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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Network Comparison Type Gene Value Type description Rank Filtered Interaction Map red green network_comparison
Results: HTML CSV LaTeX Showing element 318 to 367 of 3228 in total
Network Comparison Type  : Divided
Value Type  : Ranked
Filtered  : 1
Interaction Map  : High confidence
description
Rank
red
green
network_comparison
arp2/3 complex 34 kda subunit (p34-arc) (actin-related protein 2/3 complex subunit 2). [swissprot;acc:o15144] 2697 225.081 225.232 1.00067
arp2/3 complex 41 kda subunit (p41-arc) (actin-related protein 2/3 complex subunit 1b). [swissprot;acc:o15143] 2629 224.891 225.195 1.00135
arsenical pump-driving atpase (ec 3.6.3.16) (arsenite-translocating atpase) (arsenical resistance atpase) (arsenite-transporting atpase) (arsa) (asna-i). [swissprot;acc:o43681] 2291 200.158 201.213 1.00527
aryl-hydrocarbon interacting protein-like 1. [swissprot;acc:q9nzn9] 1156 224.307 230.242 1.02646
asc-1 complex subunit p100. [refseq;acc:nm_032204] 1374 216.542 211.908 1.02187
asparagine synthetase [glutamine-hydrolyzing] (ec 6.3.5.4) (glutamine- dependent asparagine synthetase) (ts11 cell cycle control protein). [swissprot;acc:p08243] 1057 219.01 212.468 1.03079
asparaginyl-trna synthetase, cytoplasmic (ec 6.1.1.22) (asparagine-- trna ligase) (asnrs). [swissprot;acc:o43776] 2323 192.773 193.691 1.00476
aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468] 658 229.072 216.576 1.0577
aspartyl-trna synthetase (ec 6.1.1.12) (aspartate--trna ligase) (asprs). [swissprot;acc:p14868] 2541 194.505 194.902 1.00204
associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 126 94 114 1.21277
associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463] 128
ataxin 2 related protein isoform a; ataxin-2 domain protein. [refseq;acc:nm_007245] 1058 228.105 221.293 1.03078
ataxin 2-binding protein. [swissprot;acc:q9nwb1] 1704 218.514 215.577 1.01362
ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973] 1059 228.105 221.293 1.03078
ataxin-1 ubiquitin-like interacting protein. [refseq;acc:nm_020131] 2041 196.808 195.141 1.00854
atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915] 149 142 170 1.19718
atp synthase alpha chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p25705] 1658 217.925 214.826 1.01443
atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539] 241 227.357 254.15 1.11785
atp synthase beta chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p06576] 1655 219.062 215.942 1.01445
atp synthase coupling factor 6, mitochondrial precursor (ec 3.6.3.14) (f6). [swissprot;acc:p18859] 2893 0.00001 0.00001 1
atp synthase coupling factor b, mitochondrial precursor. [swissprot;acc:q99766] 2022 208.601 210.464 1.00893
atp synthase delta chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p30049] 1687 215.345 212.386 1.01393
atp synthase f chain, mitochondrial (ec 3.6.3.14). [swissprot;acc:p56134] 2644 194.097 194.328 1.00119
atp synthase g chain, mitochondrial (ec 3.6.3.14) (atpase subunit g). [swissprot;acc:o75964] 2834 0.00001 0.00001 1
atp synthase gamma chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p36542] 1563 218.277 214.739 1.01648
atp synthase mitochondrial f1 complex assembly factor 2. [refseq;acc:nm_145691] 456 210.225 226.578 1.07779
atp synthase oligomycin sensitivity conferral protein, mitochondrial precursor (ec 3.6.3.14) (oscp). [swissprot;acc:p48047] 1564 218.277 214.739 1.01648
