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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 401 to 450 of 29840 in total

Interaction Map

: High confidence

Rank	Value Type	description	Network Comparison Type	green	Filtered	red	network_comparison
26	Measured	fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402]	Divided	662	0	153	4.3268
		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6]	Divided	892.67	1	1833.01	2.0534
		hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	Subtracted	18263	1	23693.7	5430.7
		ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]	Subtracted	2063	0	2965.5	902.5
	Ranked	dystrobrevin binding protein 1; dysbindin. [refseq;acc:nm_032122]	Divided	7533.33		12128.3	1.60995
		microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268]	Subtracted	17173.8		11284	5889.8
		pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	Divided	44	1	58	1.31818
		protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	Subtracted	253	1	322	69
	Squared	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]	Divided	0.344399	0	44.3683	128.828
		melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]	Subtracted	129762	1	219048	89286
		neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]	Divided	457.521	1	143.692	3.18404
		regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754]	Subtracted	12858.5	0	21273.2	8414.7
	Rooted	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]	Divided	3.80565		13.7805	3.62106
		filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]	Subtracted	29.9666		40.0375	10.0709
		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151]	Divided	24.2954	1	40.3362	1.66024
		myosin vc (myosin 5c). [swissprot;acc:q9nqx4]	Subtracted	167.046	1	146.94	20.106
27	Measured	baculoviral iap repeat-containing protein 5 (apoptosis inhibitor survivin) (apoptosis inhibitor 4). [swissprot;acc:o15392]	Subtracted	13463.1	0	14357.1	894
		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150]	Divided	895.134	1	1834.33	2.04922
		melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	Subtracted	18263	1	23693.7	5430.7
		phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086]	Divided	139	0	570	4.10072
	Ranked	60s ribosomal protein l37a. [swissprot;acc:p12751]	Subtracted	18499.2	0	12941.7	5557.5
		guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148]	Subtracted	336.077	1	267.136	68.941
		mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Divided	44	1	58	1.31818
		ptd016 protein. [refseq;acc:nm_016125]	Divided	11234	0	18050	1.60673
	Squared	imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549]	Subtracted	159204	0	151156	8048
		melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	Subtracted	129762	1	219048	89286
		neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]	Divided	457.521	1	143.692	3.18404
		syntaxin 10 (syn10). [swissprot;acc:o60499]	Divided	0.109658	0	4.29982	39.2112
	Rooted	60s ribosomal protein l37a. [swissprot;acc:p12751]	Subtracted	3.80565		13.7805	9.97485
		dystrophin. [swissprot;acc:p11532]	Divided	5.12693		17.8026	3.47237
		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8]	Divided	24.2968	1	40.3364	1.66015
		myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	Subtracted	167.046	1	146.94	20.106
28	Measured	beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938]	Divided	139	0	570	4.10072
		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798]	Divided	895.194	1	1834.36	2.04912
		necdin. [swissprot;acc:q99608]	Subtracted	18263	1	23693.7	5430.7
		spectrin beta chain, brain 4 (spectrin, non-erythroid beta chain 4) (beta-v spectrin) (bspecv). [swissprot;acc:q9nrc6]		4543.75	0	5418.2	874.45
	Ranked	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]		18499.2	0	12941.7	5557.5
		cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847]	Divided	153.671	1	201.949	1.31416
		guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992]	Subtracted	336.077	1	267.136	68.941
		p28 ing5. [refseq;acc:nm_032329]	Divided	7562.05	0	12124.8	1.60337
	Squared	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	Subtracted	129762	1	219048	89286
		microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378]	Subtracted	159204	0	151156	8048
		neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]	Divided	457.521	1	143.692	3.18404
		ptd016 protein. [refseq;acc:nm_016125]	Divided	5.90864	0	0.213018	27.7377
	Rooted	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]	Subtracted	3.80565	0	13.7805	9.97485
		gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]	Subtracted	129.699	1	149.165	19.466
		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152]	Divided	24.3043	1	40.3372	1.65967
		syntaxin 10 (syn10). [swissprot;acc:o60499]		3.64637	0	9.62443	2.63946
29	Measured	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08]		895.507	1	1834.52	2.04858
29	Measured	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	Subtracted	18263	1	23693.7	5430.7

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/