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

Results: HTML CSV LaTeX

Showing element 313 to 362 of 6456 in total

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

Rank	description	Network Comparison Type	red	green	network_comparison
157	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	Divided	23693.7	18263	1.29736
	myosin heavy chain, fast skeletal muscle, embryonic (muscle embryonic myosin heavy chain) (smhce). [swissprot;acc:p11055]	Subtracted	9035	7279.6	1755.4
158	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	Divided	23693.7	18263	1.29736
	myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882]	Subtracted	9035	7279.6	1755.4
159	myosin heavy chain, cardiac muscle beta isoform (myhc-beta). [swissprot;acc:p12883]
	necdin. [swissprot;acc:q99608]	Divided	23693.7	18263	1.29736
160	dj756n5.1.1 (continues in em:al133324 as dj1161h23.3) (fragment). [sptrembl;acc:q9h430]	Subtracted	9035	7279.6	1755.4
	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	Divided	23693.7	18263	1.29736
161	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]
	myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3]	Subtracted	9035	7279.6	1755.4
162	high-mobility group 20a. [refseq;acc:nm_018200]		5140.14	6893.53	1753.39
	melanoma antigen, family b, 6. [refseq;acc:nm_173523]	Divided	23693.7	18263	1.29736
163	likely ortholog of mouse variant polyadenylation protein cstf-64. [refseq;acc:nm_015235]	Subtracted	14976.4	13246.6	1729.8
	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]	Divided	23693.7	18263	1.29736
164	1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]	Subtracted	4489.19	2765.82	1723.37
	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	Divided	23693.7	18263	1.29736
165	glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]	Subtracted	4489.19	2765.82	1723.37
	melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]	Divided	23693.7	18263	1.29736
166	glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]	Subtracted	4489.19	2765.82	1723.37
	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]	Divided	23693.7	18263	1.29736
167	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]
	myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7]	Subtracted	4489.19	2765.82	1723.37
168	glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]
	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]	Divided	23693.7	18263	1.29736
169	formin binding protein 3; fas-ligand associated factor 1; huntingtin-interacting protein a; ny-ren-6 antigen. [refseq;acc:nm_017892]	Subtracted	4245.52	5942.75	1697.23
	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	Divided	23693.7	18263	1.29736
170	huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]	Subtracted	4247.86	5941.88	1694.02
	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	Divided	23693.7	18263	1.29736
171	dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2]	Subtracted	4117.67	5801.04	1683.37
	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	23693.7	18263	1.29736
172	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007]	Subtracted	4556.78	2945.26	1611.52
	trophinin. [swissprot;acc:q12816]	Divided	23693.7	18263	1.29736
173	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]		4579.34	5940.64	1.29727
	uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48]	Subtracted	4556.79	2945.28	1611.51
174	mad protein (max dimerizer). [swissprot;acc:q05195]	Divided	4455.95	5774.03	1.2958
	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, beta isoform (pp2a, subunit b, b-beta isoform) (pp2a, subunit b, b55- beta isoform) (pp2a, subunit b, pr55-beta isoform) (pp2a, subunit b, r2-beta isoform). [swissprot;acc:q00005]	Subtracted	4556.83	2945.38	1611.45
175	max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]	Divided	4456.67	5773.77	1.29553
	serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, gamma isoform (pp2a, subunit b, b-gamma isoform) (pp2a, subunit b, b55-gamma isoform) (pp2a, subunit b, pr55-gamma isoform) (pp2a, subunit b, r2-gamma isoform) (imypno1). [swissprot;acc:q9y2t4]	Subtracted	4556.99	2945.8	1611.19
176	hypoxanthine-guanine phosphoribosyltransferase (ec 2.4.2.8) (hgprt) (hgprtase). [swissprot;acc:p00492]		10235.2	11830.8	1595.6
	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	Divided	4456.93	5773.67	1.29544
177	lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075]	Subtracted	4110.14	5694.99	1584.85
	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]	Divided	4457.06	5773.63	1.29539
178	myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0]		21591.5	27904.5	1.29238
	stem cell growth factor; lymphocyte secreted c-type lectin; lymphocyte secreted c-type lectin. [refseq;acc:nm_002975]	Subtracted	10908.6	12491.8	1583.2
179	20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298]		4266.04	5843.51	1577.47
	myosin vc (myosin 5c). [swissprot;acc:q9nqx4]	Divided	21591.5	27904.5	1.29238
180	c-type lectin superfamily member 1 precursor (cartilage-derived c-type lectin). [swissprot;acc:o75596]	Subtracted	10872.4	12447	1574.6
	myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1]	Divided	21591.5	27904.5	1.29238
181	eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]		4068.56	5252.6	1.29102
	musashi 2 isoform a. [refseq;acc:nm_138962]	Subtracted	4241.57	5810.79	1569.22

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.