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

Results: HTML CSV LaTeX

Showing element 1258 to 1307 of 12912 in total

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

Rank	Value Type	description	red	green	network_comparison
315	Ranked	methionine aminopeptidase 2 (ec 3.4.11.18) (metap 2) (peptidase m 2) (initiation factor 2 associated 67 kda glycoprotein) (p67) (p67eif2). [swissprot;acc:p50579]	244.126	268.604	1.10027
	Squared	proprotein convertase subtilisin/kexin type 5 precursor (ec 3.4.21.-) (proprotein convertase pc5) (subtilisin/kexin-like protease pc5) (convertase pc5) (pc6) (hpc6). [swissprot;acc:q92824]	71576.8	56326.7	1.27074
	Rooted	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]	95.0526	85.3206	1.11406
316	Measured	serine/threonine protein phosphatase pp1-alpha 1 catalytic subunit (ec 3.1.3.16) (pp-1a). [swissprot;acc:p08129]	21370.8	17896.5	1.19413
	Ranked	protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567]	242.694	267.017	1.10022
	Squared	neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401]	28918.3	36746	1.27068
	Rooted	myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]	95.0526	85.3206	1.11406
317	Measured	adiponectin receptor 2. [refseq;acc:nm_024551]	3153.1	3762.56	1.19329
	Ranked	splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393]	224.445	204.044	1.09998
	Squared	nucleoside diphosphate kinase 3 (ec 2.7.4.6) (ndk 3) (ndp kinase 3) (nm23-h3) (dr-nm23). [swissprot;acc:q13232]	33982.3	43159.1	1.27005
	Rooted	dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]	95.0526	85.3206	1.11406
318	Measured	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	34190.9	40795.8	1.19318
	Ranked	mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001]	242.011	266.18	1.09987
	Squared	mitochondrial import receptor subunit tom20 homolog (mitochondrial 20 kda outer membrane protein) (outer mitochondrial membrane receptor tom20). [swissprot;acc:q15388]	46739.9	59134.5	1.26518
	Rooted	myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]	95.0526	85.3206	1.11406
319	Measured	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	20911	24908.5	1.19117
	Ranked	60s ribosomal protein l19. [swissprot;acc:p14118]	240.73	264.729	1.09969
	Squared	peroxisomal farnesylated protein (33 kda housekeeping protein) (peroxin 19). [swissprot;acc:p40855]	46739.9	59134.5	1.26518
	Rooted	saccharomyces cerevisiae nip7p homolog. [refseq;acc:nm_016101]	49.0663	54.4978	1.1107
320	Measured	ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]	20911	24908.5	1.19117
	Ranked	epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830]	241.892	265.96	1.0995
	Squared	epoxide hydrolase 1 (ec 3.3.2.3) (microsomal epoxide hydrolase) (epoxide hydratase). [swissprot;acc:p07099]	87971.9	69563.1	1.26463
	Rooted	40s ribosomal protein s29. [swissprot;acc:p30054]	50.2784	45.294	1.11005
321	Measured	ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064]	20911	24908.5	1.19117
	Ranked	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	241.892	265.959	1.09949
	Squared	putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [swissprot;acc:o60361]	33526	42390.2	1.2644
	Rooted	u6 snrna-associated sm-like protein lsm7. [swissprot;acc:q9uk45]	55.9231	62.0565	1.10968
322	Measured	anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685]	20911	24908.5	1.19117
	Ranked	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	86.7483	78.8995	1.09948
	Squared	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]	33522.8	42384.8	1.26436
	Rooted	rgs19-interacting protein 1 (gaip c-terminus interacting protein gipc) (rgs-gaip interacting protein) (tax interaction protein 2) (tip-2). [swissprot;acc:o14908]	60.594	67.2244	1.10942
323	Measured	u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [swissprot;acc:q9y4z0]	4620.76	5501.94	1.1907
	Ranked	60s ribosomal protein l23a. [swissprot;acc:p29316]	241.884	265.945	1.09947
	Squared	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]	33514.4	42370.8	1.26426
	Rooted	cholinephosphate cytidylyltransferase a (ec 2.7.7.15) (phosphorylcholine transferase a) (ctp:phosphocholine cytidylyltransferase a) (ct a) (cct a) (cct-alpha). [swissprot;acc:p49585]	50.3803	45.4193	1.10923
324	Measured	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	28136.5	33457.6	1.18912
	Ranked	40s ribosomal protein s23. [swissprot;acc:p39028]	243.944	268.195	1.09941
	Squared	histidyl-trna synthetase homolog (ec 6.1.1.21) (histidine--trna ligase homolog) (hisrs). [swissprot;acc:p49590]	34527.9	43507.9	1.26008
	Rooted	fad synthetase. [refseq;acc:nm_025207]	50.3803	45.4193	1.10923
325	Measured	septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599]	16177.9	19235.4	1.18899
	Ranked	28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235]	243.944	268.195	1.09941
	Squared	histidyl-trna synthetase (ec 6.1.1.21) (histidine--trna ligase) (hisrs). [swissprot;acc:p12081]	34506.3	43476	1.25994
	Rooted	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]	50.3803	45.4193	1.10923
326	Measured	atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]	3432.96	4081.21	1.18883
	Ranked	60s ribosomal protein l5. [swissprot;acc:p46777]	241.899	265.924	1.09932
	Squared	anaphase-promoting complex subunit 2; anaphase-promoting complex 2. [refseq;acc:nm_013366]	69124.3	54897.4	1.25915
	Rooted	ligatin (hepatocellular carcinoma-associated antigen 56). [swissprot;acc:p41214]	50.3803	45.4193	1.10923
327	Measured	septin 10 isoform 1. [refseq;acc:nm_144710]	16067.4	19094.4	1.18839
	Ranked	dna-directed rna polymerase ii largest subunit (ec 2.7.7.6) (rpb1). [swissprot;acc:p24928]	243.817	267.962	1.09903
	Squared	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	16424.1	20645.8	1.25704

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.