Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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

Results: HTML CSV LaTeX

Showing element 1325 to 1374 of 14920 in total

Network Comparison Type

: Divided
Interaction Map

: High confidence

Rank	Value Type	description	Filtered	red	green	network_comparison
166	Squared	homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719]	1	173408	242989	1.40126
	Squared	hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [swissprot;acc:q16543]	0	220.039	350.57	1.59322
	Rooted	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	1	55.6495	65.1458	1.17064
	Rooted	zinc finger imprinted 2. [swissprot;acc:q9nzv7]	0	17.1395	14.7969	1.15832
167	Measured	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]	1	23693.7	18263	1.29736
	Measured	transcription factor mafk (erythroid transcription factor nf-e2 p18 subunit). [swissprot;acc:o60675]	0	331.61	417.983	1.26047
	Ranked	glutamate decarboxylase, 67 kda isoform (ec 4.1.1.15) (gad-67) (67 kda glutamic acid decarboxylase). [swissprot;acc:q99259]	1	209.299	249.187	1.19058
	Ranked	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	0	12157.6	13890.3	1.14252
	Squared	dystrobrevin binding protein 1; dysbindin. [refseq;acc:nm_032122]	0	168.446	105.991	1.58925
	Squared	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	1	173408	242989	1.40126
	Rooted	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]	1	55.65	65.1448	1.17062
	Rooted	spectrin beta chain, brain 4 (spectrin, non-erythroid beta chain 4) (beta-v spectrin) (bspecv). [swissprot;acc:q9nrc6]	0	52.8301	45.6332	1.15771
168	Measured	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]	1	23693.7	18263	1.29736
	Measured	transcription factor mafg (v-maf musculoaponeurotic fibrosarcoma oncogene homolog g) (hmaf). [swissprot;acc:o15525]	0	334.012	420.355	1.2585
	Ranked	fos-related antigen 2. [swissprot;acc:p15408]	0	7091.75	6217.28	1.14065
	Ranked	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	1	82.5916	98.0548	1.18722
	Squared	lipocalin-interacting membrane receptor. [refseq;acc:nm_018113]	0	338.863	213.584	1.58656
	Squared	retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246]	1	173408	242989	1.40126
	Rooted	protein-tyrosine phosphatase, non-receptor type 1 (ec 3.1.3.48) (protein-tyrosine phosphatase 1b) (ptp-1b). [swissprot;acc:p18031]	0	43.2078	37.3703	1.15621
	Rooted	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	1	56.3709	65.8949	1.16895
169	Measured	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	0	244	194	1.25773
	Measured	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	1	23693.7	18263	1.29736
	Ranked	alanine aminotransferase (ec 2.6.1.2) (glutamic--pyruvic transaminase) (gpt) (glutamic--alanine transaminase). [swissprot;acc:p24298]	0	9875.43	11256.8	1.13988
	Ranked	apg3p; pc3-96 protein. [refseq;acc:nm_022488]	1	82.5916	98.0548	1.18722
	Squared	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	0	14.0914	8.90793	1.58189
	Squared	symplekin. [swissprot;acc:q92797]	1	124118	88668.8	1.39979
	Rooted	cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653]	1	62.762	53.7761	1.1671
	Rooted	maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]	0	6.48074	7.48331	1.1547
170	Measured	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	1	23693.7	18263	1.29736
	Measured	williams-beuren syndrome critical region protein 20 copy b. [refseq;acc:nm_145645]	0	112.666	141.702	1.25772
	Ranked	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734]	0	11364	12941	1.13877
	Ranked	nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483]	1	227.199	192.715	1.17894
	Squared	calcyphosine. [swissprot;acc:q13938]	0	175.528	276.854	1.57726
	Squared	cytidine triphosphate synthase ii; ctp synthetase type 2; utp-ammonia ligase; ctp synthetase isoform; cytidine 5'-triphosphate synthetase 2. [refseq;acc:nm_019857]	1	96730.5	69286.7	1.39609
	Rooted	b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681]	1	53.4993	45.9227	1.16499
	Rooted	serpin b11. [swissprot;acc:q96p15]	0	6.48074	7.48331	1.1547
171	Measured	melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1]	1	23693.7	18263	1.29736
	Measured	williams beuren syndrome critical region 20a isoform 2; nol1/nop2/sun gene family member; williams-beuren syndrome critical region protein 20 copy a; williams beuren syndrome chromosome region 20. [refseq;acc:nm_018044]	0	112.666	141.702	1.25772
	Ranked	lamin b2. [swissprot;acc:q03252]	0	12135.4	13802	1.13733
	Ranked	nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085]	1	227.202	192.823	1.17829
	Squared	ctp synthase (ec 6.3.4.2) (utp--ammonia ligase) (ctp synthetase). [swissprot;acc:p17812]	1	96602.7	69211.2	1.39577
	Squared	trans-prenyltransferase; polyprenyl pyrophosphate synthetase. [refseq;acc:nm_014317]	0	1592.06	2488.07	1.5628
	Rooted	cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]	0	6.48074	7.48331	1.1547
	Rooted	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]	1	61.6639	71.7355	1.16333
172	Measured	trophinin. [swissprot;acc:q12816]	1	23693.7	18263	1.29736
	Measured	williams beuren syndrome chromosome region 20c isoform 1. [refseq;acc:nm_032158]	0	112.666	141.702	1.25772
	Ranked	cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [refseq;acc:nm_152902]	1	174.667	205.556	1.17685
	Ranked	zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623]	0	12225.7	13893.1	1.13638
	Squared	likely ortholog of mouse variant polyadenylation protein cstf-64. [refseq;acc:nm_015235]	1	121579	87259.3	1.39331
	Squared	likely ortholog of rat cytochrome p450 4x1. [refseq;acc:nm_178033]	0	47.4746	74.0536	1.55986

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.

- http://analysis.yellowcouch.org/