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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 175 to 224 of 1892 in total

Network Comparison Type  : Subtracted
Interaction Map  : High confidence
Filtered  : 1
red  : 0
network_comparison  : 0
green  : 0

Rank	Hugo	Value Type	description
2799	HMGB4	Squared	hmg2 like. [refseq;acc:nm_145205]
		Rooted
2800	MLXIP	Measured	mondoa. [refseq;acc:nm_014938]
		Ranked
		Squared
		Rooted
2801	ERCC4	Measured	dna-repair protein complementing xp-f cell (xeroderma pigmentosum group f complementing protein) (dna excision repair protein ercc-4). [swissprot;acc:q92889]
		Ranked
		Squared
		Rooted
2802	no value	Measured	3 beta-hydroxysteroid dehydrogenase/delta 5-->4-isomerase type i (3beta-hsd i) (trophoblast antigen fdo161g) [includes: 3-beta-hydroxy- delta(5)-steroid dehydrogenase (ec 1.1.1.145) (3-beta-hydroxy-5-ene steroid dehydrogenase) (progesterone reductase); steroid delta- isomerase (ec 5.3.3.1) (delta-5-3-ketosteroid isomerase)]. [swissprot;acc:p14060]
		Ranked
		Squared
		Rooted
2803		Measured	nanos (fragment). [sptrembl;acc:q8wy41]
		Ranked
		Squared
		Rooted
2804	BANF1	Measured	barrier-to-autointegration factor (breakpoint cluster region protein 1). [swissprot;acc:o75531]
		Ranked
		Squared
		Rooted
2805	PACS1	Measured	phosphofurin acidic cluster sorting protein 1 isoform 1; cytosolic sorting protein pacs-1. [refseq;acc:nm_018026]
		Ranked
		Squared
		Rooted
2806	SPSB4	Measured	spry domain-containing socs box protein ssb-4. [refseq;acc:nm_080862]
		Ranked
		Squared
		Rooted
2807	RAB1C	Measured	ras-related protein rab-1b. [swissprot;acc:q9h0u4]
		Ranked
		Squared
		Rooted
2808	LIG4	Measured	dna ligase iv (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p49917]
		Ranked
		Squared
		Rooted
2809	PHC3	Measured	polyhomeotic like 3; early development regulator 3; polyhomeotic 3. [refseq;acc:nm_024947]
		Ranked
		Squared
		Rooted
2810	UGT2A1	Measured	udp glycosyltransferase 2 family, polypeptide a1; udp glucuronosyltransferase 2 family, polypeptide a1. [refseq;acc:nm_006798]
		Ranked
		Squared
		Rooted
2811	VEGFB	Measured	vascular endothelial growth factor b precursor (vegf-b) (vegf related factor) (vrf). [swissprot;acc:p49765]
		Ranked
		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
- Hugo is the HGNC identifier if it exists
- 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.