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 1262 to 1311 of 12912 in total

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

Rank	description	Value Type	red	green	network_comparison
316	neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401]	Squared	28918.3	36746	1.27068
	protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567]	Ranked	242.694	267.017	1.10022
	serine/threonine protein phosphatase pp1-alpha 1 catalytic subunit (ec 3.1.3.16) (pp-1a). [swissprot;acc:p08129]	Measured	21370.8	17896.5	1.19413
317	adiponectin receptor 2. [refseq;acc:nm_024551]		3153.1	3762.56	1.19329
	dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]	Rooted	95.0526	85.3206	1.11406
	nucleoside diphosphate kinase 3 (ec 2.7.4.6) (ndk 3) (ndp kinase 3) (nm23-h3) (dr-nm23). [swissprot;acc:q13232]	Squared	33982.3	43159.1	1.27005
	splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393]	Ranked	224.445	204.044	1.09998
318	mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001]		242.011	266.18	1.09987
	mitochondrial import receptor subunit tom20 homolog (mitochondrial 20 kda outer membrane protein) (outer mitochondrial membrane receptor tom20). [swissprot;acc:q15388]	Squared	46739.9	59134.5	1.26518
	myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]	Rooted	95.0526	85.3206	1.11406
	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Measured	34190.9	40795.8	1.19318
319	60s ribosomal protein l19. [swissprot;acc:p14118]	Ranked	240.73	264.729	1.09969
	peroxisomal farnesylated protein (33 kda housekeeping protein) (peroxin 19). [swissprot;acc:p40855]	Squared	46739.9	59134.5	1.26518
	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	Measured	20911	24908.5	1.19117
	saccharomyces cerevisiae nip7p homolog. [refseq;acc:nm_016101]	Rooted	49.0663	54.4978	1.1107
320	40s ribosomal protein s29. [swissprot;acc:p30054]		50.2784	45.294	1.11005
	epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830]	Ranked	241.892	265.96	1.0995
	epoxide hydrolase 1 (ec 3.3.2.3) (microsomal epoxide hydrolase) (epoxide hydratase). [swissprot;acc:p07099]	Squared	87971.9	69563.1	1.26463
	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	Measured	20911	24908.5	1.19117
321	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	Ranked	241.892	265.959	1.09949
	putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [swissprot;acc:o60361]	Squared	33526	42390.2	1.2644
	ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]	Measured	20911	24908.5	1.19117
	u6 snrna-associated sm-like protein lsm7. [swissprot;acc:q9uk45]	Rooted	55.9231	62.0565	1.10968
322	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]	Measured	20911	24908.5	1.19117
	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	Ranked	86.7483	78.8995	1.09948
	nucleoside diphosphate kinase a (ec 2.7.4.6) (ndk a) (ndp kinase a) (tumor metastatic process-associated protein) (metastasis inhibition factor nm23) (nm23-h1). [swissprot;acc:p15531]	Squared	33522.8	42384.8	1.26436
	rgs19-interacting protein 1 (gaip c-terminus interacting protein gipc) (rgs-gaip interacting protein) (tax interaction protein 2) (tip-2). [swissprot;acc:o14908]	Rooted	60.594	67.2244	1.10942
323	60s ribosomal protein l23a. [swissprot;acc:p29316]	Ranked	241.884	265.945	1.09947
	cholinephosphate cytidylyltransferase a (ec 2.7.7.15) (phosphorylcholine transferase a) (ctp:phosphocholine cytidylyltransferase a) (ct a) (cct a) (cct-alpha). [swissprot;acc:p49585]	Rooted	50.3803	45.4193	1.10923
	nucleoside diphosphate kinase b (ec 2.7.4.6) (ndk b) (ndp kinase b) (nm23-h2) (c-myc purine-binding transcription factor puf). [swissprot;acc:p22392]	Squared	33514.4	42370.8	1.26426
	u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [swissprot;acc:q9y4z0]	Measured	4620.76	5501.94	1.1907
324	40s ribosomal protein s23. [swissprot;acc:p39028]	Ranked	243.944	268.195	1.09941
	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	Measured	28136.5	33457.6	1.18912
	fad synthetase. [refseq;acc:nm_025207]	Rooted	50.3803	45.4193	1.10923
	histidyl-trna synthetase homolog (ec 6.1.1.21) (histidine--trna ligase homolog) (hisrs). [swissprot;acc:p49590]	Squared	34527.9	43507.9	1.26008
325	28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235]	Ranked	243.944	268.195	1.09941
	bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 2 (paps synthethase 2) (papss 2) (sulfurylase kinase 2) (sk2) (sk 2) [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:o95340]	Rooted	50.3803	45.4193	1.10923
	histidyl-trna synthetase (ec 6.1.1.21) (histidine--trna ligase) (hisrs). [swissprot;acc:p12081]	Squared	34506.3	43476	1.25994
	septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599]	Measured	16177.9	19235.4	1.18899
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

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.