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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

Navigation/Query Panel:
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 708 to 757 of 7460 in total

Value Type  : Ranked
Interaction Map  : High confidence

Rank	description	Network Comparison Type	Filtered	red	green	network_comparison
177	transcriptional co-repressor sin3a; transcriptional regulator, sin3a (yeast). [refseq;acc:nm_015477]	Subtracted	1	241.07	267.88	26.81
178	density-regulated protein (drp) (drp1 protein) (smooth muscle cell associated protein-3) (smap-3). [swissprot;acc:o43583]
	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	Divided		226.887	194.72	1.1652
	integral membrane protein cii-3b. [sptrembl;acc:o75609]		0	14951.6	13204.2	1.13234
	transcription factor iiia (factor a) (tfiiia). [swissprot;acc:q92664]	Subtracted		10899.5	12217.4	1317.9
179	estrogen-related receptor gamma (estrogen receptor related protein 3) (err gamma-2). [swissprot;acc:o75454]			12190.3	13497.2	1306.9
	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	Divided	1	226.884	194.79	1.16476
	mevalonate kinase (ec 2.7.1.36) (mk). [swissprot;acc:q03426]		0	9473.01	10723.7	1.13203
	phenylalanine-4-hydroxylase (ec 1.14.16.1) (pah) (phe-4- monooxygenase). [swissprot;acc:p00439]	Subtracted	1	227.357	254.15	26.793
180	pp3111 protein. [refseq;acc:nm_022156]
	probable calcium-transporting atpase kiaa0703 (ec 3.6.3.8). [swissprot;acc:o75185]		0	7690.02	8991.19	1301.17
	rna-binding protein nova-1 (neuro-oncological ventral antigen 1) (onconeural ventral antigen-1) (paraneoplastic ri antigen) (ventral neuron-specific protein 1). [swissprot;acc:p51513]	Divided		8407.67	9516.92	1.13193
	tar dna-binding protein-43 (tdp-43). [swissprot;acc:q13148]		1	256.228	298.438	1.16474
181	b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681]			229.818	267.265	1.16294
	importin 7; ran-binding protein 7. [refseq;acc:nm_006391]		0	14864.7	16820.7	1.13159
	putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7]	Subtracted		4119	5397	1278
	syntaxin 18. [swissprot;acc:q9p2w9]		1	227.357	254.15	26.793
182	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	Divided		277.546	240.461	1.15422
	phosphoglycerate mutase 1 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme b) (pgam-b) (bpg-dependent pgam 1). [swissprot;acc:p18669]	Subtracted	0	4119	5397	1278
	putative inorganic polyphosphate/atp-nad kinase (ec 2.7.1.23) (poly(p)/atp nad kinase). [swissprot;acc:o95544]	Divided		11573.8	10231.3	1.13121
	rd protein. [swissprot;acc:p18615]	Subtracted	1	227.357	254.15	26.793
183	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]	Divided		228.306	198.011	1.153
	dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0]	Subtracted	0	3859	2582	1277
	glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417]		1	227.357	254.15	26.793
	ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395]	Divided	0	11613	13133.5	1.13093
184	androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108]	Subtracted	1	227.357	254.15	26.793
	ariadne-2 protein homolog (ari-2) (triad1 protein) (ht005). [swissprot;acc:o95376]		0	3284	4554.5	1270.5
	odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260]	Divided	1	274.027	237.79	1.15239
	similar to zinc finger protein 277. [sptrembl;acc:q8wwa6]		0	6279.56	5569.42	1.12751
185	adiponectin receptor 2. [refseq;acc:nm_024551]		1	281.582	246.371	1.14292
	atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539]	Subtracted		227.357	254.15	26.793
	ubiquitin-conjugating enzyme e2-18 kda ubch7 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (ubcm4) (e2-f1) (l-ubc). [swissprot;acc:p51966]		0	3284	4554.5	1270.5
	zinc finger protein 277. [swissprot;acc:q9nrm2]	Divided		6279.56	5569.42	1.12751
186	40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880]			11935.1	10592.8	1.12672
	cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551]	Subtracted		12677.7	13941.7	1264
	filamin b, beta (actin binding protein 278); beta filamin; filamin 1 (actin-binding protein-280)-like; filamin b, beta (actin-binding protein-278); filamin b, beta. [refseq;acc:nm_001457]	Divided	1	226.582	198.444	1.14179
	j domain containing protein 1. [swissprot;acc:q9ukb3]	Subtracted		227.357	254.15	26.793
187	adenylosuccinate synthase-like 1. [refseq;acc:nm_152328]	Divided	0	9955.22	11213.7	1.12641
	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]		1	226.582	198.444	1.14179
	secreted modular calcium-binding protein 1. [refseq;acc:nm_022137]	Subtracted	0	14003.7	12743.3	1260.4
	sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8]		1	227.357	254.15	26.793
188	60s ribosomal protein l15. [swissprot;acc:p39030]	Divided	0	11745.2	13203.1	1.12413
	ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5]	Subtracted	1	227.357	254.15	26.793
	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	Divided		226.582	198.444	1.14179
	transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653]	Subtracted	0	8409.21	9668.79	1259.58
189	adenylosuccinate synthase-like 1. [refseq;acc:nm_152328]			9955.22	11213.7	1258.48
	cholinephosphate cytidylyltransferase a (ec 2.7.7.15) (phosphorylcholine transferase a) (ctp:phosphocholine cytidylyltransferase a) (ct a) (cct a) (cct-alpha). [swissprot;acc:p49585]		1	241.373	267.352	25.979
	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]	Divided		226.582	198.444	1.14179
	sal-like protein 4 (zinc finger protein sall4). [swissprot;acc:q9ujq4]		0	10634.4	9465	1.12355
190	fad synthetase. [refseq;acc:nm_025207]	Subtracted	1	241.373	267.352	25.979

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.