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 3130 to 3179 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
green
network_comparison
1565 eukaryotic translation initiation factor 3 subunit 11 (eif-3 p25) (eif3k) (muscle specific gene m9 protein) (ptd001) (hspc029) (arg134). [swissprot;acc:q9ubq5] Divided 221.128 224.767 1.01646
1566 adapter-related protein complex 1 gamma 1 subunit (gamma-adaptin) (adaptor protein complex ap-1 gamma-1 subunit) (golgi adaptor ha1/ap1 adaptin gamma-1 subunit) (clathrin assembly protein complex 1 gamma-1 large chain). [swissprot;acc:o43747] Subtracted 222.134 225.731 3.597
erythroid differentiation and denucleation factor 1. [swissprot;acc:o60584] Divided 221.128 224.767 1.01646
1567 adapter-related protein complex 1 sigma 1c subunit (sigma-adaptin 1c) (adaptor protein complex ap-1 sigma-1c subunit) (golgi adaptor ha1/ap1 adaptin sigma-1c subunit) (clathrin assembly protein complex 1 sigma- 1c small chain) (sigma 1c subunit of ap-1 clathrin). [swissprot;acc:q96pc3] Subtracted 222.134 225.731 3.597
bardet-biedl syndrome 7 protein isoform a; bbs2-like 1. [refseq;acc:nm_176824] Divided 221.128 224.767 1.01646
1568 adapter-related protein complex 1 sigma 1a subunit (sigma-adaptin 1a) (adaptor protein complex ap-1 sigma-1a subunit) (golgi adaptor ha1/ap1 adaptin sigma-1a subunit) (clathrin assembly protein complex 1 sigma- 1a small chain) (clathrin coat assembly protein ap19) (ha1 19 kda subunit) (sigma 1a subunit of ap-1 clathrin). [swissprot;acc:q00382] Subtracted 222.134 225.731 3.597
ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5] Divided 221.128 224.767 1.01646
1569 glycogen [starch] synthase, muscle (ec 2.4.1.11). [swissprot;acc:p13807] Subtracted 159.75 156.153 3.597
lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851] Divided 221.128 224.767 1.01646
1570 endo-beta-n-acetylglucosaminidase. [refseq;acc:nm_022759] Subtracted 159.86 156.275 3.585
protein c20orf45 (cgi-107). [swissprot;acc:q9y3b1] Divided 221.128 224.767 1.01646
1571 eukaryotic translation initiation factor 3 subunit 6 interacting protein (hspc021/hspc025). [swissprot;acc:q9y262]
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] Subtracted 213.546 209.965 3.581
1572 gtp-binding protein era homolog (hera) (fragment). [swissprot;acc:o75616]
putative rna-binding protein 7 (rna binding motif protein 7). [swissprot;acc:q9y580] Divided 221.128 224.767 1.01646
1573 cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326] Subtracted 121.428 125.004 3.576
r3h domain protein 1. [swissprot;acc:q15032] Divided 218.105 214.573 1.01646
1574 glycogen [starch] synthase, liver (ec 2.4.1.11). [swissprot;acc:p54840] Subtracted 159.993 156.421 3.572
tata element modulatory factor (tmf). [swissprot;acc:p82094] Divided 222.585 218.982 1.01645
1575 adapter-related protein complex 2 beta 1 subunit (beta-adaptin) (plasma membrane adaptor ha2/ap2 adaptin beta subunit) (clathrin assembly protein complex 2 beta large chain) (ap105b). [swissprot;acc:p21851] Subtracted 222.103 225.675 3.572
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] Divided 222.585 218.982 1.01645
1576 adenosylhomocysteinase (ec 3.3.1.1) (s-adenosyl-l-homocysteine hydrolase) (adohcyase). [swissprot;acc:p23526] Subtracted 215.389 211.833 3.556
nuclear pore complex protein nup98 (nucleoporin nup98) (98 kda nucleoporin). [swissprot;acc:p52948] Divided 222.585 218.982 1.01645
1577 6-phosphogluconolactonase (ec 3.1.1.31) (6pgl). [swissprot;acc:o95336] Subtracted 216.891 220.432 3.541
ammecr1 protein. [refseq;acc:nm_015365] Divided 222.585 218.982 1.01645
1578 atp synthase gamma chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p36542] Subtracted 218.277 214.739 3.538
mrna-associated protein mrnp 41 (rae1 protein homolog). [swissprot;acc:p78406] Divided 222.585 218.982 1.01645
1579 atp synthase oligomycin sensitivity conferral protein, mitochondrial precursor (ec 3.6.3.14) (oscp). [swissprot;acc:p48047] Subtracted 218.277 214.739 3.538
cda11 protein. [refseq;acc:nm_032026] Divided 213.181 209.732 1.01644
1580 g2/mitotic-specific cyclin b2. [swissprot;acc:o95067] 168.018 170.769 1.01637
r3h domain protein 1. [swissprot;acc:q15032] Subtracted 218.105 214.573 3.532
1581 cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526] Divided 168.002 170.753 1.01637
protein c20orf4 (protein cgi-23) (pro0225). [swissprot;acc:q9y312] Subtracted 220.129 216.598 3.531
1582 g2/mitotic-specific cyclin b1. [swissprot;acc:p14635] Divided 168.098 170.844 1.01634
transcription elongation factor a protein 2 (transcription elongation factor s-ii protein 2) (testis-specific s-ii) (transcription elongation factor tfiis.l). [swissprot;acc:q15560] Subtracted 227.768 231.246 3.478
1583 cell division protein kinase 2 (ec 2.7.1.-) (p33 protein kinase). [swissprot;acc:p24941] Divided 168.091 170.837 1.01634
transcription elongation factor a protein 1 (transcription elongation factor s-ii protein 1) (transcription elongation factor tfiis.o). [swissprot;acc:p23193] Subtracted 227.768 231.246 3.478
1584 6-phosphogluconolactonase (ec 3.1.1.31) (6pgl). [swissprot;acc:o95336] Divided 216.891 220.432 1.01633
enthoprotin; epsin 4; clathrin interacting protein localized in the trans-golgi region. [refseq;acc:nm_014666] Subtracted 221.426 224.902 3.476
1585 cell division control protein 2 homolog (ec 2.7.1.-) (p34 protein kinase) (cyclin-dependent kinase 1) (cdk1). [swissprot;acc:p06493] Divided 168.145 170.888 1.01631
dystrobrevin binding protein 1; dysbindin. [refseq;acc:nm_032122] Subtracted 217.871 214.404 3.467
1586 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] Divided 222.166 225.79 1.01631
rrp5 protein homolog (programmed cell death protein 11). [swissprot;acc:q14690] Subtracted 230.643 227.194 3.449
1587 cda11 protein. [refseq;acc:nm_032026] 213.181 209.732
protein c20orf4 (protein cgi-23) (pro0225). [swissprot;acc:q9y312] Divided 220.129 216.598 1.0163
1588 kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [swissprot;acc:q16719] Subtracted 181.882 178.438 3.444
ring finger protein 25 (ec 6.3.2.-). [swissprot;acc:q96bh1] Divided 177.834 180.725 1.01626
1589 p10-binding protein. [refseq;acc:nm_024491] Subtracted 221.313 217.877 3.436
valyl-trna synthetase 2 (ec 6.1.1.9) (valine--trna ligase 2) (valrs 2) (g7a). [swissprot;acc:p26640] Divided 223.589 227.219 1.01624
1590 n-acetylglutamate synthase. [refseq;acc:nm_153006] Subtracted 223.179 226.611 3.432

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/