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 - 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 Value Type Gene description Network Comparison Type Filtered Interaction Map red green network_comparison
Results: HTML CSV LaTeX Showing element 4491 to 4540 of 12912 in total
Network Comparison Type  : Divided
Filtered  : 1
Interaction Map  : High confidence
Rank
Value Type
description
red
green
network_comparison
1123 Squared hskin17 protein. [refseq;acc:nm_012311] 25154 28740.5 1.14258
Rooted casein kinase i, alpha isoform (ec 2.7.1.-) (cki-alpha) (ck1). [swissprot;acc:p48729] 57.0994 59.9007 1.04906
1124 Measured transducin-like enhancer protein 2 (esg2). [swissprot;acc:q04725] 6288.27 6846.97 1.08885
Ranked peroxiredoxin 5, mitochondrial precursor (prx-v) (peroxisomal antioxidant enzyme) (plp) (thioredoxin peroxidase pmp20) (antioxidant enzyme b166) (aoeb166) (tpx type vi) (liver tissue 2d-page spot 71b) (alu co-repressor 1) (sbbi10). [swissprot;acc:p30044] 207.553 213.256 1.02748
Squared carnitine o-acetyltransferase (ec 2.3.1.7) (carnitine acetylase) (cat). [swissprot;acc:p43155] 25154 28740.5 1.14258
Rooted putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7] 63.5285 66.6395 1.04897
1125 Measured transducin-like enhancer protein 1 (esg1). [swissprot;acc:q04724] 6287.07 6845.28 1.08879
Ranked dj718p11.1.2 (novel class ii aminotransferase similar to serine palmotyltransferase (isoform 2)) (fragment). [sptrembl;acc:q9ugb5] 204.404 210.022 1.02748
Squared polyadenylate-binding protein 4 (poly(a)-binding protein 4) (pabp 4) (inducible poly(a)-binding protein) (ipabp) (activated-platelet protein-1) (app-1). [swissprot;acc:q13310] 25154 28740.5 1.14258
Rooted 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] 63.5285 66.6395 1.04897
1126 Measured importin alpha-6 subunit (karyopherin alpha-5 subunit). [swissprot;acc:o15131] 5792.08 6305.67 1.08867
Ranked atpase, h+ transporting, lysosomal 38kda, v0 subunit d isoform 2. [refseq;acc:nm_152565] 218.487 212.656 1.02742
Squared polyadenylate-binding protein 1 (poly(a)-binding protein 1) (pabp 1). [swissprot;acc:p11940] 25154 28740.5 1.14258
Rooted phosphoglycerate mutase 2 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme m) (pgam-m) (bpg-dependent pgam 2) (muscle-specific phosphoglycerate mutase). [swissprot;acc:p15259] 63.5285 66.6395 1.04897
1127 Measured yip1 interacting factor homolog; yip1p-interacting factor; putative rab5-interacting protein; putative transmembrane protein 54tmp. [refseq;acc:nm_020470] 5790.65 6303.92 1.08864
Ranked nucleolar protein nop5 (nucleolar protein 5) (nop58) (hspc120). [swissprot;acc:q9y2x3] 239.219 232.837 1.02741
Squared 60s ribosomal protein l39. [swissprot;acc:p02404] 18854.4 21540.4 1.14246
Rooted limbic system-associated membrane protein precursor (lsamp). [swissprot;acc:q13449] 59.7501 62.6744 1.04894
1128 Measured voltage-gated potassium channel beta-3 subunit (k+ channel beta-3 subunit) (kv-beta-3). [swissprot;acc:o43448] 5790.65 6303.94 1.08864
Ranked homeobox protein six1 (sine oculis homeobox homolog 1). [swissprot;acc:q15475] 221.286 215.399 1.02733
Squared 60s ribosomal protein l18a. [swissprot;acc:q02543] 18854.4 21540.4 1.14246
Rooted 60s ribosomal protein l24 (l30). [swissprot;acc:p38663] 69.8977 73.3177 1.04893
1129 Measured voltage-gated potassium channel beta-1 subunit (k+ channel beta-1 subunit) (kv-beta-1). [swissprot;acc:q14722] 5790.65 6303.92 1.08864
Ranked homeobox protein six2 (sine oculis homeobox homolog 2). [swissprot;acc:q9npc8] 221.285 215.401 1.02732
