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 [...,...].
Filtered green Value Type Rank Gene description Network Comparison Type network_comparison Interaction Map red
Results: HTML CSV LaTeX Showing element 451 to 500 of 77072 in total
Filtered  : 0
green
Value Type
Rank
description
Network Comparison Type
network_comparison
Interaction Map
red
3.87298 Rooted 23 protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992] Divided 3.87298 High confidence 1
192 Subtracted 2.87298
3.99932 Squared 51 adapter-related protein complex 1 sigma 1b subunit (sigma-adaptin 1b) (adaptor protein complex ap-1 sigma-1b subunit) (golgi adaptor ha1/ap1 adaptin sigma-1b subunit) (clathrin assembly protein complex 1 sigma- 1b small chain) (sigma 1b subunit of ap-1 clathrin) (dc22). [swissprot;acc:p56377] Divided 4.58475 0.872309
427 Subtracted 3.12701
4.11238 142 trypsin i precursor (ec 3.4.21.4) (cationic trypsinogen). [swissprot;acc:p07477] Divided 1.64726 Low confidence 2.49649
800 Subtracted 1.61589
4.17869 280 phenol-sulfating phenol sulfotransferase 1 (ec 2.8.2.1) (p-pst) (thermostable phenol sulfotransferase) (ts-pst) (hast1/hast2) (st1a3). [swissprot;acc:p50225] Divided 1.19627 3.4931
811 Subtracted 0.68559
4.1804 276 phenol-sulfating phenol sulfotransferase 2 (ec 2.8.2.1) (p-pst) (st1a2). [swissprot;acc:p50226] Divided 1.19739 3.49125
277 monoamine-sulfating phenol sulfotransferase (ec 2.8.2.1) (sulfotransferase, monoamine-preferring) (m-pst) (thermolabile phenol sulfotransferase) (tl-pst) (placental estrogen sulfotransferase) (catecholamine-sulfating phenol sulfotransferase) (hast3). [swissprot;acc:p50224]
809 phenol-sulfating phenol sulfotransferase 2 (ec 2.8.2.1) (p-pst) (st1a2). [swissprot;acc:p50226] Subtracted 0.68915
810 monoamine-sulfating phenol sulfotransferase (ec 2.8.2.1) (sulfotransferase, monoamine-preferring) (m-pst) (thermolabile phenol sulfotransferase) (tl-pst) (placental estrogen sulfotransferase) (catecholamine-sulfating phenol sulfotransferase) (hast3). [swissprot;acc:p50224]
4.24264 Rooted 14 phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing beta polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-beta) (ptdins-3-kinase c2 beta) (pi3k-c2beta) (c2-pi3k). [swissprot;acc:o00750] Divided 424264 High confidence 0.00001
116 Subtracted 4.24264 0
4.3589 18 camp-regulated phosphoprotein 19 (arpp-19) [contains: camp-regulated phosphoprotein 16 (arpp-16)]. [swissprot;acc:p56211] Divided 2.28266 Low confidence 9.94987
50 Subtracted 5.59097
263 adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559] Divided 1.10024 High confidence 4.79583
359 Low confidence
445 Subtracted 0.43693 High confidence
722 Low confidence
4.57302 Squared 21 beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938] Divided 16.8159 76.8994
32 phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086] High confidence
33 beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938]
303 phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086] Subtracted 72.3264
304 beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938]
628 Low confidence
4.58258 Rooted 61 transcription factor 4 (immunoglobulin transcription factor 2) (itf-2) (sl3-3 enhancer factor 2) (sef-2). [swissprot;acc:p15884] Divided 1.44749 High confidence 6.63325
274 Subtracted 2.05067
4.6274 88 lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893] Divided 1.32899 3.4819
93 Low confidence
352 Subtracted 1.1455 High confidence
544 Low confidence
4.74982 Squared 146 ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] Divided 1.71779 High confidence 8.15919
424 Subtracted 3.40937
4.90793 105 dead-box protein abstrakt homolog. [swissprot;acc:q9ujv9] Divided 2.0736 2.36686
149 putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] 1.68639 8.27669
425 Subtracted 3.36876
433 dead-box protein abstrakt homolog. [swissprot;acc:q9ujv9] 2.54107 2.36686
5.11062 60 fos39347_1. [sptrembl;acc:o75863] Divided 4.17059 Low confidence 21.3143
736 Subtracted 16.2037
5.12693 Rooted 16 dystrophin. [swissprot;acc:p11532] 12.6757 High confidence 17.8026
27 Divided 3.47237
5.15101 Squared 62 dj254p11.1 (novel protein similar to rna polymerase ii elongation factor siii, subunit p15). [sptrembl;acc:q9h575] 4.12321 Low confidence 21.2387
738 Subtracted 16.0877
5.24885 152 40s ribosomal protein s26. [swissprot;acc:p02383] Divided 1.67729 High confidence 8.80383
423 Subtracted 3.55498
5.33358 39 zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623] Divided 8.22384 43.8625
343 Subtracted 38.5289
5.38516 Rooted 102 abl-philin 2. [refseq;acc:nm_032327] Divided 1.28654 Low confidence 6.9282
457 Subtracted 1.54304

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/