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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 3228 in total

Network Comparison Type  : Divided
Hugo  : no value
Value Type  : Ranked
Filtered  : 1
Interaction Map  : High confidence

Rank	red	green	network_comparison	description
2	15	28	1.86667	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]
30	187.457	243.678	1.29991	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007]
41	322	253	1.27273	protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]
43	204.641	160.957	1.2714	jun dimerization protein. [refseq;acc:nm_130469]
56	266.856	336.233	1.25998	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]
63	266.865	336.178	1.25973	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8]
85	88.2482	110.265	1.24949	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]
88				hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]
94				melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]
99				melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]
147	50.7983	42.3003	1.2009	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]
149	142	170	1.19718	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]
152	55	46	1.19565	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]
168	82.5916	98.0548	1.18722	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]
178	226.887	194.72	1.1652	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]
179	226.884	194.79	1.16476	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]
191	226.582	198.444	1.14179	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]
215	112	126	1.125	myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]
221				myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]
238	227.357	254.15	1.11785	rd protein. [swissprot;acc:p18615]
247	237.302	212.41	1.11719	rna-binding protein. [refseq;acc:nm_019027]
248				apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]
271	241.373	267.352	1.10763	bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 2 (paps synthethase 2) (papss 2) (sulfurylase kinase 2) (sk2) (sk 2) [includes: sulfate adenylyltransferase (ec 2.7.7.4) (sulfate adenylate transferase) (sat) (atp-sulfurylase); adenylylsulfate kinase (ec 2.7.1.25) (adenylylsulfate 3'-phosphotransferase) (aps kinase) (adenosine-5'-phosphosulfate 3'-phosphotransferase) (3'- phosphoadenosine-5'-phosphosulfate synthetase)]. [swissprot;acc:o95340]
277	241.849	267.642	1.10665	40s ribosomal protein s29. [swissprot;acc:p30054]
281	241.808	267.335	1.10557	60s ribosomal protein l17 (l23). [swissprot;acc:p18621]
288	240.758	266.078	1.10517	40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750]
289	272.781	246.892	1.10486	hpaii tiny fragments locus 9c. [refseq;acc:nm_022727]
293	240.782	265.717	1.10356	60s ribosomal protein l23 (l17). [swissprot;acc:p23131]
297	235.727	259.984	1.1029	60s ribosomal protein l7. [swissprot;acc:p18124]
304	242.339	266.986	1.1017	40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174]
306	242.153	266.673	1.10126	60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914]
317	224.445	204.044	1.09998	splicing factor 3b subunit 3 (spliceosome associated protein 130) (sap 130) (sf3b130) (pre-mrna splicing factor sf3b 130 kda subunit). [swissprot;acc:q15393]
321	241.892	265.959	1.09949	c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]
323	241.884	265.945	1.09947	60s ribosomal protein l23a. [swissprot;acc:p29316]
337	243.583	267.527	1.0983	60s ribosomal protein l12. [swissprot;acc:p30050]
338		267.528		60s ribosomal protein l12 like protein. [sptrembl;acc:o60886]
339		267.527		dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02]
341	240.243	263.798	1.09805	60s ribosomal protein l9. [swissprot;acc:p32969]
344	241.625	265.136	1.0973	40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880]
348	242.14	265.696	1.09728	adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p27144]
356	243.24	266.796	1.09684	60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025]
357	243.12	266.661	1.09683	60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635]
372	186.52	170.42	1.09447	ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]
380	242.109	264.79	1.09368	suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169]
387	242.238	264.11	1.09029	40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232]
388	227.575	208.756	1.09015	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]
396	240.801	262.34	1.08945	putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642]
406	265.634	244.304	1.08731	transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186]
410	233.376	253.539	1.0864	tfiih basal transcription factor complex p44 subunit (basic transcription factor 2 44 kda subunit) (btf2-p44) (general transcription factor iih polypeptide 2). [swissprot;acc:q13888]
452	224.161	207.972	1.07784	ba395l14.12 (novel protein similar to small nuclear ribonucleoprotein polypeptide a' (snrpa1)). [sptrembl;acc:q9nu36]

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.