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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 3228 in total

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

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

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.