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.

MK5 Proteome Analysis - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 1318 to 1367 of 66312 in total

Filtered  : 1

Rank	description	Value Type	Network Comparison Type	Interaction Map	red	green	network_comparison
83	homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272]	Ranked	Subtracted	High confidence	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
	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	Measured	Subtracted	Low confidence	11285.3	10318.5	966.8
	protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236]			High confidence	21644.2	18098.7	3545.5
	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]		Divided		4932.27	7033.29	1.42597
	segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640]			Low confidence	7030.67	7794.8	1.10869
	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, alpha isoform (pp2a, b subunit, b' alpha isoform) (pp2a, b subunit, b56 alpha isoform) (pp2a, b subunit, pr61 alpha isoform) (pp2a, b subunit, r5 alpha isoform). [swissprot;acc:q15172]	Squared		High confidence	117718	70505.9	1.66962
	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, beta isoform (pp2a, subunit a, pr65-beta isoform) (pp2a, subunit a, r1-beta isoform). [swissprot;acc:p30154]	Rooted			63.6507	48.7127	1.30666
	set and mynd domain containing protein 1. [sptrembl;acc:q8nb12]		Subtracted	Low confidence	59.2532	66.0541	6.8009
	star-related lipid transfer protein 7 (stard7) (start domain- containing protein 7) (gtt1 protein). [swissprot;acc:q9nqz5]	Ranked			228.743	210.764	17.979
		Rooted	Divided		61.8872	67.9229	1.09753
84	amino acid transporter xat2; likely ortholog of mouse aspartate/glutamate transporter 1 (agt1). [refseq;acc:nm_138817]		Subtracted		68.7629	75.4877	6.7248
	b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [swissprot;acc:p15056]	Squared	Divided	High confidence	117515	70412.3	1.66896
	c-terminal binding protein 1 (ctbp1). [swissprot;acc:q13363]		Subtracted	Low confidence	82257.5	72122.5	10135
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798]	Rooted		High confidence	40.3358	24.2919	16.0439
	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	Ranked	Divided		88.2482	110.265	1.24949
	homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838]		Subtracted		252.296	201.995	50.301
	jun dimerization protein. [refseq;acc:nm_130469]	Measured	Divided		4932.27	7033.29	1.42597
	melanoma antigen, family b, 6. [refseq;acc:nm_173523]		Subtracted	Low confidence	11285.3	10318.5	966.8
	nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952]	Rooted	Divided	High confidence	46.7419	60.9337	1.30362
	nucleolin (protein c23). [swissprot;acc:p19338]	Squared		Low confidence	70162	58112.6	1.20735
	oligophrenin 1. [swissprot;acc:o60890]	Ranked	Subtracted		233.837	215.973	17.864
	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	Squared		High confidence	103496	146848	43352
	septin 4 (peanut-like protein 2) (brain protein h5) (cell division control-related protein 2) (hcdcrel-2) (bradeion beta) (ce5b3 beta) (cerebral protein-7) (hucep-7). [swissprot;acc:o43236]	Measured	Divided	Low confidence	11141.5	12351.1	1.10857
	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]	Ranked			226.338	207.874	1.08882
		Rooted			62.4962	68.5193	1.09638
	type 1 protein phosphatase inhibitor. [refseq;acc:nm_025210]	Measured	Subtracted	High confidence	21632.5	18090	3542.5
85	autophagy protein 12-like (apg12-like). [swissprot;acc:o94817]	Squared	Divided		67438.6	40697	1.65709
	b-cell lymphoma 6 protein (bcl-6) (zinc finger protein 51) (laz-3 protein) (bcl-5). [swissprot;acc:p41182]		Subtracted	Low confidence	81993.8	71914	10079.8
	ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511]	Rooted	Divided	High confidence	46.7419	60.9337	1.30362
	dna fragmentation factor 40 kda subunit (ec 3.-.-.-) (dff-40) (caspase-activated deoxyribonuclease) (caspase-activated dnase) (cad) (caspase-activated nuclease) (cpan). [swissprot;acc:o76075]			Low confidence	61.1174	66.8946	1.09453
	fos-related antigen 2. [swissprot;acc:p15408]	Measured		High confidence	4941.95	7037.11	1.42395
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08]	Rooted	Subtracted		40.336	24.2941	16.0419
	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	Ranked	Divided		88.2482	110.265	1.24949
	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]	Measured	Subtracted	Low confidence	11285.3	10318.5	966.8
	oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1]	Ranked			233.592	215.846	17.746
	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]		Divided		225.735	245.308	1.08671
	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	Squared	Subtracted	High confidence	103496	146848	43352
	ribosome biogenesis regulatory protein homolog. [swissprot;acc:q15050]	Measured			21370.8	17896.5	3474.3
	sad1/unc-84 protein-like 1. [swissprot;acc:o94901]	Ranked			296.677	247.559	49.118
	segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [swissprot;acc:o14641]	Measured	Divided	Low confidence	7034.43	7797.14	1.10843
	ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395]	Squared			60862.1	50419.2	1.20712
	y+l amino acid transporter 1 (y(+)l-type amino acid transporter 1) (y+lat-1) (y+lat1) (monocyte amino acid permease 2) (mop-2). [swissprot;acc:q9um01]	Rooted	Subtracted		68.7629	75.4877	6.7248
86	b-cell cll/lymphoma 6, member b (zinc finger protein); zinc finger protein 62. [refseq;acc:nm_181844]	Squared			81989.8	71910.8	10079
	cystine/glutamate transporter (amino acid transport system xc-) (xct) (calcium channel blocker resistance protein ccbr1). [swissprot;acc:q9upy5]	Rooted			68.7629	75.4877	6.7248
	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]	Ranked		High confidence	335	286	49
	dna fragmentation factor 40 kda subunit (ec 3.-.-.-) (dff-40) (caspase-activated deoxyribonuclease) (caspase-activated dnase) (cad) (caspase-activated nuclease) (cpan). [swissprot;acc:o76075]		Divided	Low confidence	233.922	215.309	1.08645
	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670]	Rooted	Subtracted	High confidence	40.3361	24.295	16.0411
	leucine zipper domain protein. [refseq;acc:nm_024589]	Ranked		Low confidence	221.996	238.82	16.824
	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]		Divided	High confidence	88.2482	110.265	1.24949

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.