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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Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 3101 to 3150 of 8289 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
1551 adp,atp carrier protein, heart/skeletal muscle isoform t1 (adp/atp translocase 1) (adenine nucleotide translocator 1) (ant 1). [swissprot;acc:p12235] High confidence 225.159 221.424 1.01687
thyroid receptor interacting protein 3 (trip-3) (fragment). [swissprot;acc:q15649] Low confidence 201.491 197.313 1.02117
1552 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
homeobox protein hox-a6 (hox-1b). [swissprot;acc:p31267] Low confidence 203.119 198.908 1.02117
1553 adenosylhomocysteinase (ec 3.3.1.1) (s-adenosyl-l-homocysteine hydrolase) (adohcyase). [swissprot;acc:p23526] High confidence 215.389 211.833 1.01679
adrenoleukodystrophy protein (aldp). [swissprot;acc:p33897] Low confidence 202.418 206.704 1.02117
1554 c-terminal binding protein 1 (ctbp1). [swissprot;acc:q13363] High confidence 196.215 193.018 1.01656
ras-related protein rab-6b. [swissprot;acc:q9nrw1] Low confidence 200.567 196.41 1.02116
1555 pas domain containing serine/threonine kinase; pas-serine/threonine kinase. [refseq;acc:nm_015148] High confidence 196.192 192.996 1.01656
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] Low confidence 202.345 198.152 1.02116
1556 b-cell lymphoma 6 protein (bcl-6) (zinc finger protein 51) (laz-3 protein) (bcl-5). [swissprot;acc:p41182] High confidence 196.192 192.996 1.01656
selenoprotein t. [swissprot;acc:q9nzj3] Low confidence 205.836 201.572 1.02115
1557 l-threonine dehydrogenase; l-threonine 3-dehydrogenase. [refseq;acc:nm_152566]
zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623] High confidence 196.192 192.996 1.01656
1558 c-terminal binding protein 2 (ctbp2). [swissprot;acc:p56545] 196.171 192.977 1.01655
ras-related protein rab-6a (rab-6). [swissprot;acc:p20340] Low confidence 200.545 196.394 1.02114
1559 b-cell cll/lymphoma 6, member b (zinc finger protein); zinc finger protein 62. [refseq;acc:nm_181844] High confidence 196.191 192.996 1.01655
nucleolar cysteine-rich protein; zinc finger autoantigen 330. [refseq;acc:nm_014487] Low confidence 205.98 201.716 1.02114
1560 hyaluronan synthase 2 (ec 2.4.1.212) (hyaluronate synthase 2) (hyaluronic acid synthase 2) (ha synthase 2). [swissprot;acc:q92819] 197.747 193.656 1.02113
p66 alpha. [refseq;acc:nm_017660] High confidence 167.687 170.455 1.01651
1561 nuclear lim interactor-interacting factor 2 (nli-interacting factor 2) (protein os-4). [swissprot;acc:o14595] Low confidence 201.534 197.366 1.02112
transcription repressor p66 beta component of the mecp1 complex. [refseq;acc:nm_020699] High confidence 167.687 170.455 1.01651
1562 nf-kappab inhibitor epsilon (nf-kappa-bie) (i-kappa-b-epsilon) (ikappabepsilon) (ikb-epsilon) (ikbe). [swissprot;acc:o00221] Low confidence 199.989 195.852 1.02112
tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735] High confidence 167.687 170.455 1.01651
1563 atp synthase gamma chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p36542] 218.277 214.739 1.01648
hyaluronan synthase 1 (ec 2.4.1.212) (hyaluronate synthase 1) (hyaluronic acid synthase 1) (ha synthase 1) (huhas1). [swissprot;acc:q92839] Low confidence 197.752 193.661 1.02112
1564 atp synthase oligomycin sensitivity conferral protein, mitochondrial precursor (ec 3.6.3.14) (oscp). [swissprot;acc:p48047] High confidence 218.277 214.739 1.01648
hyaluronan synthase 3 (ec 2.4.1.212) (hyaluronate synthase 3) (hyaluronic acid synthase 3) (ha synthase 3). [swissprot;acc:o00219] Low confidence 197.74 193.65 1.02112
1565 b-cell lymphoma 3-encoded protein (bcl-3 protein). [swissprot;acc:p20749] 199.975 195.839
eukaryotic translation initiation factor 3 subunit 11 (eif-3 p25) (eif3k) (muscle specific gene m9 protein) (ptd001) (hspc029) (arg134). [swissprot;acc:q9ubq5] High confidence 221.128 224.767 1.01646
1566 erythroid differentiation and denucleation factor 1. [swissprot;acc:o60584]
nuclear lim interactor-interacting factor 1 (nli-interacting factor 1) (nif-like protein) (ya22 protein) (hya22). [swissprot;acc:o15194] Low confidence 201.54 197.374 1.02111
1567 bardet-biedl syndrome 7 protein isoform a; bbs2-like 1. [refseq;acc:nm_176824] High confidence 221.128 224.767 1.01646
nuclear factor nf-kappa-b p105 subunit (dna-binding factor kbf1) (ebp- 1) [contains: nuclear factor nf-kappa-b p50 subunit]. [swissprot;acc:p19838] Low confidence 199.973 195.838 1.02111
1568 ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5] High confidence 221.128 224.767 1.01646
nf-kappab inhibitor beta (nf-kappa-bib) (i-kappa-b-beta) (ikappabbeta) (ikb-beta) (ikb-b) (thyroid receptor interacting protein 9) (tr- interacting protein 9). [swissprot;acc:q15653] Low confidence 199.973 195.838 1.02111
1569 lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851] High confidence 221.128 224.767 1.01646
nuclear factor nf-kappa-b p100/p49 subunits (h2tf1) (oncogene lyt-10) (lyt10) [contains: nuclear factor nf-kappa-b p52 subunit]. [swissprot;acc:q00653] Low confidence 199.973 195.838 1.02111
1570 chaperone-activity of bc1 complex-like, mitochondrial precursor (chaperone-abc1-like). [swissprot;acc:q8ni60] 199.725 195.6 1.02109
protein c20orf45 (cgi-107). [swissprot;acc:q9y3b1] High confidence 221.128 224.767 1.01646
1571 eukaryotic translation initiation factor 3 subunit 6 interacting protein (hspc021/hspc025). [swissprot;acc:q9y262]
phosducin-like protein (phlp). [swissprot;acc:q13371] Low confidence 203.614 199.408 1.02109
1572 aarf domain containing kinase 2; putative ubiquinone biosynthesis protein aarf. [refseq;acc:nm_052853] 199.725 195.6
putative rna-binding protein 7 (rna binding motif protein 7). [swissprot;acc:q9y580] High confidence 221.128 224.767 1.01646
1573 potential phospholipid-transporting atpase ia (ec 3.6.3.1) (chromaffin granule atpase ii) (atpase class i type 8a member 1). [swissprot;acc:q9y2q0] Low confidence 201.121 196.967 1.02109
r3h domain protein 1. [swissprot;acc:q15032] High confidence 218.105 214.573 1.01646
1574 aarf domain containing kinase 4. [refseq;acc:nm_024876] Low confidence 199.725 195.6 1.02109
tata element modulatory factor (tmf). [swissprot;acc:p82094] High confidence 222.585 218.982 1.01645
1575 aarf domain containing kinase 1. [refseq;acc:nm_020421] Low confidence 199.725 195.6 1.02109
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] High confidence 222.585 218.982 1.01645

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/