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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 14920 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence

Rank	Value Type	description	Filtered	red	green	network_comparison
7	Ranked	cab2. [refseq;acc:nm_033419]	0	21866	10950	1.99689
		homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]	1	215	322	1.49767
	Squared	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	0	0.00001	1.87479	187479
		sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906]	1	314.926	27.2805	11.544
	Rooted	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	0	0.00001	9.43398	943398
		sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906]	1	33.9632	18.4255	1.84327
8	Measured	db83 protein. [swissprot;acc:p57088]		1153.5	339.5	3.39764
		synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	0	0.00001	43	4300000
	Ranked	hbs1-like. [refseq;acc:nm_006620]	1	215	322	1.49767
		nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]	0	11525	21888	1.89918
	Squared	db83 protein. [swissprot;acc:p57088]	1	314.926	27.2805	11.544
		ero1-like. [refseq;acc:nm_014584]	0	1.59148	0.00001	159148
	Rooted	db83 protein. [swissprot;acc:p57088]	1	33.9632	18.4255	1.84327
		ero1-like. [refseq;acc:nm_014584]	0	9.05539	0.00001	905539
9	Measured	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]		85	6410	75.4118
		tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	1	398.5	1281.5	3.21581
	Ranked	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]	0	11525	21888	1.89918
		xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	1	212	309	1.45755
	Squared	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]	0	0.852071	0.00001	85207.1
		tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	1	37.5863	388.696	10.3414
	Rooted	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]	0	7.74597	0.00001	774597
		tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	1	19.9625	35.798	1.79326
10	Measured	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851]	0	85	6410	75.4118
		tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	1	398.5	1281.5	3.21581
	Ranked	fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757]	0	7509.39	14178.1	1.88805
		protein x 0004. [refseq;acc:nm_016301]	1	212	309	1.45755
	Squared	guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [swissprot;acc:q9byb4]	0	0.00001	0.823905	82390.5
		tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	1	37.5863	388.696	10.3414
	Rooted	guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [swissprot;acc:q9byb4]	0	0.00001	7.68115	768115
		tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	1	19.9625	35.798	1.79326
11	Measured	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]		398.5	1281.5	3.21581
		serpin b12. [swissprot;acc:q96p63]	0	199.549	5.56738	35.8425
	Ranked	potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]		11627	6248	1.86092
		rad50-interacting protein 1. [refseq;acc:nm_021930]	1	337	232	1.45259
	Squared	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]		37.5863	388.696	10.3414
		sedlin. [swissprot;acc:o14582]	0	0.00001	0.437633	43763.3
	Rooted	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	1	19.9625	35.798	1.79326
		sedlin. [swissprot;acc:o14582]	0	0.00001	6.55744	655744
12	Measured	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	1	398.5	1281.5	3.21581
		hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]	0	199.249	5.71669	34.8539
	Ranked	folylpolyglutamate synthase, mitochondrial precursor (ec 6.3.2.17) (folylpoly-gamma-glutamate synthetase) (fpgs). [swissprot;acc:q05932]		9429.18	5208.84	1.81023
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	1	337	232	1.45259
	Squared	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]		37.5863	388.696	10.3414
		synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	0	0.00001	0.437633	43763.3
	Rooted	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	1	19.9625	35.798	1.79326
		synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	0	0.00001	6.55744	655744
13	Measured	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]		1363	47	29
		cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	1	398.5	1281.5	3.21581
	Ranked	heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107]	0	5210.5	9264.5	1.77804
		protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	1	288.754	212.554	1.3585

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.