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

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Showing element 301 to 350 of 502 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 0

Rank	Hugo	description	red	green	network_comparison
301	SH2B1	sh2-b homolog; likely ortholog of mouse sh2 domain-containing putative adapter sh2-b; sh2-b gamma signaling protein; sh2-b alpha signaling protein. [refseq;acc:nm_015503]	12783	13698	1.07158
302	no value	guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388]	7386.71	6895.44	1.07125
303		intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3]	11431.4	12244.1	1.07109
304		sprouty homolog 4 (spry-4). [swissprot;acc:q9c004]	8021.78	7496.8	1.07003
305		microtubule-interacting protein that associates with traf3; interleukin 13 receptor alpha 1-binding protein-1. [refseq;acc:nm_015650]	9431	8815	1.06988
306	MLXIPL	williams-beuren syndrome chromosome region 14 protein (ws basic-helix- loop-helix leucine zipper protein) (ws-bhlh) (mlx interactor). [swissprot;acc:q9np71]	5540	5921	1.06877
307	no value	ba271b5.1 (similar to ribosomal protein s7). [sptrembl;acc:q9h1s9]	1091	1021	1.06856
308		intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811]	11414.1	12191.8	1.06814
309	LBP	lipopolysaccharide-binding protein precursor (lbp). [swissprot;acc:p18428]	13651	14572	1.06747
310	no value	glycine cleavage system h protein, mitochondrial precursor. [swissprot;acc:p23434]	9328.78	8741.55	1.06718
311		60s ribosomal protein l23 (l17). [swissprot;acc:p23131]	10253.5	9622.45	1.06558
312		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8]	11959.8	12731.1	1.06449
313	GNG4	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150]	11935.6	12698.9	1.06395
314	CLTCL1	clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675]	10301.4	10957.5	1.06369
315	RRM1	ribonucleoside-diphosphate reductase m1 chain (ec 1.17.4.1) (ribonucleotide reductase large chain). [swissprot;acc:p23921]	12121.6	12887.6	1.06319
316	no value	dj718p11.1.2 (novel class ii aminotransferase similar to serine palmotyltransferase (isoform 2)) (fragment). [sptrembl;acc:q9ugb5]	10768.5	11444	1.06273
317		protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992]	19939	18778	1.06183
318	TMOD3	ubiquitous tropomodulin (u-tmod) (tropomodulin 3). [swissprot;acc:q9nyl9]	8918.54	9465.32	1.06131
319	SNX9	sorting nexin 9 (sh3 and px domain-containing protein 1) (sdp1 protein). [swissprot;acc:q9y5x1]
320	ARF3	adp-ribosylation factor 3. [swissprot;acc:p16587]	11627.8	10958.2	1.0611
321	no value	adenine phosphoribosyltransferase (ec 2.4.2.7) (aprt). [swissprot;acc:p07741]	11634.4	10989.9	1.05864
322	HSD17B1	estradiol 17 beta-dehydrogenase 1 (ec 1.1.1.62) (17-beta-hsd 1) (placental 17-beta-hydroxysteroid dehydrogenase) (20 alpha- hydroxysteroid dehydrogenase) (20-alpha-hsd) (e2dh). [swissprot;acc:p14061]
323	no value	ras-related c3 botulinum toxin substrate 1 (p21-rac1) (ras-like protein tc25). [swissprot;acc:p15154]	17387.1	16427.3	1.05843
324	RAC3	ras-related c3 botulinum toxin substrate 3 (p21-rac3). [swissprot;acc:o14658]
325	KCTD10	mstp028 protein. [refseq;acc:nm_031954]	7965.66	7528.21	1.05811
326	DDX12	dead/h (asp-glu-ala-asp/his) box polypeptide 11; dead/h box-11 (chl1-related helicase gene-1); yeast chl1 homolog. [refseq;acc:nm_030655]	11948.4	11295.6	1.05779
327	no value	3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362]	9897.29	10466.5	1.05751
328	RBM15	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37]	10897	11520	1.05717
329	no value	signal-induced proliferation-associated 1-like 1. [refseq;acc:nm_015556]	15977.3	15115.5	1.05701
330	PRAM1	pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152]	12320.2	13018.5	1.05668
331	no value	40s ribosomal protein s3a. [swissprot;acc:p49241]	10405.1	10992.4	1.05644
332		myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533]	8125.5	7697.5	1.0556
333	MYH4	myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623]
334	MYH2	myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]
335	MYH1	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]
336	MYH13	myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]
337	no value	glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 1 (ec 2.6.1.16) (hexosephosphate aminotransferase 1) (d-fructose-6- phosphate amidotransferase 1) (gfat 1) (gfat1). [swissprot;acc:q06210]	12953.2	12273.2	1.05541
338		hydroxyindole o-methyltransferase (ec 2.1.1.4) (hiomt) (acetylserotonin o-methyltransferase) (asmt). [swissprot;acc:p46597]	11149.7	10571.4	1.0547
339		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]	10344.1	10903.3	1.05406
340	GNAQ	guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148]	11372.3	10792.3	1.05374
341	FTHL17	ferritin heavy polypeptide-like 17. [swissprot;acc:q9bxu8]	8702.94	9169.98	1.05366
342	no value	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	10074	10609	1.05311
343	CSNK1A1L	casein kinase i alpha s-like. [refseq;acc:nm_145203]	8356.31	8788.62	1.05173
344	no value	dihydropyrimidine dehydrogenase [nadp+] precursor (ec 1.3.1.2) (dpd) (dhpdhase) (dihydrouracil dehydrogenase) (dihydrothymine dehydrogenase). [swissprot;acc:q12882]	10540.6	10027.6	1.05116
345		alcohol dehydrogenase class iii chi chain (ec 1.1.1.1) (glutathione- dependent formaldehyde dehydrogenase) (ec 1.2.1.1) (fdh). [swissprot;acc:p11766]	11563.7	12151.8	1.05086
346	RRN3	rna polymerase i transcription factor rrn3. [refseq;acc:nm_018427]	9267.81	9736.2	1.05054
347	CPE	carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870]	7670	7311	1.0491
348	MAGED4	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	16321	15577	1.04776
349	no value	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]
350	MAGEA11	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]

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.