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 294 to 343 of 3228 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Hugo	red	green	network_comparison
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	240.782	265.717	1.10356
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	223.273	202.423	1.103
296	mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956]	MRPL4	241.282	266.12	1.10294
297	60s ribosomal protein l7. [swissprot;acc:p18124]	no value	235.727	259.984	1.1029
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	268.632	243.588	1.10281
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	268.635	243.592
300	metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889]	PITRM1	150.959	166.351	1.10196
301	beta-1,4 mannosyltransferase. [refseq;acc:nm_019109]	ALG1	150.982	166.372	1.10193
302	60s ribosomal protein l26. [swissprot;acc:q02877]	RPL26	242.326	267.008	1.10185
303	60s ribosomal protein l35. [swissprot;acc:p42766]	RPL35	242.333	266.999	1.10179
304	40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]	no value	242.339	266.986	1.1017
305	mitochondrial ribosomal protein l2. [refseq;acc:nm_015950]	MRPL2
306	60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914]	no value	242.153	266.673	1.10126
307	serine racemase (ec 5.1.1.-). [swissprot;acc:q9gzt4]	SRR
308	60s ribosomal protein l34. [swissprot;acc:p49207]	RPL34
309	protein transport protein sec61 alpha subunit isoform 2 (sec61 alpha- 2). [swissprot;acc:q9y2r3]	SEC61A2
310	protein transport protein sec61 alpha subunit isoform 1 (sec61 alpha- 1). [swissprot;acc:p38378]	SEC61A1
311	protein translation factor sui1 homolog gc20. [swissprot;acc:o60739]	EIF1B	242.627	267.151	1.10108
312	60s ribosomal protein l3-like. [swissprot;acc:q92901]	RPL3L	242.195	266.663	1.10103
313	ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713]	RRM2B	232.473	211.207	1.10069
314	methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [swissprot;acc:p53582]	METAP1	244.126	268.604	1.10027
315	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]	METAP2
316	protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567]	EIF1	242.694	267.017	1.10022
317	splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393]	no value	224.445	204.044	1.09998
318	mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001]	MRPL3	242.011	266.18	1.09987
319	60s ribosomal protein l19. [swissprot;acc:p14118]	RPL19	240.73	264.729	1.09969
320	epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830]	CDH1	241.892	265.96	1.0995
321	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	no value		265.959	1.09949
322	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	DNASE2B	86.7483	78.8995	1.09948
323	60s ribosomal protein l23a. [swissprot;acc:p29316]	no value	241.884	265.945	1.09947
324	40s ribosomal protein s23. [swissprot;acc:p39028]	RPS23	243.944	268.195	1.09941
325	28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235]	MRPS12
326	60s ribosomal protein l5. [swissprot;acc:p46777]	RPL5	241.899	265.924	1.09932
327	dna-directed rna polymerase ii largest subunit (ec 2.7.7.6) (rpb1). [swissprot;acc:p24928]	POLR2A	243.817	267.962	1.09903
328	atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]	DDX24	258.437	235.183	1.09888
329	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	NEUROD2	312	284	1.09859
330	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]	CHD3
331	doc-1 related protein (doc-1r). [swissprot;acc:o75956]	CDK2AP2
332	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]	NEUROD6
333	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]	NEUROD1
334	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]	NEUROD4
335	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]	CHD5
336	cyclin-dependent kinase 2-associated protein 1 (cdk2-associated protein 1) (putative oral cancer suppressor) (deleted in oral cancer- 1) (doc-1). [swissprot;acc:o14519]	CDK2AP1
337	60s ribosomal protein l12. [swissprot;acc:p30050]	no value	243.583	267.527	1.0983
338	60s ribosomal protein l12 like protein. [sptrembl;acc:o60886]			267.528
339	dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02]			267.527
340	myelin gene expression factor 2. [refseq;acc:nm_016132]	MYEF2	235.383	258.476	1.09811
341	60s ribosomal protein l9. [swissprot;acc:p32969]	no value	240.243	263.798	1.09805
342	40s ribosomal protein s20. [swissprot;acc:p17075]	RPS20	243.5	267.21	1.09737
343	protein arginine n-methyltransferase 3 (ec 2.1.1.-) (fragment). [swissprot;acc:o60678]	PRMT3	241.625	265.136	1.0973

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.