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.

Navigation/Query Panel:
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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 3030 to 3079 of 3228 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
red  : 0.00001
green  : 0.00001
network_comparison  : 1

Rank	Hugo	description
3030	C6orf35	uncharacterized bone marrow protein bm033. [refseq;acc:nm_018452]
3031	SPOP	speckle-type poz protein. [swissprot;acc:o43791]
3032	LYZL1	similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]
3033	GPAM	glycerol-3-phosphate acyltransferase, mitochondrial precursor (ec 2.3.1.15) (gpat). [swissprot;acc:q9hcl2]
3034	CRIPT	postsynaptic protein cript; hspc139 protein. [refseq;acc:nm_014171]
3035	TGFB3	transforming growth factor beta 3 precursor (tgf-beta 3). [swissprot;acc:p10600]
3036	PGF	placenta growth factor precursor (plgf). [swissprot;acc:p49763]
3037	VPS4B	skd1 protein (vacuolar sorting protein 4b). [swissprot;acc:o75351]
3038	no value	spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813]
3039	SET	set protein (hla-dr associated protein ii) (phapii) (phosphatase 2a inhibitor i2pp2a). [swissprot;acc:q01105]
3040	CTGF	connective tissue growth factor precursor (hypertrophic chondrocyte- specific protein 24). [swissprot;acc:p29279]
3041	TTR	transthyretin precursor (prealbumin) (tbpa) (ttr) (attr). [swissprot;acc:p02766]
3042	NR5A2	orphan nuclear receptor nr5a2 (alpha-1-fetoprotein transcription factor) (hepatocytic transcription factor) (b1-binding factor) (hb1f) (cyp7a promoter binding factor). [swissprot;acc:o00482]
3043	TTF2	transcription termination factor, rna polymerase ii; lodestar protein. [refseq;acc:nm_003594]
3044	no value	late endosomal/lysosomal mp1 interacting protein (p14) (hspc003). [swissprot;acc:q9y2q5]
3045	MSH6	dna mismatch repair protein msh6 (muts-alpha 160 kda subunit) (g/t mismatch binding protein) (gtbp) (gtmbp) (p160). [swissprot;acc:p52701]
3046	CD207	langerhans cell specific c-type lectin. [refseq;acc:nm_015717]
3047	ORC2L	origin recognition complex subunit 2. [swissprot;acc:q13416]
3048	STK25	serine/threonine protein kinase 25 (ec 2.7.1.37) (sterile 20/oxidant stress-response kinase 1) (ste20/oxidant stress response kinase-1) (sok-1) (ste20-like kinase). [swissprot;acc:o00506]
3049	SLC30A3	zinc transporter 3 (znt-3). [swissprot;acc:q99726]
3050	ACVR1	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]
3051	CYB561D2	putative tumor suppressor 101f6. [refseq;acc:nm_007022]
3052	PDCD10	programmed cell death 10; apoptosis-related protein 15. [refseq;acc:nm_007217]
3053	HGD	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]
3054	ZNF346	double-stranded rna-binding zinc finger protein jaz. [refseq;acc:nm_012279]
3055	ATP6V0E1	vacuolar atp synthase subunit h (ec 3.6.3.14) (v-atpase h subunit) (vacuolar proton pump h subunit) (v-atpase m9.2 subunit) (v-atpase 9.2 kda membrane accessory protein). [swissprot;acc:o15342]
3056	SEC24A	protein transport protein sec24a (sec24-related protein a) (fragment). [swissprot;acc:o95486]
3057	C9	complement component c9 precursor. [swissprot;acc:p02748]
3058	GNPDA1	glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926]
3059	RNASEN	ribonuclease iii (ec 3.1.26.3) (rnase iii) (p241). [swissprot;acc:q9nrr4]
3060	TTC1	tetratricopeptide repeat protein 1 (tpr repeat protein 1). [swissprot;acc:q99614]
3061	CNOT6	kiaa1194. [refseq;acc:nm_015455]
3062	SPARC	sparc precursor (secreted protein acidic and rich in cysteine) (osteonectin) (on) (basement membrane protein bm-40). [swissprot;acc:p09486]
3063	MRPS30	mitochondrial 28s ribosomal protein s30 (s30mt) (mrp-s30) (programmed cell death protein 9) (bm047). [swissprot;acc:q9np92]
3064	C7	complement component c7 precursor. [swissprot;acc:p10643]
3065	WISP3	wnt1 inducible signaling pathway protein 3 isoform 1; wnt-1 signaling pathway protein 3; wnt1 signaling pathway protein 3; wnt-1 inducible signaling pathway protein 3. [refseq;acc:nm_003880]
3066	VEGFA	vascular endothelial growth factor a precursor (vegf-a) (vascular permeability factor) (vpf). [swissprot;acc:p15692]
3067	no value	retinoic acid receptor rxr-beta. [swissprot;acc:p28702]
3068	HECA	headcase homolog; hhdc for homolog of drosophila headcase. [refseq;acc:nm_016217]
3069	BMP5	bone morphogenetic protein 5 precursor (bmp-5). [swissprot;acc:p22003]
3070	MDGA1	mam domain containing glycosylphosphatidylinositol anchor 1; glycosyl-phosphatidyl-inositol-mam. [refseq;acc:nm_153487]
3071	STK38	serine/threonine kinase 38; serine threonine protein kinase. [refseq;acc:nm_007271]
3072	PAK1IP1	pak1 interacting protein 1; pak1-interacting protein; pak/plc-interacting protein 1. [refseq;acc:nm_017906]
3073	RWDD1	rwd domain containing 1; ptd013 protein; cgi-24 protein. [refseq;acc:nm_015952]
3074	NT5DC3	tu12b1-ty protein. [refseq;acc:nm_016575]
3075	USP5	ubiquitin carboxyl-terminal hydrolase 5 (ec 3.1.2.15) (ubiquitin thiolesterase 5) (ubiquitin-specific processing protease 5) (deubiquitinating enzyme 5) (isopeptidase t). [swissprot;acc:p45974]
3076	no value	placental protein 11 precursor (ec 3.4.21.-) (pp11). [swissprot;acc:p21128]
3077	H2AFJ	h2a histone family, member j isoform 1. [refseq;acc:nm_018267]
3078	CREBL2	camp responsive element binding protein-like 2. [refseq;acc:nm_001310]
3079	CYP27B1	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]

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.