Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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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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 [...,...].

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

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Showing element 501 to 550 of 77072 in total

Filtered

: 0
Value Type

: Measured
Interaction Map

: High confidence

network_comparison	green	Network Comparison Type	red	Rank	description
3.04255	47	Divided	143	34	glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926]
3.072	796.85	Subtracted	793.778	466	sprouty homolog 4 (spry-4). [swissprot;acc:q9c004]
3.15402	39.8063	Divided	12.6208	33	lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893]
3.25	184		598	32	cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336]
3.82335	111.739		427.217	30	dystrophin. [swissprot;acc:p11532]
3.901	151.122	Subtracted	147.221	465	alpha-nac protein. [sptrembl;acc:q9h009]
3.90833	434.911	Divided	111.278	29	potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281]
4	19	Subtracted	23	464	adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559]
4.087	150.709	Subtracted	146.622	463	nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594]
4.10072	139	Divided	570	27	phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086]
4.10072	139		570	28	beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938]
4.3268	662		153	26	fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402]
4.687	701.071	Subtracted	705.758	462	survival motor neuron protein (component of gems 1) (gemin1). [swissprot;acc:q16637]
5.015	604.911	Subtracted	599.896	461	transcription initiation factor tfiid 20/15 kda subunits (tafii- 20/tafii-15) (tafii20/tafii15). [swissprot;acc:q16514]
5.22297	773	Divided	148	25	potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]
5.26667	158	Divided	30	24	ptd016 protein. [refseq;acc:nm_016125]
5.3334	14.3333	Subtracted	19.6667	460	4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404]
5.5	206.5	Subtracted	201	459	testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [swissprot;acc:p16562]
6.73106	17.6611	Divided	118.878	21	syntaxin 10 (syn10). [swissprot;acc:o60499]
7.7	1310.67	Subtracted	1318.37	458	adenylosuccinate synthase-like 1. [refseq;acc:nm_152328]
8	5046.33		5038.33	457	3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8]
8.1	226.81		218.71	456	glycerol kinase, testis specific 2 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14410]
8.112	227.143		219.031	455	glycerol kinase, testis specific 1 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14409]
8.118	227.308		219.19	454	glycerol kinase (ec 2.7.1.30) (atp:glycerol 3-phosphotransferase) (glycerokinase) (gk). [swissprot;acc:p32189]
8.821	533.236		524.415	453	protein disulfide isomerase precursor (pdi) (ec 5.3.4.1) (prolyl 4- hydroxylase beta subunit) (cellular thyroid hormone binding protein) (p55). [swissprot;acc:p07237]
9.32	219.891		229.211	452	60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914]
9.76	1372.31		1362.55	451	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]
11.6763	26.1599	Divided	305.45	18	60s ribosomal protein l37a. [swissprot;acc:p12751]
11.6763	26.1599	Divided	305.45	19	25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528]
12	43	Subtracted	31	450	methyltransferase like 2. [refseq;acc:nm_018396]
13.333	546		532.667	449	protein c20orf45 (cgi-107). [swissprot;acc:q9y3b1]
13.498	156.3		142.802	448	syntaxin 1a (neuron-specific antigen hpc-1). [swissprot;acc:q16623]
13.501	485.852		472.351	447	tbp-associated factor 9l; neuronal cell death-related protein; taf9-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 31 kd; neuronal cell death-related gene in neuron-7; transcription associated factor tafii31l; transcription initiation factor iid, 31kd subunit. [refseq;acc:nm_015975]
13.8767	37.4843		23.6076	446	suppressor of actin 1. [refseq;acc:nm_014016]
14	15		1	443	protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992]
	56		42	442	maspin precursor (protease inhibitor 5). [swissprot;acc:p36952]
				444	serpin b11. [swissprot;acc:q96p15]
				445	cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]
14.077	149.371		135.294	440	forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488]
14.077	149.371		135.294	441	interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123]
14.51	1248.14		1262.65	439	dihydrofolate reductase (ec 1.5.1.3). [swissprot;acc:p00374]
14.553	161.091		175.644	438	dead (asp-glu-ala-asp) box polypeptide 47; hqp0256 protein. [refseq;acc:nm_016355]
14.8103	58	Divided	859	17	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]
15	15	Divided	1	16	protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992]
15.287	476.639	Subtracted	491.926	437	importin 4. [refseq;acc:nm_024658]
15.6	156	Divided	10	15	succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521]
15.88	1483.62	Subtracted	1467.74	436	ischemia/reperfusion inducible protein. [refseq;acc:nm_024640]
16.74	2335.98		2319.24	435	alpha-1-acid glycoprotein 2 precursor (agp 2) (orosomucoid 2) (omd 2). [swissprot;acc:p19652]
17.27	2263.85		2281.12	434	26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [swissprot;acc:o00232]
17.465	359.98		377.445	433	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8]

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.

- http://analysis.yellowcouch.org/