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 Gene Hugo description Network Comparison Type Value Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 3080 to 3129 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
description
Network Comparison Type
red
green
network_comparison
1540 ATG5 autophagy protein 5-like (apg5-like) (apoptosis-specific protein). [swissprot;acc:q9h1y0] Divided 240.077 236.015 1.01721
1541 CSE1L importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [swissprot;acc:p55060] Subtracted 192.336 188.637 3.699
MYB myb proto-oncogene protein (c-myb). [swissprot;acc:p10242] Divided 222.672 218.92 1.01714
1542 NR2E1 orphan nuclear receptor nr2e1 (nuclear receptor tlx) (tailless homolog) (tll) (htll). [swissprot;acc:q9y466] Subtracted 219.762 216.081 3.681
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] Divided 213.546 209.965 1.01706
1543 ERAL1 gtp-binding protein era homolog (hera) (fragment). [swissprot;acc:o75616]
NR2C1 orphan nuclear receptor tr2. [swissprot;acc:p13056] Subtracted 219.76 216.083 3.677
1544 NR2E1 orphan nuclear receptor nr2e1 (nuclear receptor tlx) (tailless homolog) (tll) (htll). [swissprot;acc:q9y466] Divided 219.762 216.081 1.01704
TYMS thymidylate synthase (ec 2.1.1.45) (ts) (tsase). [swissprot;acc:p04818] Subtracted 225.119 228.769 3.65
1545 no value dihydrofolate reductase (ec 1.5.1.3). [swissprot;acc:p00374]
NR2C1 orphan nuclear receptor tr2. [swissprot;acc:p13056] Divided 219.76 216.083 1.01702
1546 ASS1 argininosuccinate synthase (ec 6.3.4.5) (citrulline--aspartate ligase). [swissprot;acc:p00966] 217.769 221.474 1.01701
SDF2 stromal cell-derived factor 2 precursor (sdf-2). [swissprot;acc:q99470] Subtracted 225.119 228.769 3.65
1547 MYBL2 myb-related protein b (b-myb). [swissprot;acc:p10244] Divided 222.541 218.823 1.01699
SDF2L1 stromal cell-derived factor 2-like protein 1 precursor (sdf2 like protein 1) (pwp1-interacting protein 8). [swissprot;acc:q9hcn8] Subtracted 225.119 228.769 3.65
1548 EIF3K eukaryotic translation initiation factor 3 subunit 11 (eif-3 p25) (eif3k) (muscle specific gene m9 protein) (ptd001) (hspc029) (arg134). [swissprot;acc:q9ubq5] 221.128 224.767 3.639
MYBL1 myb-related protein a (a-myb). [swissprot;acc:p10243] Divided 222.512 218.802 1.01696
1549 DCTN2 dynactin complex 50 kda subunit (50 kda dynein-associated polypeptide) (dynamitin) (dctn-50) (dynactin 2). [swissprot;acc:q13561] 225.159 221.424 1.01687
SLMO1 erythroid differentiation and denucleation factor 1. [swissprot;acc:o60584] Subtracted 221.128 224.767 3.639
1550 BBS7 bardet-biedl syndrome 7 protein isoform a; bbs2-like 1. [refseq;acc:nm_176824]
SLC25A6 adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236] Divided 225.159 221.424 1.01687
1551 no value ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5] Subtracted 221.128 224.767 3.639
SLC25A4 adp,atp carrier protein, heart/skeletal muscle isoform t1 (adp/atp translocase 1) (adenine nucleotide translocator 1) (ant 1). [swissprot;acc:p12235] Divided 225.159 221.424 1.01687
1552 no value lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851] Subtracted 221.128 224.767 3.639
SLC25A5 adp,atp carrier protein, fibroblast isoform (adp/atp translocase 2) (adenine nucleotide translocator 2) (ant 2). [swissprot;acc:p05141] Divided 225.159 221.424 1.01687
