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

Results: HTML CSV LaTeX

Showing element 1301 to 1350 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Value Type	red	green	network_comparison
326	60s ribosomal protein l5. [swissprot;acc:p46777]	Ranked	241.899	265.924	1.09932
	anaphase-promoting complex subunit 2; anaphase-promoting complex 2. [refseq;acc:nm_013366]	Squared	69124.3	54897.4	1.25915
	atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]	Measured	3432.96	4081.21	1.18883
	ligatin (hepatocellular carcinoma-associated antigen 56). [swissprot;acc:p41214]	Rooted	50.3803	45.4193	1.10923
327	bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 1 (paps synthethase 1) (papss 1) (sulfurylase kinase 1) (sk1) (sk 1) [includes: sulfate adenylyltransferase (ec 2.7.7.4) (sulfate adenylate transferase) (sat) (atp-sulfurylase); adenylylsulfate kinase (ec 2.7.1.25) (adenylylsulfate 3'-phosphotransferase) (aps kinase) (adenosine-5'-phosphosulfate 3'-phosphotransferase) (3'- phosphoadenosine-5'-phosphosulfate synthetase)]. [swissprot;acc:o43252]
	dna-directed rna polymerase ii largest subunit (ec 2.7.7.6) (rpb1). [swissprot;acc:p24928]	Ranked	243.817	267.962	1.09903
	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	Squared	16424.1	20645.8	1.25704
	septin 10 isoform 1. [refseq;acc:nm_144710]	Measured	16067.4	19094.4	1.18839
328	atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]	Ranked	258.437	235.183	1.09888
	brain protein 44. [swissprot;acc:o95563]	Measured	15999.1	19007.1	1.18801
	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	Squared	16442.8	20662.7	1.25664
	nadph-cytochrome p450 reductase (ec 1.6.2.4) (cpr) (p450r). [swissprot;acc:p16435]	Rooted	50.3803	45.4193	1.10923
329	cholinephosphate cytidylyltransferase b (ec 2.7.7.15) (phosphorylcholine transferase b) (ctp:phosphocholine cytidylyltransferase b) (ct b) (cct b) (cct-beta). [swissprot;acc:q9y5k3]
	metaxin 2. [swissprot;acc:o75431]	Squared	41236	51807	1.25635
	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	Ranked	312	284	1.09859
	septin 7 (cdc10 protein homolog). [swissprot;acc:q16181]	Measured	15999.1	19007.1	1.18801
330	60s ribosomal protein l32. [swissprot;acc:p02433]	Rooted	50.519	45.5497	1.1091
	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]	Ranked	312	284	1.09859
	huntingtin interacting protein c. [refseq;acc:nm_012272]	Squared	16203.4	20339.9	1.25529
	septin 6. [swissprot;acc:q14141]	Measured	15959.9	18957.1	1.1878
331	apical-like protein (apxl protein). [swissprot;acc:q13796]	Rooted	60.6697	67.2802	1.10896
	doc-1 related protein (doc-1r). [swissprot;acc:o75956]	Ranked	312	284	1.09859
	pre-mrna cleavage complex ii protein pcf11 (fragment). [swissprot;acc:o94913]	Measured	20287.2	17083.8	1.18751
	ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350]	Squared	33100.3	41520.6	1.25439
332	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]	Ranked	312	284	1.09859
	nucleotide-binding protein 1 (nbp 1). [swissprot;acc:p53384]	Squared	14464.3	18142.8	1.25432
	pleiotropic regulator 1 (prl1homolog, arabidopsis); pleiotropic regulator 1 (prl1, arabidopsis homolog). [refseq;acc:nm_002669]	Measured	5051.16	5975.51	1.183
	shroom-related protein; f-actin-binding protein; likely ortholog of mouse shroom. [refseq;acc:nm_020859]	Rooted	60.6732	67.2827	1.10894
333	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]	Ranked	312	284	1.09859
	nuclear matrix protein nmp200 related to splicing factor prp19. [refseq;acc:nm_014502]	Measured	5039.63	5961.83	1.18299
	nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4]	Rooted	49.0526	54.3781	1.10857
	nucleotide binding protein 2 (nbp 2). [swissprot;acc:q9y5y2]	Squared	14464.3	18142.8	1.25432
334	ca2+-dependent endoplasmic reticulum nucleoside diphosphatase; apyrase; soluble calcium-activated nucleotidase scan-1. [refseq;acc:nm_138793]		64975.9	81151.2	1.24894
	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]	Ranked	312	284	1.09859
	pleiotropic regulator 1 (prl1homolog, arabidopsis); pleiotropic regulator 1 (prl1, arabidopsis homolog). [refseq;acc:nm_002669]	Rooted	58.6096	64.9655	1.10844
	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	14924.4	17655.2	1.18298
335	40s ribosomal protein s11. [swissprot;acc:p04643]	Rooted	50.4705	45.5342	1.10841
	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]	Ranked	312	284	1.09859
	probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [swissprot;acc:q9ny93]	Measured	3494.31	4129.6	1.18181
	ribosomal protein l24-like; 60s ribosomal protein l30 isolog; my024 protein; homolog of yeast ribosomal like protein 24. [refseq;acc:nm_016304]	Squared	30651.3	38253.3	1.24802
336	60s ribosomal protein l11. [swissprot;acc:p39026]	Rooted	50.3167	45.4063	1.10814
	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]	Ranked	312	284	1.09859
	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33]	Measured	3751.3	4431.34	1.18128
	j kappa-recombination signal binding protein (rbp-j kappa). [swissprot;acc:q06330]	Squared	46785.7	58383.2	1.24789
337	60s ribosomal protein l12. [swissprot;acc:p30050]	Ranked	243.583	267.527	1.0983
	carboxypeptidase b precursor. [refseq;acc:nm_020361]	Rooted	77.5801	70.0182	1.108
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Measured	20446.1	24136.4	1.18049
	human immunodeficiency virus type i enhancer binding protein 3. [refseq;acc:nm_024503]	Squared	46785.7	58383.2	1.24789
338	60s ribosomal protein l12 like protein. [sptrembl;acc:o60886]	Ranked	243.583	267.528	1.0983
	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]	Measured	20446.1	24136.4	1.18049

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.