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.


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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 [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 5386 to 5435 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Value Type
red
green
network_comparison
1347 atp-dependent rna helicase ddx18 (dead-box protein 18) (myc-regulated dead-box protein) (mrdb). [swissprot;acc:q9nvp1] Squared 14123.5 15905.2 1.12615
lipoic acid synthetase, mitochondrial (lip-syn) (lipoate synthase) (hussy-01) (fragment). [swissprot;acc:o43766] Ranked 204.961 209.517 1.02223
presenilins associated rhomboid-like protein. [refseq;acc:nm_018622] Measured 6153.36 6640.77 1.07921
1348 aarf domain containing kinase 1. [refseq;acc:nm_020421] Rooted 62.7228 65.296 1.04102
gamma-butyrobetaine,2-oxoglutarate dioxygenase (ec 1.14.11.1) (gamma-butyrobetaine hydroxylase) (gamma-bbh). [swissprot;acc:o75936] Measured 6153.36 6640.77 1.07921
neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [refseq;acc:nm_014903] Squared 29911.6 33682.9 1.12608
zinc finger protein zic 1 (zinc finger protein of the cerebellum 1). [swissprot;acc:q15915] Ranked 218.569 213.832 1.02215
1349 abl-interactor 2; abl-interacting protein 1 (sh3-containing protein); abl binding protein 3; arg protein tyrosine kinase-binding protein; abl-interactor protein 2b; similar to spectrin sh3 domain binding protein 1. [refseq;acc:nm_005759] Rooted 62.138 64.6833 1.04096
e2a-pbx1-associated protein; putative 47 kda protein. [refseq;acc:nm_020140] Squared 29911.8 33682.7 1.12607
potential phospholipid-transporting atpase ih (ec 3.6.3.1) (atpase class i type 11a) (atpase is). [swissprot;acc:p98196] Measured 6153.36 6640.77 1.07921
zinc finger protein zic 3 (zinc finger protein of the cerebellum 3). [swissprot;acc:o60481] Ranked 218.572 213.841 1.02212
1350 neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [refseq;acc:nm_020443] Squared 29911.7 33682.8 1.12607
spectrin sh3 domain binding protein 1; eps8 binding protein; interactor protein ablbp4; abl-interactor protein 1 long; nap1 binding protein. [refseq;acc:nm_005470] Rooted 62.1427 64.6863 1.04093
tetratricopeptide repeat protein 4 (my044 protein). [swissprot;acc:o95801] Measured 6783.78 7320.39 1.0791
zinc finger protein zic 2 (zinc finger protein of the cerebellum 2). [swissprot;acc:o95409] Ranked 218.574 213.847 1.0221
1351 dual specificity mitogen-activated protein kinase kinase 6 (ec 2.7.1.-) (map kinase kinase 6) (mapkk 6) (mapk/erk kinase 6) (sapkk3). [swissprot;acc:p52564] Measured 6105.23 6587.88 1.07906
prohibitin. [swissprot;acc:p35232] Ranked 211.513 206.941 1.02209
proliferating-cell nucleolar antigen p120 (proliferation-associated nucleolar protein p120). [swissprot;acc:p46087] Squared 14753.6 16612.9 1.12602
synaptotagmin xii (sytxii). [swissprot;acc:q8iv01] Rooted 61.6779 64.2009 1.04091
1352 dual specificity mitogen-activated protein kinase kinase 3 (ec 2.7.1.-) (map kinase kinase 3) (mapkk 3) (mapk/erk kinase 3). [swissprot;acc:p46734] Measured 6104.11 6586.48 1.07902
megf6 (fragment). [sptrembl;acc:o75095] Rooted 61.7068 64.2305 1.0409
prip-interacting protein pipmt; prip-interacting protein with methyltransferase domain. [refseq;acc:nm_024831] Squared 26925.7 30311.3 1.12574
repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273] Ranked 211.513 206.941 1.02209
1353 cyclin c. [swissprot;acc:p24863] Measured 6200.93 6690.57 1.07896
