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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

Results: HTML CSV LaTeX

Showing element 1 to 50 of 2158 in total

Filtered  : 0
Network Comparison Type  : Subtracted
red  : 0

Rank	Value Type	description	Interaction Map	network_comparison	green
13	Rooted	cab2. [refseq;acc:nm_033419]	High confidence	13.1909	13.1909
17		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Low confidence	9.43398	9.43398
18		homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]
19		homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]
25		pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]	High confidence	10.4403	10.4403
26		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]	Low confidence	7.68115	7.68115
30		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	High confidence	9.43398	9.43398
31		homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]
32		homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]
52		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]		7.68115	7.68115
65		sedlin. [swissprot;acc:o14582]		6.55744	6.55744
66		synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]
116		phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing beta polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-beta) (ptdins-3-kinase c2 beta) (pi3k-c2beta) (c2-pi3k). [swissprot;acc:o00750]		4.24264	4.24264
185	Measured	cab2. [refseq;acc:nm_033419]		174	174
265		pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]		109	109
273	Rooted	jumonji protein. [swissprot;acc:q92833]	Low confidence	3.00407	3.00407
289	Measured	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	High confidence	89	89
290		homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]
291		homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]
342		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]		59	59
376		sedlin. [swissprot;acc:o14582]		43	43
377		synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]
402	Squared	cab2. [refseq;acc:nm_033419]		7.16592	7.16592
428	Measured	phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing beta polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-beta) (ptdins-3-kinase c2 beta) (pi3k-c2beta) (c2-pi3k). [swissprot;acc:o00750]		18	18
429	Squared	pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]		2.81207	2.81207
437		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]		1.87479	1.87479
438		homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]
439		homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]
450		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]		0.823905	0.823905
457		sedlin. [swissprot;acc:o14582]		0.437633	0.437633
458		synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]
461	Measured	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Low confidence	89	89
462		homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]
463		homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]
470	Squared	phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing beta polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-beta) (ptdins-3-kinase c2 beta) (pi3k-c2beta) (c2-pi3k). [swissprot;acc:o00750]	High confidence	0.0766864	0.0766864
494	Measured	histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [swissprot;acc:p02261]		0	0
	Squared
	Rooted
495	Measured	histone h2a.a (h2a/a) (h2a.2). [swissprot;acc:p28001]
	Squared
	Rooted
496	Measured	mitochondrial 28s ribosomal protein s6 (mrp-s6). [swissprot;acc:p82932]
	Squared
	Rooted
497	Measured	histone h2a; h2a histone family, member r. [refseq;acc:nm_170745]
	Squared
	Rooted
498	Measured	translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598]
	Squared
	Rooted

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.