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

Results: HTML CSV LaTeX

Showing element 425 to 474 of 515 in total

Network Comparison Type  : Subtracted
Value Type  : Ranked
Filtered  : 1
red  : 0
green  : 0
network_comparison  : 0

Rank	description	Hugo	Interaction Map
3180	3-hydroxyacyl-coa dehydrogenase type ii (ec 1.1.1.35) (type ii hadh) (endoplasmic reticulum-associated amyloid beta-peptide binding protein) (short-chain type dehydrogenase/reductase xh98g2). [swissprot;acc:q99714]	HSD17B10	High confidence
3181	fatty aldehyde dehydrogenase (ec 1.2.1.3) (aldehyde dehydrogenase, microsomal) (aldh class 3). [swissprot;acc:p51648]	ALDH3A2
3182	transcription factor e2-alpha (immunoglobulin enhancer binding factor e12/e47) (transcription factor-3) (tcf-3) (immunoglobulin transcription factor-1) (transcription factor itf-1) (kappa-e2-binding factor). [swissprot;acc:p15923]	TCF3
3183	core-binding factor, beta subunit (cbf-beta) (polyomavirus enhancer binding protein 2 beta subunit) (pebp2-beta) (pea2-beta) (sl3-3 enhancer factor 1 beta subunit) (sl3/akv core-binding factor beta subunit). [swissprot;acc:q13951]	CBFB
3184	nuclear autoantigen sp-100 (speckled 100 kda) (nuclear dot-associated sp100 protein) (lysp100b). [swissprot;acc:p23497]	SP100
3185	ferrochelatase, mitochondrial precursor (ec 4.99.1.1) (protoheme ferro-lyase) (heme synthetase). [swissprot;acc:p22830]	FECH
3186	protein kinase c, theta type (ec 2.7.1.-) (npkc-theta). [swissprot;acc:q04759]	PRKCQ
3187	doublesex and mab-3 related transcription factor 3; testis-specific protein; dmrt-like family a3. [refseq;acc:nm_021240]	DMRT3
3188	connective tissue growth factor-like protein precursor (ctgf-l) (wnt1 inducible signaling pathway protein 2) (wisp-2) (connective tissue growth factor-related protein 58). [swissprot;acc:o76076]	WISP2
3189	ring finger protein 4. [swissprot;acc:p78317]	RNF4
3190	myotubularin-related protein 1 (ec 3.1.3.-). [swissprot;acc:q13613]	MTMR1
3191	amyloid beta precursor protein-binding protein 2; amyloid beta precursor protein (cytoplasmic tail)-binding protein 2; protein interacting with app tail 1. [refseq;acc:nm_006380]	APPBP2
3192	ubiquitin carboxyl-terminal hydrolase 13 (ec 3.1.2.15) (ubiquitin thiolesterase 13) (ubiquitin-specific processing protease 13) (deubiquitinating enzyme 13) (isopeptidase t-3) (isot-3). [swissprot;acc:q92995]	USP13
3193	rab gdp dissociation inhibitor beta (rab gdi beta) (gdi-2). [swissprot;acc:p50395]	GDI2
3194	muts protein homolog 4. [swissprot;acc:o15457]	MSH4
3195	integrin beta-3 precursor (platelet membrane glycoprotein iiia) (gpiiia) (cd61 antigen). [swissprot;acc:p05106]	ITGB3
3196	homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein (methyl methanesulfonate (mmf)-inducible fragment protein 1). [swissprot;acc:q15011]	HERPUD1
3197	cisplatin resistance related protein crr9p. [refseq;acc:nm_030782]	CLPTM1L
3198	rp42 homolog; squamous cell carcinoma-related oncogene. [refseq;acc:nm_020640]	DCUN1D1
3199	complement component c6 precursor. [swissprot;acc:p13671]	C6
3200	endosome-associated fyve-domain protein. [refseq;acc:nm_014733]	ZFYVE16
3201	recessive polycystic kidney disease protein tg737 homolog. [swissprot;acc:q13099]	IFT88
