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.

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

Results: HTML CSV LaTeX

Showing element 151 to 200 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Network Comparison Type	network_comparison	green	red
76	db83 protein. [swissprot;acc:p57088]	Divided	1.25694	362	288
	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [swissprot;acc:o60359]	Subtracted	52.025	202.668	254.693
77	voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [swissprot;acc:q9y698]	Divided	1.2567		254.692
		Subtracted	52.024
78	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1]		52.023		254.691
	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [swissprot;acc:q8wxs5]	Divided	1.2567		254.693
79	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [swissprot;acc:o60359]
	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]	Subtracted	51.968	202.646	254.614
80	son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583]		51.491	242.562	294.053
	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1]	Divided	1.25669	202.668	254.691
81	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839]	Subtracted	50.355	202.016	252.371
	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]	Divided	1.25645	202.646	254.614
82	guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775]		1.25304	335.359	267.636
	ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807]	Subtracted	50.325	202.004	252.329
83	homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272]		50.311	201.998	252.309
	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	Divided	1.24949	110.265	88.2482
84	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]
	homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838]	Subtracted	50.301	201.995	252.296
85	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	Divided	1.24949	110.265	88.2482
	sad1/unc-84 protein-like 1. [swissprot;acc:o94901]	Subtracted	49.118	247.559	296.677
86	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]		49	286	335
	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	Divided	1.24949	110.265	88.2482
87	chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286]	Subtracted	48.6	298.263	249.663
	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	Divided	1.24949	110.265	88.2482
88	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]
	regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795]	Subtracted	48.6	298.263	249.663
89	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	Divided	1.24949	110.265	88.2482
	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37]	Subtracted	48.6	298.263	249.663
90	necdin. [swissprot;acc:q99608]	Divided	1.24949	110.265	88.2482
	regulator of g-protein signaling 20 (rgs20) (regulator of gz- selective protein signaling 1) (gz-selective gtpase-activating protein) (g(z)gap). [swissprot;acc:o76081]	Subtracted	48.6	298.263	249.663
91	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	Divided	1.24949	110.265	88.2482
	transcription factor lbx1. [swissprot;acc:p52954]	Subtracted	48.6	298.263	249.663
92	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	Divided	1.24949	110.265	88.2482
	mosaic protein lgn. [swissprot;acc:p81274]	Subtracted	48.6	298.263	249.663
93	melanoma antigen, family b, 6. [refseq;acc:nm_173523]	Divided	1.24949	110.265	88.2482
	regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6]	Subtracted	48.6	298.263	249.663
94	guanine nucleotide-binding protein g(o), alpha subunit 1. [swissprot;acc:p09471]
	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]	Divided	1.24949	110.265	88.2482
95	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]
	rap1 gtpase-activating protein 1 (rap1gap). [swissprot;acc:p47736]	Subtracted	48.6	298.263	249.663
96	cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847]		48.278	153.671	201.949
	melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]	Divided	1.24949	110.265	88.2482
97	amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410]	Subtracted	46.072	225.68	271.752
	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]	Divided	1.24949	110.265	88.2482
98	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]
	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]	Subtracted	43.684	160.957	204.641
99	jun dimerization protein. [refseq;acc:nm_130469]
	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]	Divided	1.24949	110.265	88.2482
100	fos-related antigen 2. [swissprot;acc:p15408]	Subtracted	43.595	161.046	204.641
	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	Divided	1.24949	110.265	88.2482

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.