atp-binding cassette, sub-family c, member 10; multidrug resistance-associated protein 7. [refseq;acc:nm_033450] 2209 199.129 200.413 1.00645
atp-binding cassette, sub-family d, member 3 (70 kda peroxisomal membrane protein) (pmp70). [swissprot;acc:p28288] 2166 215.925 214.481 1.00673
atp-citrate synthase (ec 2.3.3.8) (atp-citrate (pro-s-)-lyase) (citrate cleavage enzyme). [swissprot;acc:p53396] 2689 213.792 213.619 1.00081
atp-dependent clp protease atp-binding subunit clpx-like, mitochondrial precursor. [swissprot;acc:o76031] 1871 222.819 225.228 1.01081
atp-dependent dna helicase ii, 70 kda subunit (lupus ku autoantigen protein p70) (ku70) (70 kda subunit of ku antigen) (thyroid-lupus autoantigen) (tlaa) (ctc box binding factor 75 kda subunit) (ctcbf) (ctc75). [swissprot;acc:p12956] 2727 221.001 220.927 1.00033
atp-dependent dna helicase ii, 80 kda subunit (lupus ku autoantigen protein p86) (ku86) (ku80) (86 kda subunit of ku antigen) (thyroid- lupus autoantigen) (tlaa) (ctc box binding factor 85 kda subunit) (ctcbf) (ctc85) (nuclear factor iv) (dna-repair protein xrcc5). [swissprot;acc:p13010] 2728
atp-dependent dna helicase q5 (recq protein-like 5) (recq5). [swissprot;acc:o94762] 1703 216.079 219.024 1.01363
atp-dependent rna helicase ddx18 (dead-box protein 18) (myc-regulated dead-box protein) (mrdb). [swissprot;acc:q9nvp1] 529 251.653 235.506 1.06856
atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7] 328 258.437 235.183 1.09888
atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072] 428 253.852 234.808 1.0811
atp-dependent rna helicase rok1; atp-dependent rna helicase. [refseq;acc:nm_007010] 990 243.297 235.373 1.03367
atpase inhibitor, mitochondrial precursor. [swissprot;acc:q9uii2] 1365 228.644 223.736 1.02194
atpase, h+ transporting, lysosomal 38kda, v0 subunit d isoform 2. [refseq;acc:nm_152565] 1126 218.487 212.656 1.02742
atpase, h+ transporting, lysosomal v0 subunit a isoform 4; vacuolar proton pump 116 kda accessory subunit; vacuolar proton pump, subunit 2; h(+)-transporting two-sector atpase, noncatalytic accessory protein 1b; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 1b; renal tubular acidosis; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 2 (38kd). [refseq;acc:nm_020632] 1120 218.528 212.676 1.02752
atrophin-1 (dentatorubral-pallidoluysian atrophy protein). [swissprot;acc:p54259] 1384 218.471 213.876 1.02148
atrophin-1 interacting protein 1; activin receptor interacting protein 1; likely ortholog of mouse activin receptor interacting protein 1; atrophin-1 interacting protein a; membrane associated guanylate kinase 2; activin receptor interacting p. [refseq;acc:nm_012301] 1035 221.682 228.68 1.03157
au rna-binding protein/enoyl-coenzyme a hydratase precursor; au rna-binding protein/enoyl-coenzyme a hydratase; 3-methylglutaconyl-coa hydratase; mga type i. [refseq;acc:nm_001698] 2913 0.00001 0.00001 1
autoantigen ngp-1. [swissprot;acc:q13823] 670 250.302 236.817 1.05694
autophagy protein 12-like (apg12-like). [swissprot;acc:o94817] 1729 187.582 190.028 1.01304
autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [swissprot;acc:q9h1y0] 1540 240.077 236.015 1.01721
axonemal dynein light intermediate polypeptide 1 (inner dynein arm light chain, axonemal) (hp28). [swissprot;acc:o14645] 2003 208.315 206.41 1.00923
b-cell cll/lymphoma 6, member b (zinc finger protein); zinc finger protein 62. [refseq;acc:nm_181844] 1559 196.191 192.996 1.01655
b-cell lymphoma 3-encoded protein (bcl-3 protein). [swissprot;acc:p20749] 2655 201.445 201.667 1.0011

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/