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.

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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 38536 in total

Network Comparison Type  : Divided

Rank	description	Filtered	Interaction Map	Value Type	network_comparison	red	green
1	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	0	High confidence	Ranked	3.70633	4294	15915
	cab2. [refseq;acc:nm_033419]			Squared	716592	0.00001	7.16592
	carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	1	Low confidence	Ranked	2	16	32
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	0		Squared	187479	0.00001	1.87479
	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	1		Measured	4.4149	2399.5	543.5
				Squared	19.4914	1362.75	69.9153
				Rooted	2.10117	48.9847	23.3131
	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	0	High confidence	Measured	36400000	364	0.00001
				Rooted	1907880	19.0788
			Low confidence	Measured	36400000	364
				Rooted	1907880	19.0788
	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]			Ranked	2.55362	5865	14977
	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	1	High confidence		2.4	10	24
	rad50-interacting protein 1. [refseq;acc:nm_021930]			Measured	5.31521	450.5	2394.5
				Squared	28.2513	48.0356	1357.07
				Rooted	2.30547	21.225	48.9336
2	cab2. [refseq;acc:nm_033419]	0		Measured	17400000	0.00001	174
	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	1	Low confidence		4.4149	2399.5	543.5
				Squared	19.4914	1362.75	69.9153
				Rooted	2.10117	48.9847	23.3131
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	0		Measured	8900000	0.00001	89
				Rooted	943398		9.43398
	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]			Squared	187479		1.87479
	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	1		Ranked	1.47982	223	330
	mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]		High confidence		1.86667	15	28
	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	0	Low confidence		2.45711	8906	21883
	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]		High confidence		2.55362	5865	14977
	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]			Squared	561325	5.61325	0.00001
				Rooted	1240970	12.4097
	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	1		Measured	5.31521	450.5	2394.5
				Squared	28.2513	48.0356	1357.07
				Rooted	2.30547	21.225	48.9336
3	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]		Low confidence	Ranked	1.47982	223	330
	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]			Measured	4.4149	2399.5	543.5
				Squared	19.4914	1362.75	69.9153
				Rooted	2.10117	48.9847	23.3131
	cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]		High confidence	Ranked	1.86667	15	28
	homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]			Measured	3.71868	2597.5	698.5
				Squared	13.8285	1596.92	115.48
				Rooted	1.92839	50.9657	26.4292
	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	0	Low confidence	Squared	187479	0.00001	1.87479
	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]			Measured	8900000		89
				Rooted	943398		9.43398
	neurogenic locus notch homolog protein 1 precursor (notch 1) (hn1) (translocation-associated notch protein tan-1). [swissprot;acc:p46531]			Ranked	2.14604	9607	20617
	nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]		High confidence		2.47638	4475.84	11083.9
	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]			Measured	10900000	0.00001	109
	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]			Squared	561325	5.61325	0.00001
				Rooted	1240970	12.4097
4	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534]	1	Low confidence	Ranked	1.47982	223	330
	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]		High confidence		1.86667	15	28

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.