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	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 143 to 192 of 6456 in total

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

Rank	description	Network Comparison Type	red	green	network_comparison
72	guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754]	Divided	267.144	336.073	1.25802
	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183]	Subtracted	265.639	319.546	53.907
73	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]	Divided	288	362	1.25694
	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]	Subtracted	265.632	319.531	53.899
74	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	Divided	288	362	1.25694
	serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, alpha isoform (pp2a, subunit a, pr65-alpha isoform) (pp2a, subunit a, r1-alpha isoform) (medium tumor antigen-associated 61 kda protein). [swissprot;acc:p30153]	Subtracted	189.07	242.453	53.383
75	sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906]	Divided	288	362	1.25694
	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [swissprot;acc:q8wxs5]	Subtracted	254.693	202.668	52.025
76	db83 protein. [swissprot;acc:p57088]	Divided	288	362	1.25694
	voltage-dependent calcium channel gamma-3 subunit (neuronal voltage- gated calcium channel gamma-3 subunit). [swissprot;acc:o60359]	Subtracted	254.693	202.668	52.025
77	voltage-dependent calcium channel gamma-2 subunit (neuronal voltage- gated calcium channel gamma-2 subunit). [swissprot;acc:q9y698]	Divided	254.692		1.2567
		Subtracted			52.024
78	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1]		254.691		52.023
	voltage-dependent calcium channel gamma-8 subunit (neuronal voltage- gated calcium channel gamma-8 subunit). [swissprot;acc:q8wxs5]	Divided	254.693		1.2567
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	254.614	202.646	51.968
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]		294.053	242.562	51.491
	voltage-dependent calcium channel gamma-4 subunit (neuronal voltage- gated calcium channel gamma-4 subunit). [swissprot;acc:q9ubn1]	Divided	254.691	202.668	1.25669
81	homer, neuronal immediate early gene, 2; homer homolog 3 (drosophila). [refseq;acc:nm_004839]	Subtracted	252.371	202.016	50.355
	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]	Divided	254.614	202.646	1.25645
82	guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775]		267.636	335.359	1.25304
	ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807]	Subtracted	252.329	202.004	50.325
83	homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272]		252.309	201.998	50.311
	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	Divided	88.2482	110.265	1.24949
84	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]
	homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838]	Subtracted	252.296	201.995	50.301
85	melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	Divided	88.2482	110.265	1.24949
	sad1/unc-84 protein-like 1. [swissprot;acc:o94901]	Subtracted	296.677	247.559	49.118
86	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]		335	286	49
	melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	Divided	88.2482	110.265	1.24949
87	chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286]	Subtracted	249.663	298.263	48.6
	melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356]	Divided	88.2482	110.265	1.24949
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	249.663	298.263	48.6
89	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	Divided	88.2482	110.265	1.24949
	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37]	Subtracted	249.663	298.263	48.6
90	necdin. [swissprot;acc:q99608]	Divided	88.2482	110.265	1.24949
	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	249.663	298.263	48.6
91	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	Divided	88.2482	110.265	1.24949
	transcription factor lbx1. [swissprot;acc:p52954]	Subtracted	249.663	298.263	48.6
92	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	Divided	88.2482	110.265	1.24949
	mosaic protein lgn. [swissprot;acc:p81274]	Subtracted	249.663	298.263	48.6
93	melanoma antigen, family b, 6. [refseq;acc:nm_173523]	Divided	88.2482	110.265	1.24949
	regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6]	Subtracted	249.663	298.263	48.6
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	88.2482	110.265	1.24949
95	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]
	rap1 gtpase-activating protein 1 (rap1gap). [swissprot;acc:p47736]	Subtracted	249.663	298.263	48.6
96	cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847]		201.949	153.671	48.278
	melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]	Divided	88.2482	110.265	1.24949

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.