1553 AHCY adenosylhomocysteinase (ec 3.3.1.1) (s-adenosyl-l-homocysteine hydrolase) (adohcyase). [swissprot;acc:p23526] 215.389 211.833 1.01679
SLMO2 protein c20orf45 (cgi-107). [swissprot;acc:q9y3b1] Subtracted 221.128 224.767 3.639
1554 CTBP1 c-terminal binding protein 1 (ctbp1). [swissprot;acc:q13363] Divided 196.215 193.018 1.01656
EIF3EIP eukaryotic translation initiation factor 3 subunit 6 interacting protein (hspc021/hspc025). [swissprot;acc:q9y262] Subtracted 221.128 224.767 3.639
1555 PASK pas domain containing serine/threonine kinase; pas-serine/threonine kinase. [refseq;acc:nm_015148] Divided 196.192 192.996 1.01656
RBM7 putative rna-binding protein 7 (rna binding motif protein 7). [swissprot;acc:q9y580] Subtracted 221.128 224.767 3.639
1556 BCL6 b-cell lymphoma 6 protein (bcl-6) (zinc finger protein 51) (laz-3 protein) (bcl-5). [swissprot;acc:p41182] Divided 196.192 192.996 1.01656
VARS valyl-trna synthetase 2 (ec 6.1.1.9) (valine--trna ligase 2) (valrs 2) (g7a). [swissprot;acc:p26640] Subtracted 223.589 227.219 3.63
1557 AP1B1 adapter-related protein complex 1 beta 1 subunit (beta-adaptin 1) (adaptor protein complex ap-1 beta-1 subunit) (golgi adaptor ha1/ap1 adaptin beta subunit) (clathrin assembly protein complex 1 beta large chain). [swissprot;acc:q10567] 222.166 225.79 3.624
SNAI2 zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623] Divided 196.192 192.996 1.01656
1558 CTBP2 c-terminal binding protein 2 (ctbp2). [swissprot;acc:p56545] 196.171 192.977 1.01655
FIP1L1 fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917] Subtracted 115.817 119.432 3.615
1559 BCL6B b-cell cll/lymphoma 6, member b (zinc finger protein); zinc finger protein 62. [refseq;acc:nm_181844] Divided 196.191 192.996 1.01655
TMF1 tata element modulatory factor (tmf). [swissprot;acc:p82094] Subtracted 222.585 218.982 3.603
1560 GATAD2A p66 alpha. [refseq;acc:nm_017660] Divided 167.687 170.455 1.01651
SCYL1 scy1-like 1; telomerase regulation-associated protein; ht019 protein; telomerase regulation-associated protein; n-terminal kinase-like protein; teratoma-associated tyrosine kinase; n-terminal kinase-like. [refseq;acc:nm_020680] Subtracted 222.585 218.982 3.603
1561 GATAD2B transcription repressor p66 beta component of the mecp1 complex. [refseq;acc:nm_020699] Divided 167.687 170.455 1.01651
NUP98 nuclear pore complex protein nup98 (nucleoporin nup98) (98 kda nucleoporin). [swissprot;acc:p52948] Subtracted 222.585 218.982 3.603
1562 no value tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735] Divided 167.687 170.455 1.01651
AMMECR1 ammecr1 protein. [refseq;acc:nm_015365] Subtracted 222.585 218.982 3.603
1563 ATP5C1 atp synthase gamma chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p36542] Divided 218.277 214.739 1.01648
RAE1 mrna-associated protein mrnp 41 (rae1 protein homolog). [swissprot;acc:p78406] Subtracted 222.585 218.982 3.603
1564 ATP5O atp synthase oligomycin sensitivity conferral protein, mitochondrial precursor (ec 3.6.3.14) (oscp). [swissprot;acc:p48047] Divided 218.277 214.739 1.01648
JPH4 adapter-related protein complex 1 gamma 2 subunit (gamma2-adaptin) (adaptor protein complex ap-1 gamma-2 subunit) (g2ad). [swissprot;acc:o75843] Subtracted 222.133 225.731 3.598
1565 no value 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] 222.134 3.597

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/