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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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 1580 to 1629 of 29840 in total

Interaction Map  : High confidence

Rank	description	Value Type	Network Comparison Type	Filtered	red	green	network_comparison
99	septin 7 (cdc10 protein homolog). [swissprot;acc:q16181]	Measured	Subtracted	1	15999.1	19007.1	3008
	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	Rooted			19.9625	35.798	15.8355
	transducin beta-like 2 protein (ws beta-transducin repeats protein) (ws-betatrp) (williams-beuren syndrome chromosome region 13 protein). [swissprot;acc:q9y4p3]	Measured	Divided	0	817.81	551.434	1.48306
	voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]	Squared	Subtracted		19277.3	20652.4	1375.1
	wd-repeat protein wdc146. [swissprot;acc:q9c0j8]		Divided	1	226186	145568	1.55382
100	atp-dependent dna helicase ii, 70 kda subunit (lupus ku autoantigen protein p70) (ku70) (70 kda subunit of ku antigen) (thyroid-lupus autoantigen) (tlaa) (ctc box binding factor 75 kda subunit) (ctcbf) (ctc75). [swissprot;acc:p12956]	Measured		0	594	402	1.47761
	ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1]	Rooted	Subtracted		22.4608	17.665	4.7958
	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]	Squared	Divided	1	226186	145568	1.55382
	creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532]	Ranked		0	9183.49	11217.7	1.22151
	dj408b20.3 (novel protein similar to 60s acidic ribosomal protein p2 (rplp2)). [sptrembl;acc:q9h5a9]	Measured	Subtracted		2698.62	3010.22	311.6
	dna topoisomerase ii, beta isozyme (ec 5.99.1.3). [swissprot;acc:q02880]	Ranked			12584.5	10470.6	2113.9
	f-box protein fbw7 isoform 2; archipelago, drosophila, homolog of; f-box protein fbw7; f-box protein sel-10; homolog of c elegans sel-10. [refseq;acc:nm_018315]	Measured	Divided	1	2353.63	3225.65	1.3705
	fos-related antigen 2. [swissprot;acc:p15408]	Ranked	Subtracted		204.641	161.046	43.595
	glycine receptor alpha-3 chain precursor. [swissprot;acc:o75311]	Rooted	Divided	0	20.0501	15.3244	1.30838
	high mobility group protein 4-like (hmg-4l). [swissprot;acc:q9uj13]	Squared	Subtracted		310373	311745	1372
	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	Ranked	Divided	1	88.2482	110.265	1.24949
	phosphoglycerate mutase 1 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme b) (pgam-b) (bpg-dependent pgam 1). [swissprot;acc:p18669]	Squared		0	492.157	225.924	2.17842
	regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6]	Rooted		1	47.6504	36.9304	1.29028
	septin 6. [swissprot;acc:q14141]	Measured	Subtracted		15959.9	18957.1	2997.2
	septin 7 (cdc10 protein homolog). [swissprot;acc:q16181]	Squared			89182.8	125229	36046.2
	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Rooted			19.9625	35.798	15.8355
101	cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0]	Squared	Divided		222655	143584	1.5507
	coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606]	Ranked	Subtracted	0	12577.8	14662.1	2084.3
	cullin homolog 2 (cul-2). [swissprot;acc:q13617]	Measured	Divided	1	2353.63	3225.65	1.3705
	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	Rooted	Subtracted		19.9625	35.798	15.8355
	dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7]	Ranked	Divided	0	14548.5	11915.2	1.221
	e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409]	Rooted	Subtracted		34.3021	29.5305	4.7716
	ethanolamine-phosphate cytidylyltransferase (ec 2.7.7.14) (phosphorylethanolamine transferase) (ctp:phosphoethanolamine cytidylyltransferase). [swissprot;acc:q99447]	Squared			5294.83	3966.41	1328.42
	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	Measured			638.862	330.189	308.673
	guanine nucleotide-binding protein g(o), alpha subunit 1. [swissprot;acc:p09471]	Rooted	Divided	1	47.6504	36.9304	1.29028
	low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734]			0	12.6886	9.74679	1.30182
	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	Ranked		1	88.2482	110.265	1.24949
	protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539]		Subtracted		204.641	161.051	43.59
	putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7]	Measured	Divided	0	1442	977	1.47595
	septin 4 (peanut-like protein 2) (brain protein h5) (cell division control-related protein 2) (hcdcrel-2) (bradeion beta) (ce5b3 beta) (cerebral protein-7) (hucep-7). [swissprot;acc:o43236]		Subtracted	1	14924.4	17655.2	2730.8
	septin 6. [swissprot;acc:q14141]	Squared			88953.6	124854	35900.4
	transcription factor iiia (factor a) (tfiiia). [swissprot;acc:q92664]		Divided	0	956.375	441.285	2.16725
102	60s ribosomal protein l18a. [swissprot;acc:q02543]	Ranked			12738.7	10437.1	1.22052
	associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]	Measured	Subtracted	1	11068	8508.5	2559.5
	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Rooted			19.9625	35.798	15.8355
	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]	Squared	Divided		214143	138337	1.54798
	fos-related antigen 1 (fra-1). [swissprot;acc:p15407]	Ranked	Subtracted		204.642	161.068	43.574
	glycine receptor alpha-3 chain precursor. [swissprot;acc:o75311]	Rooted		0	20.0501	15.3244	4.7257
	importin alpha-2 subunit (karyopherin alpha-2 subunit) (srp1-alpha) (rag cohort protein 1). [swissprot;acc:p52292]	Ranked			7168	5102	2066
	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]		Divided	1	88.2482	110.265	1.24949
	myosin light chain 1, embryonic muscle/atrial isoform (pro1957). [swissprot;acc:p12829]	Squared	Subtracted	0	5294.83	3966.41	1328.42
	p28 ing5. [refseq;acc:nm_032329]	Measured			2551.23	2243.69	307.54
	phosphoglycerate mutase 1 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme b) (pgam-b) (bpg-dependent pgam 1). [swissprot;acc:p18669]		Divided		1442	977	1.47595
	pre-mrna cleavage complex ii protein clp1. [swissprot;acc:q92989]	Squared	Subtracted	1	121200	85473.4	35726.6
	presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768]	Measured	Divided		2353.63	3225.65	1.3705

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.