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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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

Results: HTML CSV LaTeX

Showing element 301 to 350 of 3228 in total

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

Rank	description	green	red	network_comparison
301	beta-1,4 mannosyltransferase. [refseq;acc:nm_019109]	166.372	150.982	1.10193
302	60s ribosomal protein l26. [swissprot;acc:q02877]	267.008	242.326	1.10185
303	60s ribosomal protein l35. [swissprot;acc:p42766]	266.999	242.333	1.10179
304	40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]	266.986	242.339	1.1017
305	mitochondrial ribosomal protein l2. [refseq;acc:nm_015950]
306	60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914]	266.673	242.153	1.10126
307	serine racemase (ec 5.1.1.-). [swissprot;acc:q9gzt4]
308	60s ribosomal protein l34. [swissprot;acc:p49207]
309	protein transport protein sec61 alpha subunit isoform 2 (sec61 alpha- 2). [swissprot;acc:q9y2r3]
310	protein transport protein sec61 alpha subunit isoform 1 (sec61 alpha- 1). [swissprot;acc:p38378]
311	protein translation factor sui1 homolog gc20. [swissprot;acc:o60739]	267.151	242.627	1.10108
312	60s ribosomal protein l3-like. [swissprot;acc:q92901]	266.663	242.195	1.10103
313	ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713]	211.207	232.473	1.10069
314	methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [swissprot;acc:p53582]	268.604	244.126	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]
316	protein translation factor sui1 homolog (sui1iso1). [swissprot;acc:p41567]	267.017	242.694	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]	204.044	224.445	1.09998
318	mitochondrial 60s ribosomal protein l3 (l3mt). [swissprot;acc:p09001]	266.18	242.011	1.09987
319	60s ribosomal protein l19. [swissprot;acc:p14118]	264.729	240.73	1.09969
320	epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [swissprot;acc:p12830]	265.96	241.892	1.0995
321	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	265.959		1.09949
322	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	78.8995	86.7483	1.09948
323	60s ribosomal protein l23a. [swissprot;acc:p29316]	265.945	241.884	1.09947
324	40s ribosomal protein s23. [swissprot;acc:p39028]	268.195	243.944	1.09941
325	28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235]
326	60s ribosomal protein l5. [swissprot;acc:p46777]	265.924	241.899	1.09932
327	dna-directed rna polymerase ii largest subunit (ec 2.7.7.6) (rpb1). [swissprot;acc:p24928]	267.962	243.817	1.09903
328	atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]	235.183	258.437	1.09888
329	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	284	312	1.09859
330	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]
331	doc-1 related protein (doc-1r). [swissprot;acc:o75956]
332	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]
333	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]
334	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]
335	chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557]
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]
337	60s ribosomal protein l12. [swissprot;acc:p30050]	267.527	243.583	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]	258.476	235.383	1.09811
341	60s ribosomal protein l9. [swissprot;acc:p32969]	263.798	240.243	1.09805
342	40s ribosomal protein s20. [swissprot;acc:p17075]	267.21	243.5	1.09737
343	protein arginine n-methyltransferase 3 (ec 2.1.1.-) (fragment). [swissprot;acc:o60678]	265.136	241.625	1.0973
344	40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880]
345	ump-cmp kinase (ec 2.7.4.14) (cytidylate kinase) (deoxycytidylate kinase) (cytidine monophosphate kinase). [swissprot;acc:p30085]	265.697	242.14	1.09729
346	40s ribosomal protein s3. [swissprot;acc:p23396]	265.119	241.612
347	gtp:amp phosphotransferase mitochondrial (ec 2.7.4.10) (ak3) (adenylate kinase 3 alpha like 1). [swissprot;acc:q9uij7]	265.697	242.14
348	adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p27144]	265.696		1.09728
349	surfeit locus protein 5. [swissprot;acc:q15528]
350	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
- 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.