HOMER2	Subtracted		252.371	50.355	202.016
	ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2]	RASAL2		Low confidence	247.087	18.394	228.693
	transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188]	TFDP2	Divided		227.623	1.09286	208.281
	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]	CACNG5		High confidence	254.614	1.25645	202.646
82	diacylglycerol kinase, eta isoform 1. [refseq;acc:nm_152910]	DGKH		Low confidence	226.981	1.09085	208.077
	guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775]	GNB5		High confidence	267.636	1.25304	335.359
	tbp-associated factor 2; taf2 rna polymerase ii, tata box binding protein (tbp)-associated factor, 150 kd; tata box binding protein (tbp)-associated factor, rna polymerase ii, b, 150kd; cofactor of initiator function, 150kd subunit. [refseq;acc:nm_003184]	TAF2	Subtracted	Low confidence	237.567	18.338	219.229
	ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807]	COQ7		High confidence	252.329	50.325	202.004
83	diacylglycerol kinase, delta (ec 2.7.1.107) (diglyceride kinase) (dgk-delta) (dag kinase delta) (130 kda diacylglycerol kinase) (fragment). [swissprot;acc:q16760]	DGKD	Divided	Low confidence	226.981	1.09085	208.077
	homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272]	HOMER1	Subtracted	High confidence	252.309	50.311	201.998
	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	MAGED4	Divided		88.2482	1.24949	110.265
	star-related lipid transfer protein 7 (stard7) (start domain- containing protein 7) (gtt1 protein). [swissprot;acc:q9nqz5]	STARD7	Subtracted	Low confidence	228.743	17.979	210.764
84	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	MAGEE2	Divided	High confidence	88.2482	1.24949	110.265
	homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838]	HOMER3	Subtracted		252.296	50.301	201.995
	oligophrenin 1. [swissprot;acc:o60890]	OPHN1		Low confidence	233.837	17.864	215.973
	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]	no value	Divided		226.338	1.08882	207.874
85	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]			High confidence	88.2482	1.24949	110.265
	oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1]	ARHGAP26	Subtracted	Low confidence	233.592	17.746	215.846
	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]	KCND2	Divided		225.735	1.08671	245.308
	sad1/unc-84 protein-like 1. [swissprot;acc:o94901]	UNC84A	Subtracted	High confidence	296.677	49.118	247.559
86	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]	DGCR14			335	49	286
	dna fragmentation factor 40 kda subunit (ec 3.-.-.-) (dff-40) (caspase-activated deoxyribonuclease) (caspase-activated dnase) (cad) (caspase-activated nuclease) (cpan). [swissprot;acc:o76075]	DFFB	Divided	Low confidence	233.922	1.08645	215.309
	leucine zipper domain protein. [refseq;acc:nm_024589]	ROGDI	Subtracted		221.996	16.824	238.82
	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	MAGEA11	Divided	High confidence	88.2482	1.24949	110.265
87	chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286]	RBM15B	Subtracted		249.663	48.6	298.263
	diacylglycerol kinase, theta (ec 2.7.1.107) (diglyceride kinase) (dgk- theta) (dag kinase theta). [swissprot;acc:p52824]	DGKQ		Low confidence	229.556	16.1	213.456
	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	MAGEA2B	Divided	High confidence	88.2482	1.24949	110.265
	potassium voltage-gated channel, shal-related subfamily, member 3 isoform 1; sha1-related potassium channel kv4.3; voltage-gated k+ channel; potassium ionic channel kv4.3; voltage-gated potassium channel kv4.3. [refseq;acc:nm_004980]	KCND3		Low confidence	225.545	1.08596	244.933
88	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	CPD	Subtracted		16	16	32
	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	no value	Divided	High confidence	88.2482	1.24949	110.265
	potassium voltage-gated channel, shal-related subfamily, member 1; shal-type potassium channel; voltage-gated potassium channel kv4.1. [refseq;acc:nm_004979]	KCND1		Low confidence	225.428	1.0855	244.701
	regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795]	RGS19	Subtracted	High confidence	249.663	48.6	298.263
89	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	MAGEA6	Divided		88.2482	1.24949	110.265
	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37]	RBM15	Subtracted		249.663	48.6	298.263
	retinoblastoma-associated factor 600. [refseq;acc:nm_020765]	UBR4		Low confidence	165.535	15.736	149.799
	star-related lipid transfer protein 7 (stard7) (start domain- containing protein 7) (gtt1 protein). [swissprot;acc:q9nqz5]	STARD7	Divided		228.743	1.0853	210.764
90	necdin. [swissprot;acc:q99608]	NDN		High confidence	88.2482	1.24949	110.265

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.