Squared 40s ribosomal protein s19. [swissprot;acc:p39019] 18854.4 21540.4 1.14246
Rooted similar to ecotropic viral integration site 5; neuroblastoma stage 4s gene. [refseq;acc:nm_145245] 61.8294 64.8484 1.04883
1130 Measured similar to putative transmembrane protein; homolog of yeast golgi membrane protein yif1p (yip1p-interacting factor). [refseq;acc:nm_033557] 5790.65 6303.92 1.08864
Ranked proliferation-associated protein 2g4 (cell cycle protein p38-2g4 homolog) (hg4-1). [swissprot;acc:q9uq80] 221.285 215.4 1.02732
Squared 60s ribosomal protein l31. [swissprot;acc:p12947] 18854.4 21540.4 1.14246
Rooted ecotropic viral integration site 5; neuroblastoma stage 4s gene. [refseq;acc:nm_005665] 61.8294 64.8484 1.04883
1131 Measured aflatoxin b1 aldehyde reductase 2 (ec 1.-.-.-) (afb1-ar 2). [swissprot;acc:o95154] 5790.65 6303.92 1.08864
Ranked vacuolar atp synthase subunit g 2 (ec 3.6.3.14) (v-atpase g subunit 2) (vacuolar proton pump g subunit 2) (v-atpase 13 kda subunit 2). [swissprot;acc:o95670] 218.484 212.675 1.02731
Squared casein kinase i, delta isoform (ec 2.7.1.-) (cki-delta) (ckid). [swissprot;acc:p48730] 20739 23691.8 1.14238
Rooted dna-directed rna polymerases i, ii, and iii 17.1 kda polypeptide (ec 2.7.7.6) (rpb17) (rpb8) (rpabc3). [swissprot;acc:p52434] 53.3231 50.8416 1.04881
1132 Measured alpha/beta hydrolase domain containing protein 3; lung alpha/beta hydrolase 3. [refseq;acc:nm_138340] 5790.65 6303.92 1.08864
Ranked apoptosis inhibitor 5; fibroblast growth factor 2-interacting factor 2; api5-like 1. [refseq;acc:nm_006595] 218.484 212.675 1.02731
Squared casein kinase i, epsilon isoform (ec 2.7.1.-) (cki-epsilon) (ckie). [swissprot;acc:p49674] 20709.5 23652.8 1.14212
Rooted transformer-2 protein homolog (tra-2 alpha). [swissprot;acc:q13595] 64.7804 67.9395 1.04877
1133 Measured golgi membrane protein sb140; smooth muscle cell associated protein 5. [refseq;acc:nm_030799] 5790.65 6303.92 1.08864
Ranked sec13-related protein. [swissprot;acc:p55735] 218.484 212.675 1.02731
Squared g1 to s phase transition protein 1 homolog (gtp-binding protein gst1-hs). [swissprot;acc:p15170] 29990.9 34251.1 1.14205
Rooted protein cgi-27 (c21orf19-like protein). [swissprot;acc:q9y316] 53.091 50.6263 1.04868
1134 Measured alpha/beta hydrolase domain containing protein 1 isoform 2; lung alpha/beta hydrolase protein 1. [refseq;acc:nm_152870] 5790.65 6303.92 1.08864
Ranked vacuolar atp synthase subunit g 3 (ec 3.6.3.14) (v-atpase g subunit 3) (vacuolar proton pump g subunit 3) (v-atpase 13 kda subunit 3). [swissprot;acc:q96lb4] 218.484 212.675 1.02731
Squared u3 snornp protein 4 homolog. [refseq;acc:nm_033416] 17170.9 19604 1.1417
Rooted arginine/serine-rich splicing factor 10 (transformer-2-beta) (htra2- beta) (transformer 2 protein homolog) (silica-induced protein 41) (ra301). [swissprot;acc:q15815] 64.9094 68.0692 1.04868
1135 Measured methylmalonate-semialdehyde dehydrogenase [acylating], mitochondrial precursor (ec 1.2.1.27) (mmsdh). [swissprot;acc:q02252] 5790.67 6303.95 1.08864
Ranked vacuolar atp synthase subunit b, brain isoform (ec 3.6.3.14) (v-atpase b2 subunit) (vacuolar proton pump b isoform 2) (endomembrane proton pump 58 kda subunit) (ho57). [swissprot;acc:p21281] 218.484 212.675 1.02731
Squared 14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [swissprot;acc:p29312] 28600.9 32641.7 1.14128
Rooted opioid binding protein/cell adhesion molecule precursor (obcam) (opioid-binding cell adhesion molecule) (opcml). [swissprot;acc:q14982] 59.8204 62.7321 1.04867

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/