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

Results: HTML CSV LaTeX

Showing element 558 to 607 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Hugo	Network Comparison Type	red	green	network_comparison
279	trna pseudouridine synthase a (ec 4.2.1.70) (pseudouridylate synthase i) (pseudouridine synthase i) (uracil hydrolyase). [swissprot;acc:q9y606]	PUS1	Subtracted	242.66	265.715	23.055
280	metastasis-associated protein mta1. [swissprot;acc:q13330]	MTA1	Divided	252.512	228.356	1.10578
	transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188]	TFDP2	Subtracted	267.208	244.168	23.04
281	60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815]	MRPL12		242.159	265.104	22.945
	60s ribosomal protein l17 (l23). [swissprot;acc:p18621]	no value	Divided	241.808	267.335	1.10557
282	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]	RBBP4		252.39	228.297	1.10553
	nudix (nucleoside diphosphate linked moiety x)-type motif 12. [refseq;acc:nm_031438]	NUDT12	Subtracted	242.159	265.104	22.945
283	60s ribosomal protein l11, mitochondrial precursor (l11mt) (cgi-113). [swissprot;acc:q9y3b7]	MRPL11		242.37	265.255	22.885
	60s ribosomal protein l11. [swissprot;acc:p39026]	RPL11	Divided	241.828	267.346	1.10552
284	crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945]	BCAR1		224.657	203.235	1.10541
	dna-directed rna polymerase iii largest subunit (ec 2.7.7.6) (rpc155) (rpc1). [swissprot;acc:o14802]	POLR3A	Subtracted	242.686	265.516	22.83
285	dna-directed rna polymerase i largest subunit (ec 2.7.7.6) (rna polymerase i 194 kda subunit) (rpa194). [swissprot;acc:o95602]	POLR1A		242.691	265.481	22.79
	t-complex protein 1, delta subunit (tcp-1-delta) (cct-delta) (stimulator of tar rna binding). [swissprot;acc:p50991]	CCT4	Divided	224.647	203.242	1.10532
286	60s ribosomal protein l30. [swissprot;acc:p04645]	RPL30	Subtracted	242.593	265.365	22.772
	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]	NEDD9	Divided	224.633	203.251	1.1052
287	40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47]	RPS4Y2		240.758	266.079	1.10517
	splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533]	SF3B1	Subtracted	225.217	202.459	22.758
288	40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750]	no value	Divided	240.758	266.078	1.10517
	syntaxin 10 (syn10). [swissprot;acc:o60499]	STX10	Subtracted	234.691	257.442	22.751
289	hpaii tiny fragments locus 9c. [refseq;acc:nm_022727]	no value	Divided	272.781	246.892	1.10486
	syntaxin 6. [swissprot;acc:o43752]	STX6	Subtracted	234.673	257.414	22.741
290	ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350]	RRM2	Divided	231.969	210.064	1.10428
	suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169]	no value	Subtracted	242.109	264.79	22.681
291	adenylate kinase isoenzyme 2, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p54819]	AK2		241.509	264.163	22.654
	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]	NFYB	Divided	251.679	228.037	1.10368
292	40s ribosomal protein s15a. [swissprot;acc:p39027]	RPS15A		241.411	266.414	1.10357
	heterogeneous nuclear ribonucleoprotein m (hnrnp m). [swissprot;acc:p52272]	HNRPM	Subtracted	234.146	256.627	22.481
293	60s ribosomal protein l23 (l17). [swissprot;acc:p23131]	no value	Divided	240.782	265.717	1.10356
	c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5]	HS3ST6	Subtracted	219.421	196.978	22.443
294	brca2 and cdkn1a-interacting protein isoform bccipalpha; brca2 and cdkn1a-interacting protein; cdk inhibitor p21 binding protein; bccipalpha; bccipbeta; tok-1alpha; tok-1beta. [refseq;acc:nm_016567]	BCCIP	Divided	240.782	265.717	1.10356
	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3a1; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006042]	HS3ST3A1	Subtracted	219.421	196.978	22.443
295	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3b1. [refseq;acc:nm_006041]	HS3ST3B1
	multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904]	SCYE1	Divided	223.273	202.423	1.103
296	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 2; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006043]	HS3ST2	Subtracted	219.421	196.978	22.443
	mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956]	MRPL4	Divided	241.282	266.12	1.10294
297	60s ribosomal protein l7. [swissprot;acc:p18124]	no value		235.727	259.984	1.1029
	mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026]	DCPS	Subtracted	219.421	196.978	22.443
298	calpain 2, large [catalytic] subunit precursor (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (m-type) (m-calpain) (millimolar-calpain) (calpain large polypeptide l2). [swissprot;acc:p17655]	CAPN2	Divided	268.632	243.588	1.10281
	transcription factor e2f1 (e2f-1) (retinoblastoma binding protein 3) (rbbp-3) (prb-binding protein e2f-1) (pbr3) (retinoblastoma-associated protein 1) (rbap-1). [swissprot;acc:q01094]	E2F1	Subtracted	266.421	244.236	22.185
299	calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384]	CAPN1	Divided	268.635	243.592	1.10281
	transcription factor e2f2 (e2f-2). [swissprot;acc:q14209]	E2F2	Subtracted	266.421	244.236	22.185
300	metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889]	PITRM1	Divided	150.959	166.351	1.10196
	probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [swissprot;acc:q9ny93]	DDX56	Subtracted	257.017	234.945	22.072
301	beta-1,4 mannosyltransferase. [refseq;acc:nm_019109]	ALG1	Divided	150.982	166.372	1.10193
	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	MAGED4	Subtracted	88.2482	110.265	22.0168
302	60s ribosomal protein l26. [swissprot;acc:q02877]	RPL26	Divided	242.326	267.008	1.10185
	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	MAGEE2	Subtracted	88.2482	110.265	22.0168
303	60s ribosomal protein l35. [swissprot;acc:p42766]	RPL35	Divided	242.333	266.999	1.10179
	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	no value	Subtracted	88.2482	110.265	22.0168
304	40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]		Divided	242.339	266.986	1.1017

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.