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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Rank Gene Hugo description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 3062 to 3111 of 8289 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Rank
Hugo
description
Interaction Map
red
green
network_comparison
1531 GPT alanine aminotransferase (ec 2.6.1.2) (glutamic--pyruvic transaminase) (gpt) (glutamic--alanine transaminase). [swissprot;acc:p24298] Low confidence 195.485 191.412 1.02128
1532 PPIL4 peptidylprolyl isomerase-like 4; cyclophilin-type peptidyl-prolyl cis-trans isomerase; ppiase; serologically defined breast cancer antigen ny-br-18. [refseq;acc:nm_139126] 203.549 199.307
RBM10 rna-binding protein 10 (rna binding motif protein 10) (dxs8237e). [swissprot;acc:p98175] High confidence 228.419 232.376 1.01732
1533 CYCS cytochrome c. [swissprot;acc:p00001]
ZNF259 zinc-finger protein zpr1 (zinc finger protein 259). [swissprot;acc:o75312] Low confidence 203.346 199.108 1.02128
1534 CAB39L mo25-like protein. [swissprot;acc:q9h9s4] 200.515 196.337
HS6ST2 heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174] High confidence 228.419 232.376 1.01732
1535 CHEK2 serine/threonine-protein kinase chk2 (ec 2.7.1.-) (cds1). [swissprot;acc:o96017] Low confidence 200.266 196.095 1.02127
HS6ST1 heparan sulfate 6-o-sulfotransferase; heparan-sulfate 6-sulfotransferase. [refseq;acc:nm_004807] High confidence 228.419 232.376 1.01732
1536 CDIPT cdp-diacylglycerol--inositol 3-phosphatidyltransferase (ec 2.7.8.11) (phosphatidylinositol synthase) (ptdins synthase) (pi synthase). [swissprot;acc:o14735] Low confidence 198.934 194.79 1.02127
FA2H fatty acid hydroxylase domain containing 1. [refseq;acc:nm_024306] High confidence 228.419 232.376 1.01732
1537 DDX3Y dead-box protein 3, y-chromosomal. [swissprot;acc:o15523] Low confidence 200.879 196.696 1.02127
WBP11 ww domain binding protein 11; npw38-binding protein npwbp; sh3 domain-binding protein snp70. [refseq;acc:nm_016312] High confidence 228.419 232.376 1.01732
1538 CAB39 mo25 protein (cgi-66). [swissprot;acc:q9y376] Low confidence 200.517 196.343 1.02126
ELAC2 elac homolog 2; putative prostate cancer susceptibility protein; elac (e. coli) homolog 2. [refseq;acc:nm_018127] High confidence 228.419 232.376 1.01732
1539 no value dead-box protein 3 (helicase-like protein 2) (hlp2) (dead-box, x isoform). [swissprot;acc:o00571] Low confidence 200.878 196.696 1.02126
RBM5 rna-binding protein 5 (rna binding motif protein 5) (putative tumor suppressor luca15) (g15 protein). [swissprot;acc:p52756] High confidence 228.419 232.376 1.01732
1540 ATG5 autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [swissprot;acc:q9h1y0] 240.077 236.015 1.01721
GFPT2 glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 2 (ec 2.6.1.16) (hexosephosphate aminotransferase 2) (d-fructose-6- phosphate amidotransferase 2) (gfat 2) (gfat2). [swissprot;acc:o94808] Low confidence 201.26 197.072 1.02125
1541 MTHFD1 c-1-tetrahydrofolate synthase, cytoplasmic (c1-thf synthase) [includes: methylenetetrahydrofolate dehydrogenase (ec 1.5.1.5); methenyltetrahydrofolate cyclohydrolase (ec 3.5.4.9); formyltetrahydrofolate synthetase (ec 6.3.4.3)]. [swissprot;acc:p11586] 203.321 199.093 1.02124
MYB myb proto-oncogene protein (c-myb). [swissprot;acc:p10242] High confidence 222.672 218.92 1.01714
1542 TMLHE trimethyllysine dioxygenase, mitochondrial precursor (ec 1.14.11.8) (epsilon-trimethyllysine 2-oxoglutarate dioxygenase) (tml-alpha- ketoglutarate dioxygenase) (tml hydroxylase) (tml dioxygenase) (tmld). [swissprot;acc:q9nvh6] 213.546 209.965 1.01706
VAV2 vav-2 protein. [swissprot;acc:p52735] Low confidence 200.389 196.224 1.02123
1543 ERAL1 gtp-binding protein era homolog (hera) (fragment). [swissprot;acc:o75616] High confidence 213.546 209.965 1.01706
