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

Results: HTML CSV LaTeX

Showing element 575 to 624 of 8289 in total

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

Rank	description	Hugo	Interaction Map	red	green	network_comparison
288	40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750]	no value	High confidence	240.758	266.078	1.10517
	small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641]	SNRPD1	Low confidence	200.288	192.004	1.04314
289	hpaii tiny fragments locus 9c. [refseq;acc:nm_022727]	no value	High confidence	272.781	246.892	1.10486
	kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688]	KHDRBS2	Low confidence	209.31	200.66	1.04311
290	lysosomal-associated transmembrane protein 4 beta; putative integral membrane transporter. [refseq;acc:nm_018407]	LAPTM4B		210	201.325	1.04309
	ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350]	RRM2	High confidence	231.969	210.064	1.10428
291	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		251.679	228.037	1.10368
	pl6 protein (placental protein 6). [swissprot;acc:q12893]	TMEM115	Low confidence	209.995	201.322	1.04308
292	40s ribosomal protein s15a. [swissprot;acc:p39027]	RPS15A	High confidence	241.411	266.414	1.10357
	lysosomal-associated transmembrane protein 4a (golgi 4-transmembrane spanning transporter mtp). [swissprot;acc:q15012]	LAPTM4A	Low confidence	209.995	201.322	1.04308
293	60s ribosomal protein l23 (l17). [swissprot;acc:p23131]	no value	High confidence	240.782	265.717	1.10356
	probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [swissprot;acc:o75185]	ATP2C2	Low confidence	218.785	209.763	1.04301
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	High confidence	240.782	265.717	1.10356
	jagged 2 precursor (jagged2) (hj2). [swissprot;acc:q9y219]	JAG2	Low confidence	218.715	209.71	1.04294
295	multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904]	SCYE1	High confidence	223.273	202.423	1.103
	myocyte-specific enhancer factor 2d. [swissprot;acc:q14814]	MEF2D	Low confidence	218.713	209.709	1.04294
296	jagged 1 precursor (jagged1) (hj1). [swissprot;acc:p78504]	JAG1		218.714
	mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956]	MRPL4	High confidence	241.282	266.12	1.10294
297	60s ribosomal protein l7. [swissprot;acc:p18124]	no value		235.727	259.984	1.1029
	myocyte-specific enhancer factor 2c. [swissprot;acc:q06413]	MEF2C	Low confidence	218.714	209.709	1.04294
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	High confidence	268.632	243.588	1.10281
	myocyte-specific enhancer factor 2a (serum response factor-like protein 1). [swissprot;acc:q02078]	MEF2A	Low confidence	218.715	209.71	1.04294
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	High confidence	268.635	243.592	1.10281
	endoribonuclease dicer (ec 3.1.26.-) (helicase with rnase motif) (helicase-moi). [swissprot;acc:q9upy3]	DICER1	Low confidence	208.915	200.322	1.0429
300	calcium-transporting atpase type 2c, member 1 (ec 3.6.3.8) (atpase 2c1) (atp-dependent ca(2+) pump pmr1) (hussy-28). [swissprot;acc:p98194]	ATP2C1		218.661	209.669	1.04289
	metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889]	PITRM1	High confidence	150.959	166.351	1.10196
301	beta-1,4 mannosyltransferase. [refseq;acc:nm_019109]	ALG1		150.982	166.372	1.10193
	large neutral amino acids transporter small subunit 2 (l-type amino acid transporter 2) (hlat2). [swissprot;acc:q9uhi5]	SLC7A8	Low confidence	205.154	196.72	1.04287
302	60s ribosomal protein l26. [swissprot;acc:q02877]	RPL26	High confidence	242.326	267.008	1.10185
	xenotropic and polytropic retrovirus receptor. [refseq;acc:nm_004736]	XPR1	Low confidence	209.12	200.548	1.04274
303	60s ribosomal protein l35. [swissprot;acc:p42766]	RPL35	High confidence	242.333	266.999	1.10179
	homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838]	HOMER3	Low confidence	210.057	201.45	1.04273
304	40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]	no value	High confidence	242.339	266.986	1.1017
	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559]	KHDRBS1	Low confidence	209.232	200.662	1.04271
305	homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272]	HOMER1		210.05	201.454	1.04267
	mitochondrial ribosomal protein l2. [refseq;acc:nm_015950]	MRPL2	High confidence	242.339	266.986	1.1017
306	60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914]	no value		242.153	266.673	1.10126
	small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356]	SNRPF	Low confidence	202.122	193.867	1.04258
307	phosphorylase b kinase gamma catalytic chain, skeletal muscle isoform (ec 2.7.1.38) (phosphorylase kinase gamma subunit 1). [swissprot;acc:q16816]	PHKG1		217.957	227.209	1.04245
	serine racemase (ec 5.1.1.-). [swissprot;acc:q9gzt4]	SRR	High confidence	242.153	266.673	1.10126
308	60s ribosomal protein l34. [swissprot;acc:p49207]	RPL34
	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839]	HOMER2	Low confidence	210.018	201.475	1.0424
309	microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378]	no value		200.213	192.103	1.04222
	protein transport protein sec61 alpha subunit isoform 2 (sec61 alpha- 2). [swissprot;acc:q9y2r3]	SEC61A2	High confidence	242.153	266.673	1.10126
310	nadh-ubiquinone oxidoreductase 39 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-39kd) (ci-39kd). [swissprot;acc:q16795]	NDUFA9	Low confidence	205.75	197.484	1.04186
	protein transport protein sec61 alpha subunit isoform 1 (sec61 alpha- 1). [swissprot;acc:p38378]	SEC61A1	High confidence	242.153	266.673	1.10126
311	protein translation factor sui1 homolog gc20. [swissprot;acc:o60739]	EIF1B		242.627	267.151	1.10108
	ubiquitin-activating enzyme e1c (uba3 homolog, yeast); ubiquitin-activating enzyme e1c (homologous to yeast uba3). [refseq;acc:nm_003968]	UBE1C	Low confidence	192.088	184.374	1.04184
312	60s ribosomal protein l3-like. [swissprot;acc:q92901]	RPL3L	High confidence	242.195	266.663	1.10103
	u2 small nuclear ribonucleoprotein a' (u2 snrnp-a'). [swissprot;acc:p09661]	SNRPA1	Low confidence	202.051	193.937	1.04184

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.