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	Filtered	Network Comparison Type	Interaction Map	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 551 to 600 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
276	DDX24	atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]	Subtracted	258.437	235.183	23.254
	SNORA7A	60s ribosomal protein l32. [swissprot;acc:p02433]	Divided	241.13	266.969	1.10716
277	no value	40s ribosomal protein s29. [swissprot;acc:p30054]		241.849	267.642	1.10665
	RPL4	60s ribosomal protein l4 (l1). [swissprot;acc:p36578]	Subtracted	239.277	262.434	23.157
278	MYEF2	myelin gene expression factor 2. [refseq;acc:nm_016132]		235.383	258.476	23.093
	RPS11	40s ribosomal protein s11. [swissprot;acc:p04643]	Divided	241.399	267.088	1.10642
279	PUS1	trna pseudouridine synthase a (ec 4.2.1.70) (pseudouridylate synthase i) (pseudouridine synthase i) (uracil hydrolyase). [swissprot;acc:q9y606]	Subtracted	242.66	265.715	23.055
	RBBP7	histone acetyltransferase type b subunit 2 (retinoblastoma binding protein p46) (retinoblastoma-binding protein 7) (rbbp-7). [swissprot;acc:q16576]	Divided	252.644	228.42	1.10605
280	MTA1	metastasis-associated protein mta1. [swissprot;acc:q13330]		252.512	228.356	1.10578
	TFDP2	transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188]	Subtracted	267.208	244.168	23.04
281	no value	60s ribosomal protein l17 (l23). [swissprot;acc:p18621]	Divided	241.808	267.335	1.10557
	MRPL12	60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815]	Subtracted	242.159	265.104	22.945
282	NUDT12	nudix (nucleoside diphosphate linked moiety x)-type motif 12. [refseq;acc:nm_031438]
	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]	Divided	252.39	228.297	1.10553
283	MRPL11	60s ribosomal protein l11, mitochondrial precursor (l11mt) (cgi-113). [swissprot;acc:q9y3b7]	Subtracted	242.37	265.255	22.885
	RPL11	60s ribosomal protein l11. [swissprot;acc:p39026]	Divided	241.828	267.346	1.10552
284	BCAR1	crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945]		224.657	203.235	1.10541
	POLR3A	dna-directed rna polymerase iii largest subunit (ec 2.7.7.6) (rpc155) (rpc1). [swissprot;acc:o14802]	Subtracted	242.686	265.516	22.83
285	CCT4	t-complex protein 1, delta subunit (tcp-1-delta) (cct-delta) (stimulator of tar rna binding). [swissprot;acc:p50991]	Divided	224.647	203.242	1.10532
	POLR1A	dna-directed rna polymerase i largest subunit (ec 2.7.7.6) (rna polymerase i 194 kda subunit) (rpa194). [swissprot;acc:o95602]	Subtracted	242.691	265.481	22.79
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]	Divided	224.633	203.251	1.1052
	RPL30	60s ribosomal protein l30. [swissprot;acc:p04645]	Subtracted	242.593	265.365	22.772
287	RPS4Y2	40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47]	Divided	240.758	266.079	1.10517
	SF3B1	splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533]	Subtracted	225.217	202.459	22.758
288	no value	40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750]	Divided	240.758	266.078	1.10517
	STX10	syntaxin 10 (syn10). [swissprot;acc:o60499]	Subtracted	234.691	257.442	22.751
289	no value	hpaii tiny fragments locus 9c. [refseq;acc:nm_022727]	Divided	272.781	246.892	1.10486
	STX6	syntaxin 6. [swissprot;acc:o43752]	Subtracted	234.673	257.414	22.741
290	no value	suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169]		242.109	264.79	22.681
	RRM2	ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350]	Divided	231.969	210.064	1.10428
291	AK2	adenylate kinase isoenzyme 2, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p54819]	Subtracted	241.509	264.163	22.654
	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]	Divided	251.679	228.037	1.10368
292	HNRPM	heterogeneous nuclear ribonucleoprotein m (hnrnp m). [swissprot;acc:p52272]	Subtracted	234.146	256.627	22.481
	RPS15A	40s ribosomal protein s15a. [swissprot;acc:p39027]	Divided	241.411	266.414	1.10357
293	no value	60s ribosomal protein l23 (l17). [swissprot;acc:p23131]		240.782	265.717	1.10356
	HS3ST6	c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5]	Subtracted	219.421	196.978	22.443
294	BCCIP	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]	Divided	240.782	265.717	1.10356
	HS3ST3A1	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3a1; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006042]	Subtracted	219.421	196.978	22.443
295	HS3ST3B1	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3b1. [refseq;acc:nm_006041]
	SCYE1	multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904]	Divided	223.273	202.423	1.103
296	HS3ST2	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 2; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006043]	Subtracted	219.421	196.978	22.443
	MRPL4	mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956]	Divided	241.282	266.12	1.10294
297	no value	60s ribosomal protein l7. [swissprot;acc:p18124]		235.727	259.984	1.1029
	DCPS	mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026]	Subtracted	219.421	196.978	22.443
298	CAPN2	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]	Divided	268.632	243.588	1.10281
	E2F1	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]	Subtracted	266.421	244.236	22.185
299	CAPN1	calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384]	Divided	268.635	243.592	1.10281
	E2F2	transcription factor e2f2 (e2f-2). [swissprot;acc:q14209]	Subtracted	266.421	244.236	22.185
300	DDX56	probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [swissprot;acc:q9ny93]		257.017	234.945	22.072
	PITRM1	metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889]	Divided	150.959	166.351	1.10196

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.