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

Results: HTML CSV LaTeX

Showing element 1 to 50 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
1-phosphatidylinositol-4,5-bisphosphate phosphodiesterase beta 4 (ec 3.1.4.11) (phosphoinositide phospholipase c) (plc-beta-4) (phospholipase c-beta-4). [swissprot;acc:q15147]	3126	PLCB4	High confidence
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891]	2922	ALDH1L1
14-3-3 protein epsilon (mitochondrial import stimulation factor l subunit) (protein kinase c inhibitor protein-1) (kcip-1) (14-3-3e). [swissprot;acc:p42655]	3088	YWHAE
15-hydroxyprostaglandin dehydrogenase [nad(+)] (ec 1.1.1.141) (pgdh). [swissprot;acc:p15428]	2855	HPGD
25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528]	3079	CYP27B1
3 beta-hydroxy-delta 5-c27-steroid oxidoreductase. [refseq;acc:nm_025193]	3147	HSD3B7
3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8]	2756	no value
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]	2802
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]	3180	HSD17B10
6-pyruvoyl tetrahydrobiopterin synthase (ec 4.2.3.12) (ptps) (ptp synthase). [swissprot;acc:q03393]	2904	PTS
60s ribosomal protein l37a. [swissprot;acc:p12751]	2959	no value
69 kda islet cell autoantigen (ica69) (islet cell autoantigen 1) (islet cell autoantigen p69) (icap69). [swissprot;acc:q05084]	3227	ICA1
a-kinase anchor protein 5 (a-kinase anchor protein 79 kda) (akap 79) (camp-dependent protein kinase regulatory subunit ii high affinity binding protein) (h21). [swissprot;acc:p24588]	2788	AKAP5
activin receptor type i precursor (ec 2.7.1.37) (actr-i) (serine/threonine-protein kinase receptor r1) (skr1) (activin receptor-like kinase 2) (alk-2) (tgf-b superfamily receptor type i) (tsr-i). [swissprot;acc:q04771]	3050	ACVR1
adaptor protein with pleckstrin homology and src homology 2 domains. [refseq;acc:nm_020979]	2870	SH2B2
aldehyde dehydrogenase 7 (ec 1.2.1.5). [swissprot;acc:p43353]	3222	ALDH3B1
aldehyde dehydrogenase 8 (ec 1.2.1.5). [swissprot;acc:p48448]	2992	ALDH3B2
aldehyde oxidase (ec 1.2.3.1). [swissprot;acc:q06278]	2960	AOX1
alpha crystallin a chain. [swissprot;acc:p02489]	2875	CRYAA
alpha crystallin b chain (alpha(b)-crystallin) (rosenthal fiber component). [swissprot;acc:p02511]	3082	CRYAB
alveolar soft part sarcoma chromosome region, candidate 1; aspl protein; renal cell carcinoma gene on chromosome 17; renal cell carcinoma, papillary, 17 gene; aspscr1/tfe3 fusion gene, included. [refseq;acc:nm_024083]	2829	ASPSCR1
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]	3191	APPBP2
ariadne-2 protein homolog (ari-2) (triad1 protein) (ht005). [swissprot;acc:o95376]	2798	ARIH2
atp synthase coupling factor 6, mitochondrial precursor (ec 3.6.3.14) (f6). [swissprot;acc:p18859]	2893	ATP5J
atp synthase g chain, mitochondrial (ec 3.6.3.14) (atpase subunit g). [swissprot;acc:o75964]	2834	ATP5L
au rna-binding protein/enoyl-coenzyme a hydratase precursor; au rna-binding protein/enoyl-coenzyme a hydratase; 3-methylglutaconyl-coa hydratase; mga type i. [refseq;acc:nm_001698]	2913	AUH
ba203i16.1 (hypothetical protein kiaa0970). [sptrembl;acc:q9h1w1]	3117	FNDC3A
ba528a10.3.2 (novel protein similar to kiaa0161, isoform 2) (fragment). [sptrembl;acc:q9bx39]	2968	RNF144B
barrier-to-autointegration factor (breakpoint cluster region protein 1). [swissprot;acc:o75531]	2804	BANF1
bax inhibitor-1 (bi-1) (testis enhanced gene transcript). [swissprot;acc:p55061]	2950	TEGT
bcl-6 interacting corepressor isoform 1. [refseq;acc:nm_017745]	2776	BCOR
beta-ureidopropionase (ec 3.5.1.6) (beta-alanine synthase) (n-carbamoyl-beta-alanine amidohydrolase) (bup-1). [swissprot;acc:q9ubr1]	3145	UPB1
bone morphogenetic protein 5 precursor (bmp-5). [swissprot;acc:p22003]	3069	BMP5
bone morphogenetic protein 6 precursor (bmp-6). [swissprot;acc:p22004]	2896	BMP6
bone morphogenetic protein 7 precursor (bmp-7) (osteogenic protein 1) (op-1). [swissprot;acc:p18075]	3128	BMP7
bone morphogenetic protein 8 precursor (bmp-8) (osteogenic protein 2) (op-2). [swissprot;acc:p34820]	2773	BMP8A
brca1 associated protein. [refseq;acc:nm_006768]	3161	BRAP
bromodomain and phd finger-containing protein 3 (fragment). [swissprot;acc:q9uld4]	3149	BRPF3
bromodomain-containing protein 1 (br140-like protein). [swissprot;acc:o95696]	3139	BRD1
bs4 protein (ny-ren-18 antigen). [swissprot;acc:q9y5a7]	3214	NUB1
bup protein. [refseq;acc:nm_012071]	2911	COMMD3
calmodulin. [swissprot;acc:p02593]	2928	no value
camp responsive element binding protein-like 2. [refseq;acc:nm_001310]	3078	CREBL2
camp-dependent protein kinase type i-alpha regulatory chain (tissue- specific extinguisher-1) (tse1). [swissprot;acc:p10644]	3089	PRKAR1A
carcinoma related gene. [refseq;acc:nm_016041]	3179	DERL2
	5058		Low confidence
carnitine o-palmitoyltransferase ii, mitochondrial precursor (ec 2.3.1.21) (cpt ii). [swissprot;acc:p23786]	2885	CPT2	High confidence
casein kinase i, gamma 1 isoform (ec 2.7.1.-) (cki-gamma 1). [swissprot;acc:q9hcp0]	2830	CSNK1G1
casein kinase i, gamma 2 isoform (ec 2.7.1.-) (cki-gamma 2). [swissprot;acc:p78368]	2986	CSNK1G2
casein kinase i, gamma 3 isoform (ec 2.7.1.-) (cki-gamma 3). [swissprot;acc:q9y6m4]	2901	CSNK1G3

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.