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.

MK5 Proteome Analysis - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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

Results: HTML CSV LaTeX

Showing element 301 to 350 of 3228 in total

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

Rank	Hugo	description	network_comparison	red	green
301	ALG1	beta-1,4 mannosyltransferase. [refseq;acc:nm_019109]	1.10193	150.982	166.372
302	RPL26	60s ribosomal protein l26. [swissprot;acc:q02877]	1.10185	242.326	267.008
303	RPL35	60s ribosomal protein l35. [swissprot;acc:p42766]	1.10179	242.333	266.999
304	no value	40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]	1.1017	242.339	266.986
305	MRPL2	mitochondrial ribosomal protein l2. [refseq;acc:nm_015950]
306	no value	60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914]	1.10126	242.153	266.673
307	SRR	serine racemase (ec 5.1.1.-). [swissprot;acc:q9gzt4]
308	RPL34	60s ribosomal protein l34. [swissprot;acc:p49207]
309	SEC61A2	protein transport protein sec61 alpha subunit isoform 2 (sec61 alpha- 2). [swissprot;acc:q9y2r3]
310	SEC61A1	protein transport protein sec61 alpha subunit isoform 1 (sec61 alpha- 1). [swissprot;acc:p38378]
311	EIF1B	protein translation factor sui1 homolog gc20. [swissprot;acc:o60739]	1.10108	242.627	267.151
312	RPL3L	60s ribosomal protein l3-like. [swissprot;acc:q92901]	1.10103	242.195	266.663
313	RRM2B	ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713]	1.10069	232.473	211.207
314	METAP1	methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [swissprot;acc:p53582]	1.10027	244.126	268.604
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]
316	EIF1	protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567]	1.10022	242.694	267.017
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]	1.09998	224.445	204.044
318	MRPL3	mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001]	1.09987	242.011	266.18
319	RPL19	60s ribosomal protein l19. [swissprot;acc:p14118]	1.09969	240.73	264.729
320	CDH1	epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830]	1.0995	241.892	265.96
321	no value	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	1.09949		265.959
322	DNASE2B	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	1.09948	86.7483	78.8995
323	no value	60s ribosomal protein l23a. [swissprot;acc:p29316]	1.09947	241.884	265.945
324	RPS23	40s ribosomal protein s23. [swissprot;acc:p39028]	1.09941	243.944	268.195
325	MRPS12	28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235]
326	RPL5	60s ribosomal protein l5. [swissprot;acc:p46777]	1.09932	241.899	265.924
327	POLR2A	dna-directed rna polymerase ii largest subunit (ec 2.7.7.6) (rpb1). [swissprot;acc:p24928]	1.09903	243.817	267.962
328	DDX24	atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]	1.09888	258.437	235.183
329	NEUROD2	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	1.09859	312	284
330	CHD3	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]
331	CDK2AP2	doc-1 related protein (doc-1r). [swissprot;acc:o75956]
332	NEUROD6	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]
333	NEUROD1	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]
334	NEUROD4	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]
335	CHD5	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]
336	CDK2AP1	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]
337	no value	60s ribosomal protein l12. [swissprot;acc:p30050]	1.0983	243.583	267.527
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	MYEF2	myelin gene expression factor 2. [refseq;acc:nm_016132]	1.09811	235.383	258.476
341	no value	60s ribosomal protein l9. [swissprot;acc:p32969]	1.09805	240.243	263.798
342	RPS20	40s ribosomal protein s20. [swissprot;acc:p17075]	1.09737	243.5	267.21
343	PRMT3	protein arginine n-methyltransferase 3 (ec 2.1.1.-) (fragment). [swissprot;acc:o60678]	1.0973	241.625	265.136
344	no value	40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880]
345	CMPK	ump-cmp kinase (ec 2.7.4.14) (cytidylate kinase) (deoxycytidylate kinase) (cytidine monophosphate kinase). [swissprot;acc:p30085]	1.09729	242.14	265.697
346	RPS3	40s ribosomal protein s3. [swissprot;acc:p23396]		241.612	265.119
347	AK3	gtp:amp phosphotransferase mitochondrial (ec 2.7.4.10) (ak3) (adenylate kinase 3 alpha like 1). [swissprot;acc:q9uij7]		242.14	265.697
348	no value	adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p27144]	1.09728		265.696
349	MED22	surfeit locus protein 5. [swissprot;acc:q15528]
350	SCAPER	zinc finger protein 291. [swissprot;acc:q9by12]

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.