Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 280 to 329 of 3228 in total

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

Rank	description	red	green	network_comparison	
280	metastasis-associated protein mta1. [source:swissprot;acc:q13330]	252.512	228.356	1.10578	
281	60s ribosomal protein l17 (l23). [source:swissprot;acc:p18621]	241.808	267.335	1.10557	
282	chromatin assembly factor 1 subunit c (caf-1 subunit c) (chromatin assembly factor i p48 subunit) (caf-i 48 kda subunit) (caf-ip48) (retinoblastoma binding protein p48) (retinoblastoma-binding protein 4) (rbbp-4) (msi1 protein homolog). [source:swissprot;acc:q09028]	252.39	228.297	1.10553	
283	60s ribosomal protein l11. [source:swissprot;acc:p39026]	241.828	267.346	1.10552	
284	crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [source:swissprot;acc:p56945]	224.657	203.235	1.10541	
285	t-complex protein 1, delta subunit (tcp-1-delta) (cct-delta) (stimulator of tar rna binding). [source:swissprot;acc:p50991]	224.647	203.242	1.10532	
286	enhancer of filamentation 1 (hef1) (crk-associated substrate-related protein) (cas-l) (casl) (pp105) (neural precursor cell expressed developmentally down-regulated 9). [source:swissprot;acc:q14511]	224.633	203.251	1.1052	
287	40s ribosomal protein s4, y isoform 2. [source:swissprot;acc:q8td47]	240.758	266.079	1.10517	
288	40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [source:swissprot;acc:p12750]	240.758	266.078	1.10517	
289	hpaii tiny  fragments locus 9c. [source:refseq;acc:nm_022727]	272.781	246.892	1.10486	
290	ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [source:swissprot;acc:p31350]	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). [source:swissprot;acc:p25208]	251.679	228.037	1.10368	
292	40s ribosomal protein s15a. [source:swissprot;acc:p39027]	241.411	266.414	1.10357	
293	60s ribosomal protein l23 (l17). [source:swissprot;acc:p23131]	240.782	265.717	1.10356	
294	brca2 and cdkn1a-interacting protein isoform bccipalpha; brca2 and cdkn1a-interacting protein; cdk inhibitor p21 binding protein; bccipalpha; bccipbeta; tok-1alpha; tok-1beta. [source:refseq;acc:nm_016567]	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)]. [source:swissprot;acc:q12904]	223.273	202.423	1.103	
296	mitochondrial ribosomal protein l4 isoform a. [source:refseq;acc:nm_015956]	241.282	266.12	1.10294	
297	60s ribosomal protein l7. [source:swissprot;acc:p18124]	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). [source:swissprot;acc:p17655]	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). [source:swissprot;acc:p07384]	268.635	243.592	1.10281	
300	metalloprotease 1; metalloprotease 1 (pitrilysin family). [source:refseq;acc:nm_014889]	150.959	166.351	1.10196	
301	beta-1,4 mannosyltransferase. [source:refseq;acc:nm_019109]	150.982	166.372	1.10193	
302	60s ribosomal protein l26. [source:swissprot;acc:q02877]	242.326	267.008	1.10185	
303	60s ribosomal protein l35. [source:swissprot;acc:p42766]	242.333	266.999	1.10179	
304	40s ribosomal protein s15 (rig protein). [source:swissprot;acc:p11174]	242.339	266.986	1.1017	
305	mitochondrial ribosomal protein l2. [source:refseq;acc:nm_015950]	242.339	266.986	1.1017	
306	60s ribosomal protein l14 (cag-isl 7). [source:swissprot;acc:p50914]	242.153	266.673	1.10126	
307	serine racemase (ec 5.1.1.-). [source:swissprot;acc:q9gzt4]	242.153	266.673	1.10126	
308	60s ribosomal protein l34. [source:swissprot;acc:p49207]	242.153	266.673	1.10126	
309	protein transport protein sec61 alpha subunit isoform 2 (sec61 alpha- 2). [source:swissprot;acc:q9y2r3]	242.153	266.673	1.10126	
310	protein transport protein sec61 alpha subunit isoform 1 (sec61 alpha- 1). [source:swissprot;acc:p38378]	242.153	266.673	1.10126	
311	protein translation factor sui1 homolog gc20. [source:swissprot;acc:o60739]	242.627	267.151	1.10108	
312	60s ribosomal protein l3-like. [source:swissprot;acc:q92901]	242.195	266.663	1.10103	
313	ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [source:refseq;acc:nm_015713]	232.473	211.207	1.10069	
314	methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [source:swissprot;acc:p53582]	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). [source:swissprot;acc:p50579]	244.126	268.604	1.10027	
316	protein translation factor sui1 homolog (sui1iso1). [source:swissprot;acc:p41567]	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). [source:swissprot;acc:q15393]	224.445	204.044	1.09998	
318	mitochondrial 60s ribosomal protein l3 (l3mt). [source:swissprot;acc:p09001]	242.011	266.18	1.09987	
319	60s ribosomal protein l19. [source:swissprot;acc:p14118]	240.73	264.729	1.09969	
320	epithelial-cadherin precursor (e-cadherin) (uvomorulin) (cadherin-1) (cam 120/80). [source:swissprot;acc:p12830]	241.892	265.96	1.0995	
321	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [source:sptrembl;acc:q9br02]	241.892	265.959	1.09949	
322	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [source:refseq;acc:nm_021233]	86.7483	78.8995	1.09948	
323	60s ribosomal protein l23a. [source:swissprot;acc:p29316]	241.884	265.945	1.09947	
324	40s ribosomal protein s23. [source:swissprot;acc:p39028]	243.944	268.195	1.09941	
325	28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [source:swissprot;acc:o15235]	243.944	268.195	1.09941	
326	60s ribosomal protein l5. [source:swissprot;acc:p46777]	241.899	265.924	1.09932	
327	dna-directed rna polymerase ii largest subunit (ec 2.7.7.6) (rpb1). [source:swissprot;acc:p24928]	243.817	267.962	1.09903	
328	atp-dependent rna helicase ddx24 (dead-box protein 24). [source:swissprot;acc:q9gzr7]	258.437	235.183	1.09888	
329	neurogenic differentiation factor 2 (neurod2). [source:swissprot;acc:q15784]	312	284	1.09859	

Legend:
- Rank is the rank after comparing the two networks
- 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.

- http://analysis.yellowcouch.org/