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

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

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Showing element 101 to 150 of 515 in total

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

description	Rank	Hugo	Interaction Map
dna ligase i (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p18858]	3103	LIG1	High confidence
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
	5047		Low confidence
doublesex and mab-3 related transcription factor 3; testis-specific protein; dmrt-like family a3. [refseq;acc:nm_021240]	3187	DMRT3	High confidence
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
dynein 2 light intermediate chain. [refseq;acc:nm_016008]	2962	DYNC2LI1
dynein intermediate chain 1, axonemal (axonemal dynein intermediate chain 1). [swissprot;acc:q9ui46]	3029	DNAI1
ecotropic virus integration 1 site protein. [swissprot;acc:q03112]	3170	EVI1
ell-associated factor 2; uncharacterized bone marrow protein bm040; testosterone regulated apoptosis inducer and tumor suppressor. [refseq;acc:nm_018456]	2921	EAF2
elongation factor ts, mitochondrial precursor (ef-ts) (ef-tsmt). [swissprot;acc:p43897]	3027	TSFM
endosome-associated fyve-domain protein. [refseq;acc:nm_014733]	3200	ZFYVE16
enhancer of zeste homolog 1 (enx-2). [swissprot;acc:q92800]	3090	EZH1
enhancer of zeste homolog 2 (enx-1). [swissprot;acc:q15910]	3098	EZH2
ergic-53 protein precursor (er-golgi intermediate compartment 53 kda protein) (lectin, mannose-binding 1) (gp58) (intracellular mannose specific lectin mr60). [swissprot;acc:p49257]	3177	LMAN1
erythroid differentiation-related factor 1. [refseq;acc:nm_015608]	3095	C10orf137
eukaryotic initiation factor 4a-i (eif-4a-i) (eif4a-i). [swissprot;acc:p04765]	2868	SNORA67
eukaryotic initiation factor 4a-ii (eif-4a-ii) (eif4a-ii). [swissprot;acc:q14240]	2888	EIF4A2
exocyst complex component exo70. [swissprot;acc:q9upt5]	2781	EXOC7
ezrin-binding partner pace-1 isoform 1. [refseq;acc:nm_020423]	3228	SCYL3
fatty aldehyde dehydrogenase (ec 1.2.1.3) (aldehyde dehydrogenase, microsomal) (aldh class 3). [swissprot;acc:p51648]	3181	ALDH3A2
ferrochelatase, mitochondrial precursor (ec 4.99.1.1) (protoheme ferro-lyase) (heme synthetase). [swissprot;acc:p22830]	3185	FECH
fibrillin 1 precursor. [swissprot;acc:p35555]	2844	FBN1
fibrillin 2 precursor. [swissprot;acc:p35556]	2955	FBN2
fibrillin 3. [refseq;acc:nm_032447]	2939	FBN3
flap endonuclease-1 (ec 3.-.-.-) (maturation factor 1) (mf1). [swissprot;acc:p39748]	2831	FEN1
fructose-bisphosphate aldolase a (ec 4.1.2.13) (muscle-type aldolase) (lung cancer antigen ny-lu-1). [swissprot;acc:p04075]	2907	ALDOA
fructose-bisphosphate aldolase b (ec 4.1.2.13) (liver-type aldolase). [swissprot;acc:p05062]	2973	ALDOB
fructose-bisphosphate aldolase c (ec 4.1.2.13) (brain-type aldolase). [swissprot;acc:p09972]	3087	ALDOC
fyve-finger-containing rab5 effector protein rabenosyn-5. [refseq;acc:nm_022340]	2998	ZFYVE20
g protein-coupled receptor 66. [refseq;acc:nm_006056]	2815	NMUR1
gamma-glutamyltransferase-like activity 4; gamma-glutamyltranspeptidase-like. [refseq;acc:nm_080920]	5029	GGTLA4	Low confidence
gamma-glutamyltransferase. [sptrembl;acc:q14390]	5053	GGTL4
gamma-glutamyltranspeptidase 1 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 1) (cd224 antigen). [swissprot;acc:p19440]	5054	GGT1
gamma-glutamyltranspeptidase 2 (ec 2.3.2.2) (gamma-glutamyltransferase 2) (fragment). [swissprot;acc:p36268]	5020	no value
gamma-glutamyltranspeptidase 5 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 5) (ggt-rel). [swissprot;acc:p36269]	5055	GGTLA1
gamma-interferon inducible lysosomal thiol reductase precursor (gamma-interferon-inducible protein ip-30). [swissprot;acc:p13284]	3101	no value	High confidence
gdp-fucose protein o-fucosyltransferase 1 precursor (ec 2.4.1.221) (peptide o-fucosyltransferase) (o-fuct-1). [swissprot;acc:q9h488]	3125	POFUT1
geranylgeranyl transferase type ii beta subunit (ec 2.5.1.-) (rab geranylgeranyltransferase beta subunit) (rab geranyl- geranyltransferase beta subunit) (rab gg transferase beta) (rab ggtase beta). [swissprot;acc:p53611]	2963	RABGGTB
glioma pathogenesis-related protein (glipr) (rtvp-1 protein). [swissprot;acc:p48060]	2953	GLIPR1
glioma tumor suppressor candidate region gene 2 protein (p60). [swissprot;acc:q9nzm5]	3104	SNORD23
glioma-amplified sequence-41; numa binding protein 1. [refseq;acc:nm_006530]	3007	YEATS4
glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926]	3058	GNPDA1
glucosamine-6-phosphate isomerase. [refseq;acc:nm_138335]	2861	GNPDA2

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.