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

Results: HTML CSV LaTeX

Showing element 597 to 646 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
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]	High confidence	268.635	243.592	1.10281
	DICER1	endoribonuclease dicer (ec 3.1.26.-) (helicase with rnase motif) (helicase-moi). [swissprot;acc:q9upy3]	Low confidence	208.915	200.322	1.0429
300	ATP2C1	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]		218.661	209.669	1.04289
	PITRM1	metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889]	High confidence	150.959	166.351	1.10196
301	ALG1	beta-1,4 mannosyltransferase. [refseq;acc:nm_019109]		150.982	166.372	1.10193
	SLC7A8	large neutral amino acids transporter small subunit 2 (l-type amino acid transporter 2) (hlat2). [swissprot;acc:q9uhi5]	Low confidence	205.154	196.72	1.04287
302	RPL26	60s ribosomal protein l26. [swissprot;acc:q02877]	High confidence	242.326	267.008	1.10185
	XPR1	xenotropic and polytropic retrovirus receptor. [refseq;acc:nm_004736]	Low confidence	209.12	200.548	1.04274
303	HOMER3	homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838]		210.057	201.45	1.04273
	RPL35	60s ribosomal protein l35. [swissprot;acc:p42766]	High confidence	242.333	266.999	1.10179
304	no value	40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]		242.339	266.986	1.1017
	KHDRBS1	kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559]	Low confidence	209.232	200.662	1.04271
305	HOMER1	homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272]		210.05	201.454	1.04267
	MRPL2	mitochondrial ribosomal protein l2. [refseq;acc:nm_015950]	High confidence	242.339	266.986	1.1017
306	no value	60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914]		242.153	266.673	1.10126
	SNRPF	small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356]	Low confidence	202.122	193.867	1.04258
307	PHKG1	phosphorylase b kinase gamma catalytic chain, skeletal muscle isoform (ec 2.7.1.38) (phosphorylase kinase gamma subunit 1). [swissprot;acc:q16816]		217.957	227.209	1.04245
	SRR	serine racemase (ec 5.1.1.-). [swissprot;acc:q9gzt4]	High confidence	242.153	266.673	1.10126
308	HOMER2	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839]	Low confidence	210.018	201.475	1.0424
	RPL34	60s ribosomal protein l34. [swissprot;acc:p49207]	High confidence	242.153	266.673	1.10126
309	no value	microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378]	Low confidence	200.213	192.103	1.04222
	SEC61A2	protein transport protein sec61 alpha subunit isoform 2 (sec61 alpha- 2). [swissprot;acc:q9y2r3]	High confidence	242.153	266.673	1.10126
310	NDUFA9	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]	Low confidence	205.75	197.484	1.04186
	SEC61A1	protein transport protein sec61 alpha subunit isoform 1 (sec61 alpha- 1). [swissprot;acc:p38378]	High confidence	242.153	266.673	1.10126
311	EIF1B	protein translation factor sui1 homolog gc20. [swissprot;acc:o60739]		242.627	267.151	1.10108
	UBE1C	ubiquitin-activating enzyme e1c (uba3 homolog, yeast); ubiquitin-activating enzyme e1c (homologous to yeast uba3). [refseq;acc:nm_003968]	Low confidence	192.088	184.374	1.04184
312	RPL3L	60s ribosomal protein l3-like. [swissprot;acc:q92901]	High confidence	242.195	266.663	1.10103
	SNRPA1	u2 small nuclear ribonucleoprotein a' (u2 snrnp-a'). [swissprot;acc:p09661]	Low confidence	202.051	193.937	1.04184
313	no value	ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [sptrembl;acc:q9nu36]		202.05	193.94	1.04182
	RRM2B	ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713]	High confidence	232.473	211.207	1.10069
314	METAP1	methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [swissprot;acc:p53582]		244.126	268.604	1.10027
	SF3B1	splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533]	Low confidence	202.057	193.952	1.04179
315	METAP2	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]	High confidence	244.126	268.604	1.10027
	TNKS	tankyrase 1 (ec 2.4.2.30) (tank1) (tankyrase i) (tnks-1) (trf1- interacting ankyrin-related adp-ribose polymerase). [swissprot;acc:o95271]	Low confidence	214.067	205.509	1.04164
316	EIF1	protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567]	High confidence	242.694	267.017	1.10022
	KCNA2	potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [swissprot;acc:p16389]	Low confidence	209.583	201.251	1.0414
317	no value	splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393]	High confidence	224.445	204.044	1.09998
	KCNA1	potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [swissprot;acc:q09470]	Low confidence	209.58	201.251	1.04139
318	KCNA4	potassium voltage-gated channel subfamily a member 4 (potassium channel kv1.4) (hk1) (hpcn2) (hbk4) (hukii). [swissprot;acc:p22459]		209.579		1.04138
	MRPL3	mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001]	High confidence	242.011	266.18	1.09987
319	HSPB2	heat-shock protein, beta-2 (hspb2) (dmpk-binding protein) (mkbp). [swissprot;acc:q16082]	Low confidence	212.752	204.328	1.04123
	RPL19	60s ribosomal protein l19. [swissprot;acc:p14118]	High confidence	240.73	264.729	1.09969
320	CDH1	epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830]		241.892	265.96	1.0995
	PHKG2	phosphorylase b kinase gamma catalytic chain, testis/liver isoform (ec 2.7.1.38) (phk-gamma-t) (phosphorylase kinase gamma subunit 2) (psk-c3). [swissprot;acc:p15735]	Low confidence	217.756	226.722	1.04117
321	no value	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	High confidence	241.892	265.959	1.09949
	SNORD23	glioma tumor suppressor candidate region gene 2 protein (p60). [swissprot;acc:q9nzm5]	Low confidence	207.402	199.219	1.04108
322	DNASE2B	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	High confidence	86.7483	78.8995	1.09948
	NUDT21	cleavage and polyadenylation specific factor 5, 25 kd subunit; pre-mrna cleavage factor im (25kd); pre-mrna cleavage factor im, 25kd subunit. [refseq;acc:nm_007006]	Low confidence	212.262	203.991	1.04055
323	no value	60s ribosomal protein l23a. [swissprot;acc:p29316]	High confidence	241.884	265.945	1.09947
	ITGB1BP2	integrin beta-1 binding protein 2 (melusin) (mstp015). [swissprot;acc:q9ukp3]	Low confidence	212.262	203.991	1.04055

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.