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

Results: HTML CSV LaTeX

Showing element 532 to 581 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	Hugo	description	Interaction Map	red	green	network_comparison
266	WDR92	calcineurin b subunit isoform 1 (protein phosphatase 2b regulatory subunit 1) (protein phosphatase 3 regulatory subunit b alpha isoform 1). [swissprot;acc:p06705]	Low confidence	214.887	205.509	1.04563
267	DENR	density-regulated protein (drp) (drp1 protein) (smooth muscle cell associated protein-3) (smap-3). [swissprot;acc:o43583]	High confidence	241.07	267.88	1.11121
	TNS1	tensin. [refseq;acc:nm_022648]	Low confidence	215.258	205.872	1.04559
268	EIF5	eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010]	High confidence	271.016	244.167	1.10996
	SOAT2	sterol o-acyltransferase 2 (ec 2.3.1.26) (cholesterol acyltransferase 2) (acyl coenzyme a:cholesterol acyltransferase 2) (acat-2). [swissprot;acc:o75908]	Low confidence	208.469	199.455	1.04519
269	PCYT1A	cholinephosphate cytidylyltransferase a (ec 2.7.7.15) (phosphorylcholine transferase a) (ctp:phosphocholine cytidylyltransferase a) (ct a) (cct a) (cct-alpha). [swissprot;acc:p49585]	High confidence	241.373	267.352	1.10763
	SOAT1	sterol o-acyltransferase 1 (ec 2.3.1.26) (cholesterol acyltransferase 1) (acyl coenzyme a:cholesterol acyltransferase 1) (acat-1). [swissprot;acc:p35610]	Low confidence	208.436	199.44	1.04511
270	FLAD1	fad synthetase. [refseq;acc:nm_025207]	High confidence	241.373	267.352	1.10763
	RNF10	ring finger protein 10. [refseq;acc:nm_014868]	Low confidence	208.437	199.44	1.04511
271	no value	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]	High confidence	241.373	267.352	1.10763
	TPM4	tropomyosin alpha 4 chain (tropomyosin 4) (tm30p1). [swissprot;acc:p07226]	Low confidence	201.219	192.595	1.04478
272	LGTN	ligatin (hepatocellular carcinoma-associated antigen 56). [swissprot;acc:p41214]	High confidence	241.373	267.352	1.10763
	OSR1	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	Low confidence	217.69	208.421	1.04447
273	CDC73	parafibromin. [refseq;acc:nm_024529]		214.015	204.916	1.0444
	PAPSS1	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]	High confidence	241.373	267.352	1.10763
274	KHDRBS3	kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558]	Low confidence	209.532	200.653	1.04425
	POR	nadph-cytochrome p450 reductase (ec 1.6.2.4) (cpr) (p450r). [swissprot;acc:p16435]	High confidence	241.373	267.352	1.10763
275	NCBP2L	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	Low confidence	199.66	191.203	1.04423
	PCYT1B	cholinephosphate cytidylyltransferase b (ec 2.7.7.15) (phosphorylcholine transferase b) (ctp:phosphocholine cytidylyltransferase b) (ct b) (cct b) (cct-beta). [swissprot;acc:q9y5k3]	High confidence	241.373	267.352	1.10763
276	NCBP2	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	Low confidence	199.939	191.474	1.04421
	SNORA7A	60s ribosomal protein l32. [swissprot;acc:p02433]	High confidence	241.13	266.969	1.10716
277	no value	40s ribosomal protein s29. [swissprot;acc:p30054]		241.849	267.642	1.10665
		cln3 protein (battenin) (batten disease protein). [swissprot;acc:q13286]	Low confidence	211.912	202.965	1.04408
278	RPS11	40s ribosomal protein s11. [swissprot;acc:p04643]	High confidence	241.399	267.088	1.10642
	SLC7A10	asc-type amino acid transporter 1 (asc-1). [swissprot;acc:q9ns82]	Low confidence	205.006	196.369	1.04398
279	BTBD14B	transcriptional repressor nac1. [refseq;acc:nm_052876]		202.309	211.2	1.04395
