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.

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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 1851 to 1900 of 3228 in total

Network Comparison Type  : Divided
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1

red	Rank	green	description	network_comparison
5791.14	1666	6193.02	fatty acid-binding protein, epidermal (e-fabp) (psoriasis-associated fatty acid-binding protein homolog) (pa-fabp). [swissprot;acc:q01469]	1.0694
	1667		fatty acid-binding protein, brain (b-fabp) (brain lipid-binding protein) (blbp) (mammary derived growth inhibitor related). [swissprot;acc:o15540]
	1668		wd-repeat protein 4. [swissprot;acc:p57081]
	1669		myelin p2 protein. [swissprot;acc:p02689]
	1670		kelch-like protein 8. [swissprot;acc:q9p2g9]
	1671		phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086]
	1672		beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938]
	1673		beta-carotene 15, 15'-dioxygenase; beta-carotene 15,15'-monooxygenase. [refseq;acc:nm_017429]
	1674		fatty acid-binding protein, heart (h-fabp) (muscle fatty acid-binding protein) (m-fabp) (mammary-derived growth inhibitor) (mdgi). [swissprot;acc:p05413]
	1675		retinal pigment epithelium-specific protein 65kda; retinal pigment epithelium-specific protein (65kd); retinitis pigmentosa 20 (autosomal recessive). [refseq;acc:nm_000329]
	1676		indolethylamine n-methyltransferase (ec 2.1.1.49) (aromatic alkylamine n-methyltransferase) (indolamine n-methyltransferase) (arylamine n- methyltransferase) (amine n-methyltransferase). [swissprot;acc:o95050]
5791.82	1009	6340.86	synapsin iii. [swissprot;acc:o14994]	1.0948
	1010		aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468]
	1011		hairy/enhancer-of-split related with yrpw motif 1 (hairy and enhancer of split related-1) (hesr-1) (cardiovascular helix-loop-helix factor 2) (hes-related repressor protein 2 herp2). [swissprot;acc:q9y5j3]
	1012		actin binding lim protein 2. [refseq;acc:nm_032432]
	1013		hairy/enhancer-of-split related with yrpw motif-like. [refseq;acc:nm_014571]
	1014		synapsin ii. [swissprot;acc:q92777]
	1015		mitochondrial ribosome recycling factor. [refseq;acc:nm_138777]
	1016		peroxisomal targeting signal 1 receptor (peroxismore receptor 1) (peroxisomal c-terminal targeting signal import receptor) (pts1-bp) (peroxin-5) (pts1 receptor). [swissprot;acc:p50542]
	1017		hairy/enhancer-of-split related with yrpw motif 2; gridlock; hes-related repressor protein 1. [refseq;acc:nm_012259]
	1018		transcription factor hes-1 (hairy and enhancer of split 1) (hairy- like) (hhl) (hairy homolog). [swissprot;acc:q14469]
	1019		delta3,5-delta2,4-dienoyl-coa isomerase, mitochondrial precursor (ec 5.3.3.-). [swissprot;acc:q13011]
	1020		actin-binding lim protein 1 isoform a; lim actin-binding protein 1; limatin; actin-binding lim protein. [refseq;acc:nm_002313]
	1021		synapsin i (brain protein 4.1). [swissprot;acc:p17600]
5792.08	1126	6305.67	importin alpha-6 subunit (karyopherin alpha-5 subunit). [swissprot;acc:o15131]	1.08867
5793.29	1368	6248.51	beta adducin (erythrocyte adducin beta subunit). [swissprot;acc:p35612]	1.07858
5793.47	1367	6248.71	megf10 protein. [refseq;acc:nm_032446]
5793.55	1366	6248.79	megf11 protein. [refseq;acc:nm_032445]
5794.8	810	6427.79	jm1 protein. [refseq;acc:nm_014008]	1.10923
5795.13	1115	6314.19	5-methyltetrahydrofolate--homocysteine methyltransferase (ec 2.1.1.13) (methionine synthase, vitamin-b12 dependent) (ms). [swissprot;acc:q99707]	1.08957
5796.03	1431	6243.78	limkain beta 2. [refseq;acc:nm_025140]	1.07725
5797.88	877	6391.75	mitotic spindle assembly checkpoint protein mad2b (mad2-like 2) (hrev7). [swissprot;acc:q9ui95]	1.10243
	878		mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]
	879		nuclear pore complex protein nup88 (nucleoporin nup88) (88 kda nuclear pore complex protein). [swissprot;acc:q99567]
5798.31	1499	6230.55	hepatocyte nuclear factor 3-beta (hnf-3b) (forkhead box protein a2). [swissprot;acc:q9y261]	1.07455
5799.14	1365	6255.04	gamma adducin (adducin-like protein 70). [swissprot;acc:q9uey8]	1.07862
5799.29	1331	6265.2	transaldolase (ec 2.2.1.2). [swissprot;acc:p37837]	1.08034
5799.35	1173	6305.95	chaperone-activity of bc1 complex-like, mitochondrial precursor (chaperone-abc1-like). [swissprot;acc:q8ni60]	1.08735
	1175		aarf domain containing kinase 2; putative ubiquinone biosynthesis protein aarf. [refseq;acc:nm_052853]
	1176		aarf domain containing kinase 4. [refseq;acc:nm_024876]
	1177		aarf domain containing kinase 1. [refseq;acc:nm_020421]
5799.84	2083	6122.18	ran-binding protein 2-like 1 isoform 2; sperm membrane protein bs-63; ran-binding protein 2-like 1. [refseq;acc:nm_032260]	1.05558
5800.22	2084	6122.6
5800.93	2082	6123.38	ran-binding protein 2 (ranbp2) (nuclear pore complex protein nup358) (nucleoporin nup358) (358 kda nucleoporin) (p270). [swissprot;acc:p49792]	1.05559
5800.95	994	6355.71	interleukin-4 induced protein 1 precursor (fig-1 protein). [swissprot;acc:q96rq9]	1.09563
5803.1	1399	6256.03	heterogeneous nuclear ribonucleoprotein h' (hnrnp h') (ftp-3). [swissprot;acc:p55795]	1.07805
5803.12	1398	6256.05	heterogeneous nuclear ribonucleoprotein h (hnrnp h). [swissprot;acc:p31943]
5803.27	1397	6256.23	heterogeneous nuclear ribonucleoprotein f (hnrnp f). [swissprot;acc:p52597]
5803.45	1400	6256.43	heterogeneous nuclear ribonucleoprotein h3 (hnrnp h3) (hnrnp 2h9). [swissprot;acc:p31942]
5803.54	1396	6256.54	g-rich sequence factor-1 (grsf-1). [swissprot;acc:q12849]	1.07806

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.