3202	ran binding protein 3 isoform ranbp3-d; ran-binding protein-3. [refseq;acc:nm_007322]	RANBP3
3203	high mobility group protein 4 (hmg-4) (high mobility group protein 2a) (hmg-2a). [swissprot;acc:o15347]	HMGB3
3204	vaccinia related kinase 2; vaccinia-related kinase-2. [refseq;acc:nm_006296]	VRK2
3205	rb1-inducible coiled coil protein 1. [refseq;acc:nm_014781]	RB1CC1
3206	protein c20orf43 (hspc164/hspc169) (ad-007) (cda05). [swissprot;acc:q9by42]	C20orf43
3207	complement component c8 beta chain precursor. [swissprot;acc:p07358]	C8B
3208	runt-related transcription factor 3 (core-binding factor, alpha 3 subunit) (cbf-alpha 3) (acute myeloid leukemia 2 protein) (oncogene aml-2) (polyomavirus enhancer binding protein 2 alpha c subunit) (pebp2-alpha c) (pea2-alpha c) (sl3-3 enhancer factor 1 alpha c subunit) (sl3/akv core-binding factor alpha c subunit). [swissprot;acc:q13761]	RUNX3
3209	cdk-activating kinase assembly factor mat1 (ring finger protein mat1) (menage a trois) (cdk7/cyclin h assembly factor) (p36) (p35) (cyclin g1 interacting protein). [swissprot;acc:p51948]	MNAT1
3210	trabid protein. [swissprot;acc:q9ugi0]	ZRANB1
3211	cytochrome p450 24a1, mitochondrial precursor (ec 1.14.-.-) (p450- cc24) (vitamin d(3) 24-hydroxylase) (1,25-dihydroxyvitamin d(3) 24- hydroxylase) (24-ohase). [swissprot;acc:q07973]	CYP24A1
3212	rala binding protein 1; rala-binding protein. [refseq;acc:nm_006788]	RALBP1
3213	malate dehydrogenase, cytoplasmic (ec 1.1.1.37). [swissprot;acc:p40925]	MDH1
3214	bs4 protein (ny-ren-18 antigen). [swissprot;acc:q9y5a7]	NUB1
3215	membrane-bound transcription factor site 2 protease (ec 3.4.24.-) (site-2 protease) (sterol-regulatory element-binding proteins intramembrane protease). [swissprot;acc:o43462]	MBTPS2
3216	dna excision repair protein ercc-1. [swissprot;acc:p07992]	ERCC1
3217	sex comb on midleg homolog 1. [refseq;acc:nm_012236]	SCMH1
3218	williams-beuren syndrome chromosome region 14 protein (ws basic-helix- loop-helix leucine zipper protein) (ws-bhlh) (mlx interactor). [swissprot;acc:q9np71]	MLXIPL
3219	protein c6orf55 (dopamine responsive protein drg-1) (my012 protein) (hspc228). [swissprot;acc:q9np79]	VTA1
3220	transcription factor ap-2 beta (ap2-beta) (activating enhancer-binding protein 2 beta). [swissprot;acc:q92481]	TFAP2B
3221	platelet-activating factor acetylhydrolase ib alpha subunit (ec 3.1.1.47) (paf acetylhydrolase 45 kda subunit) (paf-ah 45 kda subunit) (paf-ah alpha) (pafah alpha) (lissencephaly-1 protein) (lis- 1). [swissprot;acc:p43034]	PAFAH1B1
3222	aldehyde dehydrogenase 7 (ec 1.2.1.5). [swissprot;acc:p43353]	ALDH3B1
3223	ras-related protein ral-a. [swissprot;acc:p11233]	RALA
3224	integrin alpha-3 precursor (galactoprotein b3) (gapb3) (vla-3 alpha chain) (cd49c). [swissprot;acc:p26006]	ITGA3
3225	heat-shock 20 kda like-protein p20. [swissprot;acc:o14558]	HSPB6
3226	ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1]	no value
3227	69 kda islet cell autoantigen (ica69) (islet cell autoantigen 1) (islet cell autoantigen p69) (icap69). [swissprot;acc:q05084]	ICA1
3228	ezrin-binding partner pace-1 isoform 1. [refseq;acc:nm_020423]	SCYL3
5019	jerky protein homolog like (hhmjg). [swissprot;acc:q9y4a0]	JRKL	Low confidence

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.