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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 2061 in total

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

description	Rank	Interaction Map
caveolin-1. [swissprot;acc:q03135]	3099	High confidence
caveolin-3 (m-caveolin). [swissprot;acc:p56539]	2779
ccr4-not transcription complex, subunit 3; not3 (negative regulator of transcription 3, yeast) homolog. [refseq;acc:nm_014516]	3163
ccr4-not transcription complex, subunit 6-like. [refseq;acc:nm_144571]	2958
ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1]	3226
ccr4-not transcription complex, subunit 8 (caf1-like protein) (califp). [swissprot;acc:q9uff9]	2890
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]	3209
cell division protein kinase 5 (ec 2.7.1.-) (tau protein kinase ii catalytic subunit) (tpkii catalytic subunit) (serine/threonine protein kinase pssalre). [swissprot;acc:q00535]	2850
cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336]	2990
cell division protein kinase 9 (ec 2.7.1.-) (serine/threonine-protein kinase pitalre) (c-2k). [swissprot;acc:p50750]	2974
centromere/kinetochore protein zw10 homolog. [swissprot;acc:o43264]	3167
cisplatin resistance related protein crr9p. [refseq;acc:nm_030782]	3197
cleavage stimulation factor, 50 kda subunit (cstf 50 kda subunit) (cf-1 50 kda subunit). [swissprot;acc:q05048]	3129
clll6 protein. [refseq;acc:nm_020456]	3028
cobw-like protein. [refseq;acc:nm_018491]	5031	Low confidence
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	High confidence
	5028	Low confidence
complement component c6 precursor. [swissprot;acc:p13671]	3199	High confidence
complement component c7 precursor. [swissprot;acc:p10643]	3064
complement component c8 alpha chain precursor. [swissprot;acc:p07357]	2886
complement component c8 beta chain precursor. [swissprot;acc:p07358]	3207
complement component c9 precursor. [swissprot;acc:p02748]	3057
connective tissue growth factor precursor (hypertrophic chondrocyte- specific protein 24). [swissprot;acc:p29279]	3040
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
conserved oligomeric golgi complex component 1. [swissprot;acc:q8wtw3]	2836
cop-coated vesicle membrane protein p24 precursor (p24a). [swissprot;acc:q15363]	3168
cop9 signalosome complex subunit 1 (g protein pathway suppressor 1) (gps1 protein) (mfh protein). [swissprot;acc:q13098]	2827
cop9 signalosome complex subunit 2 (signalosome subunit 2) (sgn2) (thyroid receptor interacting protein 15) (trip15). [swissprot;acc:q15647]	2841
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
	5059	Low confidence
ctcl tumor antigen l14-2. [refseq;acc:nm_018017]	2846	High confidence
cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]	2983
cyclin k. [swissprot;acc:o75909]	3160
cyclin t1 (cyclin t) (cyct1). [swissprot;acc:o60563]	3002
cyclin t2. [swissprot;acc:o60583]	3171
cyclin-dependent kinase (cdc2-like) 11; death-preventing kinase. [refseq;acc:nm_015076]	2892
cyr61 protein precursor (cysteine-rich, angiogenic inducer, 61) (insulin-like growth factor-binding protein 10) (gig1 protein). [swissprot;acc:o00622]	2938
cysteine-rich secretory protein-1 precursor (crisp-1) (acidic epididymal glycoprotein homolog) (aeg-like protein) (arp). [swissprot;acc:p54107]	3018
cysteine-rich secretory protein-3 precursor (crisp-3) (sgp28 protein). [swissprot;acc:p54108]	3150
cytochrome c oxidase polypeptide va, mitochondrial precursor (ec 1.9.3.1). [swissprot;acc:p20674]	2791
cytochrome c oxidase polypeptide vib (ec 1.9.3.1) (aed). [swissprot;acc:p14854]	3009
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
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
dachshund homolog isoform a. [refseq;acc:nm_080759]	2847
dc12 protein. [refseq;acc:nm_020187]	2774
developmentally regulated gtp-binding protein 1 (drg 1). [swissprot;acc:q9y295]	2762
developmentally regulated gtp-binding protein 2 (drg 2). [swissprot;acc:p55039]	3092
dgcr8 protein (digeorge syndrome critical region 8). [swissprot;acc:q8wyq5]	3006
dj579f20.1 (high-mobility group (nonhistone chromosomal) protein 1-like 1). [sptrembl;acc:q9nqj4]	3025
dna excision repair protein ercc-1. [swissprot;acc:p07992]	3216

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.