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

Results: HTML CSV LaTeX

Showing element 1030 to 1079 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	Value Type	description	Hugo	red	green	network_comparison
258	Ranked	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	MXD4	227.999	204.366	1.11564
	Squared	huntingtin interacting protein 1 (hip-i). [swissprot;acc:o00291]	HIP1	76438	58889.7	1.29799
	Rooted	thrombospondin 3 precursor. [swissprot;acc:p49746]	THBS3	51.6132	45.8422	1.12589
259	Measured	neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401]	WASL	6417.81	7852.52	1.22355
	Ranked	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]	RAB24	227.999	204.37	1.11562
	Squared	goodpasture antigen-binding protein (ec 2.7.1.37) (gpbp) (collagen type iv alpha 3 binding protein) (star-related lipid transfer protein 11) (stard11) (start domain-containing protein 11). [swissprot;acc:q9y5p4]	COL4A3BP	76360.8	58841.7	1.29773
	Rooted	tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9]	TFIP11	58.2964	65.5926	1.12516
260	Measured	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	SRP9	4244.95	5193.42	1.22343
	Ranked	c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5]	HS3ST6	219.421	196.978	1.11394
	Squared	huntingtin interacting protein 1 related (hip1-related) (hip 12). [swissprot;acc:o75146]	HIP1R	76296.4	58801.6	1.29752
	Rooted	multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904]	SCYE1	59.0951	66.4332	1.12417
261	Measured	signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458]	SRP9	4247.36	5192.61	1.22255
	Ranked	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3a1; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006042]	HS3ST3A1	219.421	196.978	1.11394
	Squared	pyruvate carboxylase, mitochondrial precursor (ec 6.4.1.1) (pyruvic carboxylase) (pcb). [swissprot;acc:p11498]	PC	48127.9	62245.6	1.29334
	Rooted	ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713]	RRM2B	62.3337	70.0738	1.12417
262	Measured	cleavage and polyadenylation specific factor 4, 30kd subunit; cleavage-polyadenylation specificity factor, 30kd; no arches-like (zebrafish) zinc finger protein; cleavage-polyadenylation specificity factor. [refseq;acc:nm_006693]	CPSF4	24896.4	20431.7	1.21852
	Ranked	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 3b1. [refseq;acc:nm_006041]	HS3ST3B1	219.421	196.978	1.11394
	Squared	neuronal acetylcholine receptor protein, alpha-7 chain precursor. [swissprot;acc:p36544]	CHRNA7	26157.6	20236.2	1.29261
	Rooted	polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195]	POLI	59.4073	66.7002	1.12276
263	Measured	trs85 homolog. [swissprot;acc:q9y2l5]	KIAA1012	24896.4	20431.7	1.21852
	Ranked	heparan sulfate d-glucosaminyl 3-o-sulfotransferase 2; heparin-glucosamine 3-o-sulfotransferase. [refseq;acc:nm_006043]	HS3ST2	219.421	196.978	1.11394
	Squared	adenylate cyclase, type vi (ec 4.6.1.1) (atp pyrophosphate-lyase) (ca(2+)-inhibitable adenylyl cyclase). [swissprot;acc:o43306]	ADCY6	26157.6	20236.2	1.29261
	Rooted	paxillin. [swissprot;acc:p49023]	PXN	59.4073	66.7002	1.12276
264	Measured	cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653]	COPS3	4987.58	4094.57	1.2181
	Ranked	mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026]	DCPS	219.421	196.978	1.11394
	Squared	adenylate cyclase, type v (ec 4.6.1.1) (atp pyrophosphate-lyase) (adenylyl cyclase) (fragment). [swissprot;acc:o95622]	ADCY5	26157.6	20236.2	1.29261
	Rooted	wiskott-aldrich syndrome protein (wasp). [swissprot;acc:p42768]	WAS	66.1122	74.1438	1.12148
265	Measured	wd-repeat protein wdc146. [swissprot;acc:q9c0j8]	WDR33	24806.9	20369.9	1.21782
	Ranked	splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533]	SF3B1	225.217	202.459	1.11241
	Squared	leucine-rich repeat-containing protein 15 precursor (hlib). [swissprot;acc:q8tf66]	LRRC15	26157.6	20236.2	1.29261
	Rooted	u6 snrna-associated sm-like protein lsm8. [swissprot;acc:o95777]	LSM8	56.031	62.8281	1.12131
266	Measured	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]	CPSF1	24806.9	20369.9	1.21782
	Ranked	transcriptional co-repressor sin3a; transcriptional regulator, sin3a (yeast). [refseq;acc:nm_015477]	SIN3A	241.07	267.88	1.11121
	Squared	fem-1 homolog b; fem-1-like death receptor binding protein; fem-1 (c.elegans) homolog b. [refseq;acc:nm_015322]	FEM1B	26157.6	20236.2	1.29261
	Rooted	proto-oncogene c-crk (p38) (adapter molecule crk). [swissprot;acc:p46108]	CRK	66.1064	74.1074	1.12103
267	Measured	ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967]	RALGDS	14021.4	11523	1.21682
	Ranked	density-regulated protein (drp) (drp1 protein) (smooth muscle cell associated protein-3) (smap-3). [swissprot;acc:o43583]	DENR	241.07	267.88	1.11121
	Squared	leucine-rich repeat protein lrrc3 precursor. [swissprot;acc:q9by71]	LRRC3	26157.6	20236.2	1.29261
	Rooted	tyrosine-protein kinase abl2 (ec 2.7.1.112) (tyrosine kinase arg). [swissprot;acc:p42684]	ABL2	66.1064	74.1073	1.12103
268	Measured	cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0]	CPSF2	24473.9	20127.8	1.21593
	Ranked	eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010]	EIF5	271.016	244.167	1.10996
	Squared	laminin gamma-1 chain precursor (laminin b2 chain). [swissprot;acc:p11047]	LAMC1	26157.6	20236.2	1.29261
	Rooted	proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [swissprot;acc:p12931]	no value	66.1064	74.1074	1.12103
269	Measured	u6 snrna-associated sm-like protein lsm8. [swissprot;acc:o95777]	LSM8	4590.18	5575.52	1.21466
	Ranked	cholinephosphate cytidylyltransferase a (ec 2.7.7.15) (phosphorylcholine transferase a) (ctp:phosphocholine cytidylyltransferase a) (ct a) (cct a) (cct-alpha). [swissprot;acc:p49585]	PCYT1A	241.373	267.352	1.10763
	Squared	thymic stromal co-transporter. [refseq;acc:nm_033051]	SLC46A2	26157.6	20236.2	1.29261
	Rooted	tyrosine-protein kinase hck (ec 2.7.1.112) (p59-hck/p60-hck) (hemopoietic cell kinase). [swissprot;acc:p08631]	HCK	66.1064	74.1074	1.12103
270	Measured	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]	FIP1L1	23640.2	19479.8	1.21358
	Ranked	fad synthetase. [refseq;acc:nm_025207]	FLAD1	241.373	267.352	1.10763
	Squared	transcription factor iib. [refseq;acc:nm_013242]	C16orf80	64739.9	50300.6	1.28706

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.