	RBBP7	histone acetyltransferase type b subunit 2 (retinoblastoma binding protein p46) (retinoblastoma-binding protein 7) (rbbp-7). [swissprot;acc:q16576]	High confidence	252.644	228.42	1.10605
280	MTA1	metastasis-associated protein mta1. [swissprot;acc:q13330]		252.512	228.356	1.10578
	TFCP2L1	lbp-9. [refseq;acc:nm_014553]	Low confidence	219.758	210.509	1.04394
281	no value	60s ribosomal protein l17 (l23). [swissprot;acc:p18621]	High confidence	241.808	267.335	1.10557
	TFCP2	transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653]	Low confidence	219.749	210.503	1.04392
282	AMY1C	alpha-amylase, salivary precursor (ec 3.2.1.1) (1,4-alpha-d-glucan glucanohydrolase). [swissprot;acc:p04745]		219.742	210.498	1.04391
	RBBP4	chromatin assembly factor 1 subunit c (caf-1 subunit c) (chromatin assembly factor i p48 subunit) (caf-i 48 kda subunit) (caf-ip48) (retinoblastoma binding protein p48) (retinoblastoma-binding protein 4) (rbbp-4) (msi1 protein homolog). [swissprot;acc:q09028]	High confidence	252.39	228.297	1.10553
283	RPL11	60s ribosomal protein l11. [swissprot;acc:p39026]		241.828	267.346	1.10552
	UBP1	upstream binding protein 1 (lbp-1a). [refseq;acc:nm_014517]	Low confidence	219.722	210.484	1.04389
284	BCAR1	crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945]	High confidence	224.657	203.235	1.10541
	TNKS2	tankyrase 2 (ec 2.4.2.30) (tank2) (tankyrase ii) (tnks-2) (trf1- interacting ankyrin-related adp-ribose polymerase 2) (tankyrase-like protein) (tankyrase-related protein). [swissprot;acc:q9h2k2]	Low confidence	214.675	205.692	1.04367
285	CCT4	t-complex protein 1, delta subunit (tcp-1-delta) (cct-delta) (stimulator of tar rna binding). [swissprot;acc:p50991]	High confidence	224.647	203.242	1.10532
	TAF4	transcription initiation factor tfiid 135 kda subunit (tafii-135) (tafii135) (tafii-130) (tafii130). [swissprot;acc:o00268]	Low confidence	202.354	211.175	1.04359
286	NEDD9	enhancer of filamentation 1 (hef1) (crk-associated substrate-related protein) (cas-l) (casl) (pp105) (neural precursor cell expressed developmentally down-regulated 9). [swissprot;acc:q14511]	High confidence	224.633	203.251	1.1052
	TAF4B	transcription initiation factor tfiid 105 kda subunit (tafii-105) (tafii105) (fragment). [swissprot;acc:q92750]	Low confidence	202.356	211.174	1.04358
287	GIPC1	rgs19-interacting protein 1 (gaip c-terminus interacting protein gipc) (rgs-gaip interacting protein) (tax interaction protein 2) (tip-2). [swissprot;acc:o14908]		210.132	201.397	1.04337
	RPS4Y2	40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47]	High confidence	240.758	266.079	1.10517
288	no value	40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750]			266.078
	SNRPD1	small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641]	Low confidence	200.288	192.004	1.04314
289	no value	hpaii tiny fragments locus 9c. [refseq;acc:nm_022727]	High confidence	272.781	246.892	1.10486
	KHDRBS2	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	Low confidence	209.31	200.66	1.04311
290	LAPTM4B	lysosomal-associated transmembrane protein 4 beta; putative integral membrane transporter. [refseq;acc:nm_018407]		210	201.325	1.04309
	RRM2	ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350]	High confidence	231.969	210.064	1.10428
291	NFYB	nuclear transcription factor y subunit beta (nf-y protein chain b) (nf-yb) (ccaat-binding transcription factor subunit a) (cbf-a) (caat- box dna binding protein subunit b). [swissprot;acc:p25208]		251.679	228.037	1.10368

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
- Hugo is the HGNC identifier if it exists
- 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.