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

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 1264 to 1313 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Value Type	Network Comparison Type	red	green	network_comparison
158	SEPT7	septin 7 (cdc10 protein homolog). [swissprot;acc:q16181]	Squared	Divided	89182.8	125229	1.40418
159	no value	myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]	Measured	Subtracted	9035	7279.6	1755.4
		rna-binding protein. [refseq;acc:nm_019027]	Rooted	Divided	52.7642	61.9019	1.17318
		ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395]		Subtracted	113.983	101.979	12.004
	CDK2AP2	doc-1 related protein (doc-1r). [swissprot;acc:o75956]	Ranked		312	284	28
	HIP1R	huntingtin interacting protein 1 related (hip1-related) (hip 12). [swissprot;acc:o75146]	Squared		76296.4	58801.6	17494.8
	NDN	necdin. [swissprot;acc:q99608]	Measured	Divided	23693.7	18263	1.29736
	RGS17	regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6]	Ranked		249.663	298.263	1.19466
	SEPT6	septin 6. [swissprot;acc:q14141]	Squared		88953.6	124854	1.40359
160	no value	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]	Rooted		52.7642	61.9019	1.17318
		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Squared		173408	242989	1.40126
	CCT3	t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [swissprot;acc:p49368]		Subtracted	42788.3	60162.6	17374.3
	GNAO1	guanine nucleotide-binding protein g(o), alpha subunit 1. [swissprot;acc:p09471]	Ranked	Divided	249.663	298.263	1.19466
	KCNIP1	kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592]	Rooted	Subtracted	43.4291	31.7159	11.7132
	MAGED1	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	Measured	Divided	23693.7	18263	1.29736
	MYH7B	dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]		Subtracted	9035	7279.6	1755.4
	NEUROD6	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]	Ranked		312	284	28
161	HOXB4	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]	Squared	Divided	173408	242989	1.40126
	KCNIP4	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183]	Rooted	Subtracted	43.4519	31.7522	11.6997
	MAGEF1	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	Measured	Divided	23693.7	18263	1.29736
	MYH13	myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]		Subtracted	9035	7279.6	1755.4
	NEUROD1	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]	Ranked		312	284	28
	RAP1GAP	rap1 gtpase-activating protein 1 (rap1gap). [swissprot;acc:p47736]		Divided	249.663	298.263	1.19466
	SYNCRIP	ns1-associated protein 1. [refseq;acc:nm_006372]	Rooted		52.7642	61.9019	1.17318
	TRMU	trna (5-methylaminomethyl-2-thiouridylate)-methyltransferase (ec 2.1.1.61). [swissprot;acc:o75648]	Squared	Subtracted	52591.3	69845.1	17253.8
162	no value	atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]	Ranked		142	170	28
	CLEC11A	stem cell growth factor; lymphocyte secreted c-type lectin; lymphocyte secreted c-type lectin. [refseq;acc:nm_002975]	Squared		59704	76460.4	16756.4
	HMG20A	high-mobility group 20a. [refseq;acc:nm_018200]	Measured		5140.14	6893.53	1753.39
	HNRNPR	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]	Rooted	Divided	52.7642	61.9019	1.17318
	HOXC5	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]	Squared		173408	242989	1.40126
	KCNIP2	kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [refseq;acc:nm_173193]	Rooted	Subtracted	43.4554	31.7576	11.6978
	MAGEB6B	melanoma antigen, family b, 6. [refseq;acc:nm_173523]	Measured	Divided	23693.7	18263	1.29736
	NOSTRIN	nostrin. [refseq;acc:nm_052946]	Ranked		209.299	249.187	1.19058
163	no value	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Squared		173408	242989	1.40126
		melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]	Measured		23693.7	18263	1.29736
	ARRB2	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	Ranked	Subtracted	133	105	28
	CLEC3A	c-type lectin superfamily member 1 precursor (cartilage-derived c-type lectin). [swissprot;acc:o75596]	Squared		59464	76120.8	16656.8
	CSTF2T	likely ortholog of mouse variant polyadenylation protein cstf-64. [refseq;acc:nm_015235]	Measured		14976.4	13246.6	1729.8
	EIF4G1	eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637]	Rooted	Divided	52.7702	61.8915	1.17285
	NCBP2	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]		Subtracted	54.935	66.6101	11.6751
	SNF8	eap30 subunit of ell complex. [refseq;acc:nm_007241]	Ranked	Divided	209.299	249.187	1.19058
164	ARRB1	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]		Subtracted	133	105	28
	DUT	deoxyuridine 5'-triphosphate nucleotidohydrolase, mitochondrial precursor (ec 3.6.1.23) (dutpase) (dutp pyrophosphatase). [swissprot;acc:p33316]	Squared		61733.5	45224.1	16509.4
	GBE1	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	Measured		4489.19	2765.82	1723.37
	HOXD4	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016]	Squared	Divided	173408	242989	1.40126
	MAGEA9	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	Measured		23693.7	18263	1.29736
	MSI2	musashi 2 isoform a. [refseq;acc:nm_138962]	Rooted	Subtracted	54.9787	66.2416	11.2629
	MXD1	mad protein (max dimerizer). [swissprot;acc:q05195]		Divided	55.646	65.1534	1.17086
	SLC39A6	liv-1 protein, estrogen regulated. [refseq;acc:nm_012319]	Ranked		209.299	249.187	1.19058
165	CLEC3B	tetranectin precursor (tn) (plasminogen-kringle 4 binding protein). [swissprot;acc:p05452]	Squared	Subtracted	59016.1	75486.9	16470.8

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.