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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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 [...,...].
description Gene Rank Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1900 to 1949 of 3730 in total
Value Type  : Measured
Network Comparison Type  : Divided
Interaction Map  : High confidence
description
Rank
Filtered
red
green
network_comparison
melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] 163 1 23693.7 18263 1.29736
358 0 48 51 1.0625
melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] 158 1 23693.7 18263 1.29736
355 0 48 51 1.0625
melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] 165 1 23693.7 18263 1.29736
360 0 48 51 1.0625
melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] 164 1 23693.7 18263 1.29736
359 0 48 51 1.0625
melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366] 170 1 23693.7 18263 1.29736
365 0 48 51 1.0625
melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] 166 1 23693.7 18263 1.29736
361 0 48 51 1.0625
melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] 160 1 23693.7 18263 1.29736
356 0 48 51 1.0625
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] 171 1 23693.7 18263 1.29736
366 0 48 51 1.0625
melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] 161 1 23693.7 18263 1.29736
357 0 48 51 1.0625
membrane protein expressed in epithelial-like lung adenocarcinoma. [refseq;acc:nm_024792] 1031 1 6136.99 6714.98 1.09418
membrane-associated nucleic acid binding protein. [refseq;acc:nm_018835] 2292 5783.76 6048.94 1.04585
membrane-associated transporter protein (aim-1 protein) (melanoma antigen aim1). [swissprot;acc:q9umx9] 453 3760.8 4315.06 1.14738
membrane-bound transcription factor site 2 protease (ec 3.4.24.-) (site-2 protease) (sterol-regulatory element-binding proteins intramembrane protease). [swissprot;acc:o43462] 3215 0.00001 0.00001 1
mesoderm induction early response 1. [refseq;acc:nm_020948] 294 0 1914.5 1723.5 1.11082
1404 1 6291.89 6781.6 1.07783
metabotropic glutamate receptor 2 precursor (mglur2). [swissprot;acc:q14416] 1070 5494.73 6001.08 1.09215
metabotropic glutamate receptor 3 precursor (mglur3). [swissprot;acc:q14832] 90 0 34.6667 54.6667 1.57692
1071 1 5494.73 6001.08 1.09215
metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] 142 9276.47 7090.37 1.30832
metastasis-associated protein mta1. [swissprot;acc:q13330] 467 4864.25 5573.62 1.14583
metaxin 1. [swissprot;acc:q13505] 150 0 933.395 723.368 1.29035
685 1 9327.58 10442.2 1.1195
metaxin 2. [swissprot;acc:o75431] 1708 7033.72 7516.77 1.06868
methionine aminopeptidase 1 (ec 3.4.11.18) (metap 1) (map 1) (peptidase m 1). [swissprot;acc:p53582] 2099 3544.03 3359.43 1.05495
methionine aminopeptidase 2 (ec 3.4.11.18) (metap 2) (peptidase m 2) (initiation factor 2 associated 67 kda glycoprotein) (p67) (p67eif2). [swissprot;acc:p50579] 2100
methionyl-trna formyltransferase, mitochondrial precursor (ec 2.1.2.9) (mtfmt). [swissprot;acc:q96dp5] 996 5110.6 5596.73 1.09512
methionyl-trna synthetase (ec 6.1.1.10) (methionine--trna ligase) (metrs). [swissprot;acc:p56192] 653 5560.06 6248.27 1.12378
methylenetetrahydrofolate reductase (ec 1.5.1.20). [swissprot;acc:p42898] 1680 6436.73 6882.16 1.0692
methylmalonate-semialdehyde dehydrogenase [acylating], mitochondrial precursor (ec 1.2.1.27) (mmsdh). [swissprot;acc:q02252] 1135 5790.67 6303.95 1.08864
methyltransferase like 2. [refseq;acc:nm_018396] 118 0 31 43 1.3871
731 1 13241.4 11864 1.1161
mevalonate kinase (ec 2.7.1.36) (mk). [swissprot;acc:q03426] 446 0 1549.26 1522.06 1.01787
2507 1 4243.44 4352.56 1.02571
microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083] 19 677.5 1865.5 2.75351
microfibrillar-associated protein 1. [swissprot;acc:p55081] 2949 0.00001 0.00001 1
microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378] 358 5061.11 5950.22 1.17567
390 0 11512.3 12011.7 1.04338
microsomal signal peptidase 25 kda subunit (ec 3.4.-.-) (spase 25 kda subunit) (spc25). [swissprot;acc:q15005] 2335 1 5123.89 5350.78 1.04428
microtubule-actin crosslinking factor 1, isoform 4. [swissprot;acc:q96pk2] 2663 4608.54 4576.35 1.00703
microtubule-associated protein 4 (map 4). [swissprot;acc:p27816] 2643 5935.71 5876.22 1.01012
microtubule-associated protein rp/eb family member 1 (apc-binding protein eb1). [swissprot;acc:q15691] 1744 6298.81 6722.65 1.06729

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/