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

Results: HTML CSV LaTeX

Showing element 263 to 312 of 473 in total

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

description	Rank	Hugo
placenta growth factor precursor (plgf). [swissprot;acc:p49763]	3036	PGF
placental protein 11 precursor (ec 3.4.21.-) (pp11). [swissprot;acc:p21128]	3076	no value
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]	3221	PAFAH1B1
pogo transposable element with znf domain isoform 1. [refseq;acc:nm_015100]	2932	POGZ
polyhomeotic like 3; early development regulator 3; polyhomeotic 3. [refseq;acc:nm_024947]	2809	PHC3
postsynaptic protein cript; hspc139 protein. [refseq;acc:nm_014171]	3034	CRIPT
potassium channel tetramerisation domain containing 3; ny-ren-45 antigen. [refseq;acc:nm_016121]	2975	KCTD3
prefoldin subunit 4 (protein c-1). [swissprot;acc:q9nqp4]	3130	PFDN4
presenilin enhancer 2; hematopoietic stem/progenitor cells protein mds033. [refseq;acc:nm_172341]	3100	no value
prkca-binding protein (protein kinase c-alpha binding protein) (protein interacting with c kinase 1). [swissprot;acc:q9nrd5]	3143	PICK1
programmed cell death 10; apoptosis-related protein 15. [refseq;acc:nm_007217]	3052	PDCD10
prostate tumor overexpressed gene 1; prostate tumor over expressed gene 1. [refseq;acc:nm_017432]	3106	PTOV1
protease inhibitor 15 preproprotein; 25 kda trypsin inhibitor. [refseq;acc:nm_015886]	2966	PI15
proteasome activator complex subunit 3 (proteasome activator 28-gamma subunit) (pa28gamma) (pa28g) (activator of multicatalytic protease subunit 3) (11s regulator complex gamma subunit) (reg-gamma) (ki nuclear autoantigen). [swissprot;acc:q12920]	2997	PSME3
protein c20orf24 (rab5-interacting protein) (rip5) (pnas-11). [swissprot;acc:q9buv8]	3131	C20orf24
protein c20orf43 (hspc164/hspc169) (ad-007) (cda05). [swissprot;acc:q9by42]	3206	C20orf43
protein c21orf2 (c21orf-humf09g8.5) (yf5/a2). [swissprot;acc:o43822]	2874	C21orf2
protein c6orf55 (dopamine responsive protein drg-1) (my012 protein) (hspc228). [swissprot;acc:q9np79]	3219	VTA1
protein cgi-140 (protein ptd008) (my006 protein). [swissprot;acc:q9y284]	3102	C19orf56
protein kinase c and casein kinase substrate in neurons protein 1. [swissprot;acc:q9by11]	3020	PACSIN1
protein kinase c and casein kinase substrate in neurons protein 2. [swissprot;acc:q9unf0]	3142	PACSIN2
protein kinase c and casein kinase substrate in neurons protein 3 (sh3 domain-containing protein 6511) (endophilin i). [swissprot;acc:q9uks6]	2845	PACSIN3
protein kinase c, delta type (ec 2.7.1.-) (npkc-delta). [swissprot;acc:q05655]	2857	PRKCD
protein kinase c, theta type (ec 2.7.1.-) (npkc-theta). [swissprot;acc:q04759]	3186	PRKCQ
protein transport protein sec23a (sec23-related protein a). [swissprot;acc:q15436]	3135	SEC23A
protein transport protein sec23b (sec23-related protein b). [swissprot;acc:q15437]	3127	SEC23B
protein transport protein sec24a (sec24-related protein a) (fragment). [swissprot;acc:o95486]	3056	SEC24A
protein transport protein sec24b (sec24-related protein b). [swissprot;acc:o95487]	2956	SEC24B
protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992]	2910	no value
protein transport protein sec24d (sec24-related protein d). [swissprot;acc:o94855]	2903	SEC24D
protein-tyrosine phosphatase, non-receptor type 11 (ec 3.1.3.48) (protein-tyrosine phosphatase 2c) (ptp-2c) (ptp-1d) (sh-ptp3) (sh- ptp2) (shp-2). [swissprot;acc:q06124]	2789	PTPN11
protocadherin 16 precursor (cadherin 19) (cadherin fibroblast 1). [swissprot;acc:q96jq0]	2838	DCHS1
protoporphyrinogen oxidase (ec 1.3.3.4) (ppo). [swissprot;acc:p50336]	2934	PPOX
ptd016 protein. [refseq;acc:nm_016125]	3093	no value
putative membrane protein. [refseq;acc:nm_019026]	2935	TMCO1
putative mitochondrial solute carrier; hypothetical protein npd016; putative mitochondrial solute carrier. [refseq;acc:nm_031212]	2891	SLC25A28
putative nadh oxidoreductase complex i subunit homolog. [sptrembl;acc:q96q80]	3146	DERL3
putative tumor suppressor 101f6. [refseq;acc:nm_007022]	3051	CYB561D2
r3h domain (binds single-stranded nucleic acids) containing-like. [refseq;acc:nm_178491]	3132	R3HDML
rab gdp dissociation inhibitor alpha (rab gdi alpha) (gdi-1) (xap-4) (oligophrenin 2). [swissprot;acc:p31150]	3119	no value
rab gdp dissociation inhibitor beta (rab gdi beta) (gdi-2). [swissprot;acc:p50395]	3193	GDI2
rab geranylgeranyltransferase alpha subunit (ec 2.5.1.-) (rab geranyl- geranyltransferase alpha subunit) (rab gg transferase alpha) (rab ggtase alpha). [swissprot;acc:q92696]	3134	RABGGTA
rala binding protein 1; rala-binding protein. [refseq;acc:nm_006788]	3212	RALBP1
ran binding protein 3 isoform ranbp3-d; ran-binding protein-3. [refseq;acc:nm_007322]	3202	RANBP3
ras-related protein rab-11a (rab-11) (24kg) (yl8). [swissprot;acc:p24410]	3112	RAB11A
ras-related protein rab-11b (gtp-binding protein ypt3). [swissprot;acc:q15907]	2764	RAB11B
ras-related protein rab-1a (ypt1-related protein). [swissprot;acc:p11476]	2961	RAB1A
ras-related protein rab-1b. [swissprot;acc:q9h0u4]	2807	RAB1C
ras-related protein rab-2a. [swissprot;acc:p08886]	3110	RAB2A
ras-related protein ral-a. [swissprot;acc:p11233]	3223	RALA

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.