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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Value Type Filtered Rank Interaction Map description Gene red green network_comparison Network Comparison Type
Results: HTML CSV LaTeX Showing element 501 to 550 of 9634 in total
Value Type  : Ranked
Filtered  : 0
Network Comparison Type  : Divided
Rank
Interaction Map
description
red
green
network_comparison
251 High confidence keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060] 10551.6 11573.6 1.09686
Low confidence zinc finger protein 93 (zinc finger protein htf34) (fragment). [swissprot;acc:p35789] 4257.49 4854.46 1.14022
252 High confidence keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059] 10551.6 11573.5 1.09685
Low confidence zinc finger protein zfp. [refseq;acc:nm_018651] 4257.65 4854.63 1.14021
253 High confidence keratin associated protein 4.9 (fragment). [sptrembl;acc:q9byq8] 10551.6 11573.5 1.09685
Low confidence krab zinc finger protein. [sptrembl;acc:q96jc4] 4257.65 4854.63 1.14021
254 High confidence keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854] 10551.6 11573.5 1.09685
Low confidence zinc finger protein loc163140 (fragment). [sptrembl;acc:q86wm6] 4257.81 4854.79 1.14021
255 High confidence star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095] 10551.6 11573.5 1.09685
Low confidence zinc finger protein 431. [swissprot;acc:q8tf32] 4258.04 4855.04 1.14021
256 High confidence espin. [refseq;acc:nm_031475] 10551.6 11573.4 1.09684
Low confidence zinc finger protein 267 (zinc finger protein hzf2). [swissprot;acc:q14586] 4258.04 4855.04 1.14021
257 High confidence keratin associated protein 9-4; keratin associated protein 9.4. [refseq;acc:nm_033191] 10552.2 11566.4 1.09611
Low confidence zinc finger protein 180 (hhz168). [swissprot;acc:q9ujw8] 4258.04 4855.04 1.14021
258 High confidence 40s ribosomal protein s28. [swissprot;acc:p25112] 12967.1 14193.6 1.09459
Low confidence zinc finger protein 28 homolog (zfp-28) (kruppel-like zinc finger factor x6). [swissprot;acc:q8nhy6] 4257.81 4854.79 1.14021
259 High confidence adenylyl cyclase-associated protein 2 (cap 2). [swissprot;acc:p40123] 10438.3 9549.77 1.09304
Low confidence zinc finger protein 79 (znfpt7) (fragment). [swissprot;acc:q15937] 4258.04 4855.04 1.14021
260 High confidence 40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] 12447.6 11392.6 1.0926
Low confidence zinc finger protein 463; c2h2-like zinc finger protein. [refseq;acc:nm_018555] 4258.35 4855.37 1.1402
261 High confidence 40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] 12448.9 11393.9 1.09259
Low confidence zinc finger protein 126 (hzf-2) (fragment). [swissprot;acc:p35275] 4259.13 4856.2 1.14019
262 High confidence sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538] 3464 3778 1.09065
Low confidence zinc finger protein 345 (zinc finger protein hzf10). [swissprot;acc:q14585] 4259.67 4856.77 1.14018
263 High confidence dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2] 13573.3 14801.2 1.09046
Low confidence zinc finger protein 253 (bone marrow zinc finger 1) (bmzf-1). [swissprot;acc:o75346] 4259.28 4856.36 1.14018
264 High confidence arsenical pump-driving atpase (ec 3.6.3.16) (arsenite-translocating atpase) (arsenical resistance atpase) (arsenite-transporting atpase) (arsa) (asna-i). [swissprot;acc:o43681] 10037.1 10935.1 1.08947
Low confidence zinc finger protein 135. [swissprot;acc:p52742] 4260.59 4857.75 1.14016
265 High confidence glycogenin-2 (ec 2.4.1.186) (gn-2) (gn2). [swissprot;acc:o15488] 13653.8 14874 1.08937
Low confidence zinc finger protein 271 (zinc finger protein hzf7) (zinc finger protein znfphex133). [swissprot;acc:q14591] 4261.28 4858.48 1.14015
266 High confidence transcription factor btf3 homolog 3. [swissprot;acc:q13892] 13483.3 14685.4 1.08915
Low confidence zinc finger protein 426; hypothetical protein mgc2663. [refseq;acc:nm_024106] 4267.19 4864.77 1.14004
267 High confidence transcription initiation factor tfiid 135 kda subunit (tafii-135) (tafii135) (tafii-130) (tafii130). [swissprot;acc:o00268] 8054.34 8772.02 1.0891
Low confidence sh3-containing grb2-like protein 1 (sh3 domain protein 2b) (extra eleven-nineteen leukemia fusion gene) (een) (een fusion partner of mll). [swissprot;acc:q99961] 9151.76 10432.9 1.13999
268 High confidence maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168] 14257.4 13134.5 1.08549
Low confidence arf gtpase-activating protein. [refseq;acc:nm_133446] 14890 16969 1.13962
269 High confidence ischemia/reperfusion inducible protein. [refseq;acc:nm_024640] 12463.5 11482.6 1.08542
Low confidence up-regulated in liver cancer 1; similar to development- and differentiation-enhancing factor 2. [refseq;acc:nm_017707] 14890 16969 1.13962
270 High confidence ethanolamine-phosphate cytidylyltransferase (ec 2.7.7.14) (phosphorylethanolamine transferase) (ctp:phosphoethanolamine cytidylyltransferase). [swissprot;acc:q99447] 10735.1 9891.37 1.0853
Low confidence acidic leucine-rich nuclear phosphoprotein 32 family member c (tumorigenic protein pp32r1). [swissprot;acc:o43423] 17542 15399 1.13916
271 High confidence myosin light chain 1, embryonic muscle/atrial isoform (pro1957). [swissprot;acc:p12829] 10735.1 9891.37 1.0853
Low confidence acidic leucine-rich nuclear phosphoprotein 32 family member d (tumorigenic protein pp32r2). [swissprot;acc:o95626] 17542 15399 1.13916
272 High confidence sterol regulatory element binding protein-2 (srebp-2) (sterol regulatory element-binding transcription factor 2). [swissprot;acc:q12772] 7163.55 7759.61 1.08321
Low confidence maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168] 13821.1 15716.7 1.13715
273 High confidence wiskott-aldrich syndrome protein family member 3 (wasp-family protein member 3) (verprolin homology domain-containing protein 3). [swissprot;acc:q9upy6] 12748.1 11770.9 1.08302
Low confidence pp3111 protein. [refseq;acc:nm_022156] 14235.1 16177.4 1.13644
274 High confidence disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6] 10432.4 11298.4 1.08301
Low confidence piwi-like 2; miwi like. [refseq;acc:nm_018068] 13206.7 15008.1 1.1364
275 High confidence cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570] 10783 11674.1 1.08264
Low confidence jumonji protein. [swissprot;acc:q92833] 22296.2 19621 1.13634

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/