Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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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Gene Value Type Rank Filtered description Network Comparison Type Interaction Map green network_comparison red
Results: HTML CSV LaTeX Showing element 651 to 700 of 38536 in total
Value Type  : Measured
Network Comparison Type  : Divided
Rank
Filtered
description
Interaction Map
green
network_comparison
red
163 1 melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] High confidence 18263 1.29736 23693.7
monocarboxylate transporter 1 (mct 1). [swissprot;acc:p53985] Low confidence 11206.7 1.08293 10348.5
164 0 aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [swissprot;acc:p41181] High confidence 1354.26 1.26383 1711.55
myotubularin related protein 8. [refseq;acc:nm_017677] Low confidence 4823.8 1.2405 3888.6
1 melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] High confidence 18263 1.29736 23693.7
monocarboxylate transporter 2 (mct 2). [swissprot;acc:o60669] Low confidence 11204.8 1.08291 10346.9
165 0 dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7] 615.233 1.23523 498.07
mto1 protein homolog (cgi-02). [swissprot;acc:q9y2z2] High confidence 793.818 1.26251 1002.2
1 melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] 18263 1.29736 23693.7
monocarboxylate transporter 3 (mct 3). [swissprot;acc:o95907] Low confidence 11198.5 1.08285 10341.7
166 0 cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] High confidence 7099.51 1.2611 5629.62
elongation of very long chain fatty acids protein 2. [swissprot;acc:q9nxb9] Low confidence 1489.07 1.23201 1208.65
1 melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] High confidence 18263 1.29736 23693.7
monocarboxylate transporter 4 (mct 4) (mct 3). [swissprot;acc:o15427] Low confidence 11178.2 1.08263 10325
167 0 spectrin beta chain, brain 4 (spectrin, non-erythroid beta chain 4) (beta-v spectrin) (bspecv). [swissprot;acc:q9nrc6] 3321.82 1.23065 4088.01
transcription factor mafk (erythroid transcription factor nf-e2 p18 subunit). [swissprot;acc:o60675] High confidence 417.983 1.26047 331.61
1 cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418] Low confidence 11436.5 1.08219 12376.5
melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365] High confidence 18263 1.29736 23693.7
168 0 transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186] Low confidence 277.003 1.23006 340.73
transcription factor mafg (v-maf musculoaponeurotic fibrosarcoma oncogene homolog g) (hmaf). [swissprot;acc:o15525] High confidence 420.355 1.2585 334.012
1 mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476] Low confidence 11436.5 1.08218 12376.4
melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] High confidence 18263 1.29736 23693.7
169 0 gaba-a receptor-associated protein. [sptrembl;acc:q9by60] 194 1.25773 244
testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [swissprot;acc:p16562] Low confidence 757.75 1.22812 617
1 cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739] 11435.8 1.08217 12375.5
melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] High confidence 18263 1.29736 23693.7
170 0 dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6] Low confidence 1122.57 1.22602 915.62
williams-beuren syndrome critical region protein 20 copy b. [refseq;acc:nm_145645] High confidence 141.702 1.25772 112.666
1 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] Low confidence 6633.65 1.08194 6131.26
melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366] High confidence 18263 1.29736 23693.7
171 0 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528] Low confidence 181.734 1.22585 222.779
williams beuren syndrome critical region 20a isoform 2; nol1/nop2/sun gene family member; williams-beuren syndrome critical region protein 20 copy a; williams beuren syndrome chromosome region 20. [refseq;acc:nm_018044] High confidence 141.702 1.25772 112.666
1 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] 18263 1.29736 23693.7
sentrin-specific protease 8 (ec 3.4.22.-) (sentrin/sumo-specific protease senp8) (cysteine protease fksg8). [swissprot;acc:q96ld8] Low confidence 7584.69 1.08158 7012.61
172 0 hepatitis c virus core-binding protein 6; cervical cancer oncogene 3. [refseq;acc:nm_023934] 681 1.22482 556
williams beuren syndrome chromosome region 20c isoform 1. [refseq;acc:nm_032158] High confidence 141.702 1.25772 112.666
1 trophinin. [swissprot;acc:q12816] 18263 1.29736 23693.7
ubiquitin-like protein nedd8. [swissprot;acc:q15843] Low confidence 7584.69 1.08158 7012.61
173 0 cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570] High confidence 4102.97 1.25656 3265.25
dc11 protein. [refseq;acc:nm_020186] Low confidence 681 1.22482 556
1 breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567] High confidence 5940.64 1.29727 4579.34
septin 2 (nedd5 protein homolog). [swissprot;acc:q15019] Low confidence 10996.7 1.08145 10168.5
174 0 adenomatous polyposis coli like. [refseq;acc:nm_005883] 3114.19 1.22404 2544.19
dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2] High confidence 612.604 1.25423 488.43
1 cytohesin 4. [swissprot;acc:q9uia0] Low confidence 11390.6 1.08115 12315
mad protein (max dimerizer). [swissprot;acc:q05195] High confidence 5774.03 1.2958 4455.95
175 0 cylindromatosis (turban tumor syndrome); cylindromatosis 1, turban tumor syndrome. [refseq;acc:nm_015247] 1107 1.24887 1382.5
dead-box protein abstrakt homolog. [swissprot;acc:q9ujv9] Low confidence 3026.64 1.22234 2476.1
1 endoplasmic reticulum mannosyl-oligosaccharide 1,2-alpha-mannosidase (ec 3.2.1.113) (er alpha-1,2-mannosidase) (mannosidase alpha class 1b member 1) (man9glcnac2-specific processing alpha-mannosidase). [swissprot;acc:q9ukm7] 7569.94 1.08076 7004.28
max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539] High confidence 5773.77 1.29553 4456.67

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.
- http://analysis.yellowcouch.org/