HOXB6 homeobox protein hox-b6 (hox-2b) (hox-2.2) (hu-2). [swissprot;acc:p17509] Low confidence 203.129 198.906 1.02123
1544 NR2E1 orphan nuclear receptor nr2e1 (nuclear receptor tlx) (tailless homolog) (tll) (htll). [swissprot;acc:q9y466] High confidence 219.762 216.081 1.01704
PACRG park2 co-regulated; parkin co-regulated gene protein. [refseq;acc:nm_152410] Low confidence 203.124 198.907 1.0212
1545 ATP6V1H vacuolar atp synthase subunit h (ec 3.6.3.14) (v-atpase h subunit) (vacuolar proton pump h subunit) (v-atpase 50/57 kda subunits) (vacuolar proton pump subunit sfd) (cgi-11). [swissprot;acc:q9ui12] 199.511 195.372 1.02119
NR2C1 orphan nuclear receptor tr2. [swissprot;acc:p13056] High confidence 219.76 216.083 1.01702
1546 no value glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 1 (ec 2.6.1.16) (hexosephosphate aminotransferase 1) (d-fructose-6- phosphate amidotransferase 1) (gfat 1) (gfat1). [swissprot;acc:q06210] Low confidence 201.261 197.087 1.02118
ASS1 argininosuccinate synthase (ec 6.3.4.5) (citrulline--aspartate ligase). [swissprot;acc:p00966] High confidence 217.769 221.474 1.01701
1547 ATP6V1G1 vacuolar atp synthase subunit g 1 (ec 3.6.3.14) (v-atpase g subunit 1) (vacuolar proton pump g subunit 1) (v-atpase 13 kda subunit 1) (vacuolar atp synthase subunit m16). [swissprot;acc:o75348] Low confidence 202.348 198.152 1.02118
MYBL2 myb-related protein b (b-myb). [swissprot;acc:p10244] High confidence 222.541 218.823 1.01699
1548 MYBL1 myb-related protein a (a-myb). [swissprot;acc:p10243] 222.512 218.802 1.01696
UBE4B ubiquitin conjugation factor e4 b (ubiquitin-fusion degradation protein 2) (homozygously deleted in neuroblastoma-1). [swissprot;acc:o95155] Low confidence 202.493 198.294 1.02118
1549 ADD2 beta adducin (erythrocyte adducin beta subunit). [swissprot;acc:p35612] 205.847 201.577
DCTN2 dynactin complex 50 kda subunit (50 kda dynein-associated polypeptide) (dynamitin) (dctn-50) (dynactin 2). [swissprot;acc:q13561] High confidence 225.159 221.424 1.01687
1550 no value ras-related protein rab-6c (rab6-like protein wth3). [swissprot;acc:q9h0n0] Low confidence 200.571 196.413 1.02117
SLC25A6 adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236] High confidence 225.159 221.424 1.01687
1551 SLC25A4 adp,atp carrier protein, heart/skeletal muscle isoform t1 (adp/atp translocase 1) (adenine nucleotide translocator 1) (ant 1). [swissprot;acc:p12235]
ZNHIT3 thyroid receptor interacting protein 3 (trip-3) (fragment). [swissprot;acc:q15649] Low confidence 201.491 197.313 1.02117
1552 HOXA6 homeobox protein hox-a6 (hox-1b). [swissprot;acc:p31267] 203.119 198.908
SLC25A5 adp,atp carrier protein, fibroblast isoform (adp/atp translocase 2) (adenine nucleotide translocator 2) (ant 2). [swissprot;acc:p05141] High confidence 225.159 221.424 1.01687
1553 ABCD1 adrenoleukodystrophy protein (aldp). [swissprot;acc:p33897] Low confidence 202.418 206.704 1.02117
AHCY adenosylhomocysteinase (ec 3.3.1.1) (s-adenosyl-l-homocysteine hydrolase) (adohcyase). [swissprot;acc:p23526] High confidence 215.389 211.833 1.01679
1554 CTBP1 c-terminal binding protein 1 (ctbp1). [swissprot;acc:q13363] 196.215 193.018 1.01656
RAB6B ras-related protein rab-6b. [swissprot;acc:q9nrw1] Low confidence 200.567 196.41 1.02116
1555 ATP6V1G3 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] 202.345 198.152
PASK pas domain containing serine/threonine kinase; pas-serine/threonine kinase. [refseq;acc:nm_015148] High confidence 196.192 192.996 1.01656
1556 no value selenoprotein t. [swissprot;acc:q9nzj3] Low confidence 205.836 201.572 1.02115

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
- Hugo is the HGNC identifier if it exists
- 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/