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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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Gene Rank Value Type Network Comparison Type description red Interaction Map Filtered network_comparison green
Results: HTML CSV LaTeX Showing element 3080 to 3129 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
description
red
network_comparison
green
1540 Subtracted argininosuccinate synthase (ec 6.3.4.5) (citrulline--aspartate ligase). [swissprot;acc:p00966] 217.769 3.705 221.474
1541 Divided myb proto-oncogene protein (c-myb). [swissprot;acc:p10242] 222.672 1.01714 218.92
Subtracted importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [swissprot;acc:p55060] 192.336 3.699 188.637
1542 Divided 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 1.01706 209.965
Subtracted orphan nuclear receptor nr2e1 (nuclear receptor tlx) (tailless homolog) (tll) (htll). [swissprot;acc:q9y466] 219.762 3.681 216.081
1543 Divided gtp-binding protein era homolog (hera) (fragment). [swissprot;acc:o75616] 213.546 1.01706 209.965
Subtracted orphan nuclear receptor tr2. [swissprot;acc:p13056] 219.76 3.677 216.083
1544 Divided orphan nuclear receptor nr2e1 (nuclear receptor tlx) (tailless homolog) (tll) (htll). [swissprot;acc:q9y466] 219.762 1.01704 216.081
Subtracted thymidylate synthase (ec 2.1.1.45) (ts) (tsase). [swissprot;acc:p04818] 225.119 3.65 228.769
1545 Divided orphan nuclear receptor tr2. [swissprot;acc:p13056] 219.76 1.01702 216.083
Subtracted dihydrofolate reductase (ec 1.5.1.3). [swissprot;acc:p00374] 225.119 3.65 228.769
1546 Divided argininosuccinate synthase (ec 6.3.4.5) (citrulline--aspartate ligase). [swissprot;acc:p00966] 217.769 1.01701 221.474
Subtracted stromal cell-derived factor 2 precursor (sdf-2). [swissprot;acc:q99470] 225.119 3.65 228.769
1547 Divided myb-related protein b (b-myb). [swissprot;acc:p10244] 222.541 1.01699 218.823
Subtracted stromal cell-derived factor 2-like protein 1 precursor (sdf2 like protein 1) (pwp1-interacting protein 8). [swissprot;acc:q9hcn8] 225.119 3.65 228.769
1548 Divided myb-related protein a (a-myb). [swissprot;acc:p10243] 222.512 1.01696 218.802
Subtracted eukaryotic translation initiation factor 3 subunit 11 (eif-3 p25) (eif3k) (muscle specific gene m9 protein) (ptd001) (hspc029) (arg134). [swissprot;acc:q9ubq5] 221.128 3.639 224.767
1549 Divided dynactin complex 50 kda subunit (50 kda dynein-associated polypeptide) (dynamitin) (dctn-50) (dynactin 2). [swissprot;acc:q13561] 225.159 1.01687 221.424
Subtracted erythroid differentiation and denucleation factor 1. [swissprot;acc:o60584] 221.128 3.639 224.767
1550 Divided adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236] 225.159 1.01687 221.424
Subtracted bardet-biedl syndrome 7 protein isoform a; bbs2-like 1. [refseq;acc:nm_176824] 221.128 3.639 224.767
1551 Divided adp,atp carrier protein, heart/skeletal muscle isoform t1 (adp/atp translocase 1) (adenine nucleotide translocator 1) (ant 1). [swissprot;acc:p12235] 225.159 1.01687 221.424
Subtracted ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5] 221.128 3.639 224.767
1552 Divided adp,atp carrier protein, fibroblast isoform (adp/atp translocase 2) (adenine nucleotide translocator 2) (ant 2). [swissprot;acc:p05141] 225.159 1.01687 221.424
Subtracted lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851] 221.128 3.639 224.767
1553 Divided adenosylhomocysteinase (ec 3.3.1.1) (s-adenosyl-l-homocysteine hydrolase) (adohcyase). [swissprot;acc:p23526] 215.389 1.01679 211.833
Subtracted protein c20orf45 (cgi-107). [swissprot;acc:q9y3b1] 221.128 3.639 224.767
1554 Divided c-terminal binding protein 1 (ctbp1). [swissprot;acc:q13363] 196.215 1.01656 193.018
Subtracted eukaryotic translation initiation factor 3 subunit 6 interacting protein (hspc021/hspc025). [swissprot;acc:q9y262] 221.128 3.639 224.767
1555 Divided pas domain containing serine/threonine kinase; pas-serine/threonine kinase. [refseq;acc:nm_015148] 196.192 1.01656 192.996
Subtracted putative rna-binding protein 7 (rna binding motif protein 7). [swissprot;acc:q9y580] 221.128 3.639 224.767
1556 Divided b-cell lymphoma 6 protein (bcl-6) (zinc finger protein 51) (laz-3 protein) (bcl-5). [swissprot;acc:p41182] 196.192 1.01656 192.996
Subtracted valyl-trna synthetase 2 (ec 6.1.1.9) (valine--trna ligase 2) (valrs 2) (g7a). [swissprot;acc:p26640] 223.589 3.63 227.219
1557 Divided zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623] 196.192 1.01656 192.996
Subtracted 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 3.624 225.79
1558 Divided c-terminal binding protein 2 (ctbp2). [swissprot;acc:p56545] 196.171 1.01655 192.977
Subtracted fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917] 115.817 3.615 119.432
1559 Divided b-cell cll/lymphoma 6, member b (zinc finger protein); zinc finger protein 62. [refseq;acc:nm_181844] 196.191 1.01655 192.996
Subtracted tata element modulatory factor (tmf). [swissprot;acc:p82094] 222.585 3.603 218.982
1560 Divided p66 alpha. [refseq;acc:nm_017660] 167.687 1.01651 170.455
Subtracted 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] 222.585 3.603 218.982
1561 Divided transcription repressor p66 beta component of the mecp1 complex. [refseq;acc:nm_020699] 167.687 1.01651 170.455
Subtracted nuclear pore complex protein nup98 (nucleoporin nup98) (98 kda nucleoporin). [swissprot;acc:p52948] 222.585 3.603 218.982
1562 Divided tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735] 167.687 1.01651 170.455
Subtracted ammecr1 protein. [refseq;acc:nm_015365] 222.585 3.603 218.982
1563 Divided atp synthase gamma chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p36542] 218.277 1.01648 214.739
Subtracted mrna-associated protein mrnp 41 (rae1 protein homolog). [swissprot;acc:p78406] 222.585 3.603 218.982
1564 Divided atp synthase oligomycin sensitivity conferral protein, mitochondrial precursor (ec 3.6.3.14) (oscp). [swissprot;acc:p48047] 218.277 1.01648 214.739
Subtracted adapter-related protein complex 1 gamma 2 subunit (gamma2-adaptin) (adaptor protein complex ap-1 gamma-2 subunit) (g2ad). [swissprot;acc:o75843] 222.133 3.598 225.731
1565 Divided eukaryotic translation initiation factor 3 subunit 11 (eif-3 p25) (eif3k) (muscle specific gene m9 protein) (ptd001) (hspc029) (arg134). [swissprot;acc:q9ubq5] 221.128 1.01646 224.767

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/