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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.

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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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 501 to 550 of 3228 in total

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

green	Rank	description	red	network_comparison
98.0548	169	apg3p; pc3-96 protein. [refseq;acc:nm_022488]	82.5916	1.18722
101.613	397	t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [swissprot;acc:p49368]	110.689	1.08932
105	49	beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	133	1.26667
	50	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]
	51	spermatogenesis associated 6. [refseq;acc:nm_019073]
	52	amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]
110.265	83	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	88.2482	1.24949
	84	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]
	85	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]
	86	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]
	87	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]
	88	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]
	89	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]
	90	necdin. [swissprot;acc:q99608]
	91	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]
	92	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]
	93	melanoma antigen, family b, 6. [refseq;acc:nm_173523]
	94	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]
	95	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]
	96	melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]
	97	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]
	98	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]
	99	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]
	100	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]
	101	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]
	102	melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1]
	103	trophinin. [swissprot;acc:q12816]
112.329	850	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]	107.842	1.04161
	851	trs85 homolog. [swissprot;acc:q9y2l5]
112.772	853	wd-repeat protein wdc146. [swissprot;acc:q9c0j8]	108.289	1.0414
	854	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]
114	126	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	94	1.21277
	127	putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453]
	128	associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]
	129	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]
	130	protein hspc134 (protein cda04). [swissprot;acc:q9by43]
114.552	871	cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0]	110.2	1.03949
118.318	732	septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599]	124.434	1.05169
119.402	737	septin 10 isoform 1. [refseq;acc:nm_144710]	125.526	1.05129
119.432	1045	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]	115.817	1.03121
120.078	742	brain protein 44. [swissprot;acc:o95563]	126.215	1.05111
	743	septin 7 (cdc10 protein homolog). [swissprot;acc:q16181]
120.375	1006	cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6]	116.524	1.03305
120.463	744	septin 6. [swissprot;acc:q14141]	126.604	1.05098
120.654	984	poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003]	116.71	1.03379
120.707	986	exocyst complex component sec5. [swissprot;acc:q96kp1]	116.771	1.03371
120.772	994	poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3]	116.845	1.03361
121.261	565	sedlin. [swissprot;acc:o14582]	129.219	1.06563
	566	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]
	567	bet3 homolog. [swissprot;acc:o43617]

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
- 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.