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

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/