heparin sulfate n-deacetylase/n-sulfotransferase (ec 2.8.2.-) (n- hsst) (n-heparin sulfate sulfotransferase) (glucosaminyl n- deacetylase/n-sulfotransferase). [swissprot;acc:p52849] Ranked 228.409 223.475 1.02208
orphan nuclear receptor hmr (early response protein nak1) (tr3 orphan receptor). [swissprot;acc:p22736] Rooted 65.1528 67.8168 1.04089
pdz/coiled-coil domain binding partner for the rho-family gtpase tc10; fused in glioblastoma; golgi associated pdz and coiled-coil motif containing protein; cftr-associated ligand. [refseq;acc:nm_020399] Squared 26925.7 30311.3 1.12574
1354 actin, cytoplasmic 2 (gamma-actin). [swissprot;acc:p02571] Measured 6036.22 6512.64 1.07893
n-deacetylase/n-sulfotransferase (heparan glucosaminyl) 3. [refseq;acc:nm_004784] Ranked 228.409 223.475 1.02208
nucleoporin-like protein rip (hiv-1 rev-binding protein) (rev interacting protein) (rev/rex activation domain-binding protein). [swissprot;acc:p52594] Rooted 60.4911 58.1154 1.04088
rad54-like protein; rad54 homolog. [refseq;acc:nm_003579] Squared 25950.5 29212.5 1.1257
1355 glycine dehydrogenase [decarboxylating], mitochondrial precursor (ec 1.4.4.2) (glycine decarboxylase) (glycine cleavage system p- protein). [swissprot;acc:p23378] 25294.8 28473 1.12565
intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811] Rooted 60.4911 58.1154 1.04088
n-deacetylase/n-sulfotransferase 4. [refseq;acc:nm_022569] Ranked 228.409 223.475 1.02208
ornithine carbamoyltransferase, mitochondrial precursor (ec 2.1.3.3) (otcase) (ornithine transcarbamylase). [swissprot;acc:p00480] Measured 5783.9 6240.19 1.07889
1356 calcipressin 1 (down syndrome critical region protein 1) (myocyte- enriched calcineurin interacting protein 1) (mcip1) (adapt78). [swissprot;acc:p53805] 5657.71 6103.57 1.07881
heparan sulfate n-deacetylase/n-sulfotransferase (ec 2.8.2.8) (n-hsst) (hsnst) ([heparan sulfate]-glucosamine n-sulfotransferase) (n-heparan sulfate sulfotransferase) (glucosaminyl n-deacetylase/n- sulfotransferase). [swissprot;acc:p52848] Ranked 228.409 223.475 1.02208
hydroxyindole o-methyltransferase (ec 2.1.1.4) (hiomt) (acetylserotonin o-methyltransferase) (asmt). [swissprot;acc:p46597] Squared 23066.6 25964.6 1.12564
pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152] Rooted 60.4911 58.1154 1.04088
1357 dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2] Measured 5657.71 6103.54 1.0788
importin 7; ran-binding protein 7. [refseq;acc:nm_006391] Squared 24948.9 28072.6 1.1252
nuclear hormone receptor nor-1 (neuron-derived orphan receptor 1) (mitogen induced nuclear orphan receptor). [swissprot;acc:q92570] Rooted 65.1521 67.8158 1.04088
protein cdc27hs (cell division cycle protein 27 homolog) (h-nuc). [swissprot;acc:p30260] Ranked 228.409 223.475 1.02208
1358 importin 8; ran-binding protein 8. [refseq;acc:nm_006390] Squared 24948.9 28072.6 1.1252
intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3] Rooted 60.4911 58.1154 1.04088
upstream stimulatory factor 1 (major late transcription factor 1). [swissprot;acc:p22415] Ranked 214.987 210.359 1.022
zinc finger protein zic 4 (zinc finger protein of the cerebellum 4) (fragment). [swissprot;acc:q8n9l1] Measured 5657.71 6103.54 1.0788
1359 brefeldin a-inhibited guanine nucleotide-exchange protein 2 (brefeldin a-inhibited gep 2). [swissprot;acc:q9y6d5] Squared 24948.9 28072.6 1.1252
dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7] Measured 5657.71 6103.54 1.0788
glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712] Ranked 228.642 223.726 1.02197

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/