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

Results: HTML CSV LaTeX

Showing element 58 to 107 of 473 in total

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

description	Rank	Hugo
cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336]	2990	CDK8
cell division protein kinase 9 (ec 2.7.1.-) (serine/threonine-protein kinase pitalre) (c-2k). [swissprot;acc:p50750]	2974	CDK9
centromere/kinetochore protein zw10 homolog. [swissprot;acc:o43264]	3167	ZW10
cisplatin resistance related protein crr9p. [refseq;acc:nm_030782]	3197	CLPTM1L
cleavage stimulation factor, 50 kda subunit (cstf 50 kda subunit) (cf-1 50 kda subunit). [swissprot;acc:q05048]	3129	CSTF1
clll6 protein. [refseq;acc:nm_020456]	3028	C13orf1
collectin sub-family member 12 isoform i; scavenger receptor with c-type lectin; collectin placenta 1; scavenger receptor class a, member 4. [refseq;acc:nm_130386]	2881	COLEC12
complement component c6 precursor. [swissprot;acc:p13671]	3199	C6
complement component c7 precursor. [swissprot;acc:p10643]	3064	C7
complement component c8 alpha chain precursor. [swissprot;acc:p07357]	2886	C8A
complement component c8 beta chain precursor. [swissprot;acc:p07358]	3207	C8B
complement component c9 precursor. [swissprot;acc:p02748]	3057	C9
connective tissue growth factor precursor (hypertrophic chondrocyte- specific protein 24). [swissprot;acc:p29279]	3040	CTGF
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]	3188	WISP2
conserved oligomeric golgi complex component 1. [swissprot;acc:q8wtw3]	2836	COG1
cop-coated vesicle membrane protein p24 precursor (p24a). [swissprot;acc:q15363]	3168	TMED2
cop9 signalosome complex subunit 1 (g protein pathway suppressor 1) (gps1 protein) (mfh protein). [swissprot;acc:q13098]	2827	GPS1
cop9 signalosome complex subunit 2 (signalosome subunit 2) (sgn2) (thyroid receptor interacting protein 15) (trip15). [swissprot;acc:q15647]	2841	COPS2
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]	3183	CBFB
ctcl tumor antigen l14-2. [refseq;acc:nm_018017]	2846	C10orf118
cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]	2983	CCNH
cyclin k. [swissprot;acc:o75909]	3160	CCNK
cyclin t1 (cyclin t) (cyct1). [swissprot;acc:o60563]	3002	CCNT1
cyclin t2. [swissprot;acc:o60583]	3171	CCNT2
cyclin-dependent kinase (cdc2-like) 11; death-preventing kinase. [refseq;acc:nm_015076]	2892	CDC2L6
cyr61 protein precursor (cysteine-rich, angiogenic inducer, 61) (insulin-like growth factor-binding protein 10) (gig1 protein). [swissprot;acc:o00622]	2938	CYR61
cysteine-rich secretory protein-1 precursor (crisp-1) (acidic epididymal glycoprotein homolog) (aeg-like protein) (arp). [swissprot;acc:p54107]	3018	CRISP1
cysteine-rich secretory protein-3 precursor (crisp-3) (sgp28 protein). [swissprot;acc:p54108]	3150	CRISP3
cytochrome c oxidase polypeptide va, mitochondrial precursor (ec 1.9.3.1). [swissprot;acc:p20674]	2791	COX5A
cytochrome c oxidase polypeptide vib (ec 1.9.3.1) (aed). [swissprot;acc:p14854]	3009	COX6B1
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]	3211	CYP24A1
cytochrome p450 27, mitochondrial precursor (ec 1.14.-.-) (cytochrome p-450c27/25) (sterol 26-hydroxylase) (sterol 27-hydroxylase) (vitamin d(3) 25-hydroxylase) (5-beta-cholestane-3-alpha,7-alpha,12-alpha-triol 27-hydroxylase). [swissprot;acc:q02318]	2977	CYP27A1
dachshund homolog isoform a. [refseq;acc:nm_080759]	2847	DACH1
dc12 protein. [refseq;acc:nm_020187]	2774	C3orf37
developmentally regulated gtp-binding protein 1 (drg 1). [swissprot;acc:q9y295]	2762	DRG1
developmentally regulated gtp-binding protein 2 (drg 2). [swissprot;acc:p55039]	3092	DRG2
dgcr8 protein (digeorge syndrome critical region 8). [swissprot;acc:q8wyq5]	3006	DGCR8
dj579f20.1 (high-mobility group (nonhistone chromosomal) protein 1-like 1). [sptrembl;acc:q9nqj4]	3025	HMG1L1
dna excision repair protein ercc-1. [swissprot;acc:p07992]	3216	ERCC1
dna ligase i (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p18858]	3103	LIG1
dna ligase iv (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p49917]	2808	LIG4
dna methyltransferase 1-associated protein 1 (dnmt1-associated protein 1) (dnmap1). [swissprot;acc:q9npf5]	2796	DMAP1
dna mismatch repair protein msh2. [swissprot;acc:p43246]	3151	MSH2
dna mismatch repair protein msh6 (muts-alpha 160 kda subunit) (g/t mismatch binding protein) (gtbp) (gtmbp) (p160). [swissprot;acc:p52701]	3045	MSH6
dna replication licensing factor mcm8 (minichromosome maintenance 8). [swissprot;acc:q9uja3]	3011	MCM8
dna-repair protein complementing xp-a cells (xeroderma pigmentosum group a complementing protein). [swissprot;acc:p23025]	2971	XPA
dna-repair protein complementing xp-f cell (xeroderma pigmentosum group f complementing protein) (dna excision repair protein ercc-4). [swissprot;acc:q92889]	2801	ERCC4
double-stranded rna-binding zinc finger protein jaz. [refseq;acc:nm_012279]	3054	ZNF346
doublesex and mab-3 related transcription factor 3; testis-specific protein; dmrt-like family a3. [refseq;acc:nm_021240]	3187	DMRT3
dual specificity protein phosphatase 11 (ec 3.1.3.48) (rna/rnp complex-intereracting phosphatase) (phosphatase that interacts with rna/rnp complex 1). [swissprot;acc:o75319]	2926	DUSP11

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.