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 Value Type description Interaction Map Filtered Network Comparison Type green red network_comparison
Results: HTML CSV LaTeX Showing element 551 to 600 of 33156 in total
Filtered  : 1
Network Comparison Type  : Divided
Rank
Value Type
description
Interaction Map
green
red
network_comparison
69 Rooted amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410] Low confidence 67.1136 60.7884 1.10405
neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784] High confidence 37.2872 27.9136 1.33581
70 Measured amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433] 10307.5 6475.5 1.59177
y+l amino acid transporter 1 (y(+)l-type amino acid transporter 1) (y+lat-1) (y+lat1) (monocyte amino acid permease 2) (mop-2). [swissprot;acc:q9um01] Low confidence 7848.45 6991.78 1.12253
Ranked 27 kda golgi snare protein (golgi snap receptor complex member 2) (membrin). [swissprot;acc:o14653] 235.017 259.517 1.10425
guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899] High confidence 336.074 267.142 1.25804
Squared melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] 129762 219048 1.68808
phospholipase a-2-activating protein (plap) (pla2p). [swissprot;acc:q9y263] Low confidence 64191.7 80538.1 1.25465
Rooted chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873] High confidence 37.2872 27.9136 1.33581
transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188] Low confidence 68.2337 61.9982 1.10058
71 Measured cystine/glutamate transporter (amino acid transport system xc-) (xct) (calcium channel blocker resistance protein ccbr1). [swissprot;acc:q9upy5] 7848.45 6991.78 1.12253
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007] High confidence 2945.26 4556.78 1.54716
Ranked cysteine-rich protein 1 (cysteine-rich intestinal protein) (crip) (cysteine-rich heart protein) (hcrhp). [swissprot;acc:p50238] Low confidence 209.149 230.944 1.10421
guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898] High confidence 336.073 267.144 1.25802
Squared a-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (a-raf-1) (proto-oncogene pks). [swissprot;acc:p10398] Low confidence 51068.8 63411.7 1.24169
melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] High confidence 129762 219048 1.68808
Rooted doc-1 related protein (doc-1r). [swissprot;acc:o75956] 37.2872 27.9136 1.33581
tbp-associated factor 2; taf2 rna polymerase ii, tata box binding protein (tbp)-associated factor, 150 kd; tata box binding protein (tbp)-associated factor, rna polymerase ii, b, 150kd; cofactor of initiator function, 150kd subunit. [refseq;acc:nm_003184] Low confidence 65.6325 59.6397 1.10048
72 Measured solute carrier family 7 (cationic amino acid transporter, y+ system), member 6. [refseq;acc:nm_003983] 7848.45 6991.78 1.12253
uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48] High confidence 2945.28 4556.79 1.54715
Ranked guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754] 336.073 267.144 1.25802
set and mynd domain containing 2; hskm-b protein; zinc finger, mynd domain containing 14. [refseq;acc:nm_020197] Low confidence 209.149 230.944 1.10421
Squared melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366] High confidence 129762 219048 1.68808
raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (raf-1) (c-raf). [swissprot;acc:p04049] Low confidence 51065.9 63404.8 1.24163
Rooted mitochondrial tumor suppressor gene 1; transcription factor mtsg1; at2 receptor-interacting protein 1; erythroid differentiation-related gene. [refseq;acc:nm_020749] 69.4305 63.1259 1.09987
neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8] High confidence 37.2872 27.9136 1.33581
73 Measured eukaryotic translation initiation factor 4b (eif-4b). [swissprot;acc:p23588] Low confidence 7848.45 6991.78 1.12253
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, beta isoform (pp2a, subunit b, b-beta isoform) (pp2a, subunit b, b55- beta isoform) (pp2a, subunit b, pr55-beta isoform) (pp2a, subunit b, r2-beta isoform). [swissprot;acc:q00005] High confidence 2945.38 4556.83 1.54711
Ranked junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2] 362 288 1.25694
set and mynd domain containing protein 1. [sptrembl;acc:q8nb12] Low confidence 209.149 230.944 1.10421
Squared carboxypeptidase n 83 kda chain (carboxypeptidase n regulatory subunit) (fragment). [swissprot;acc:p22792] 51013.1 63279.6 1.24046
melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1] High confidence 129762 219048 1.68808
Rooted neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562] 37.2872 27.9136 1.33581
rad50-interacting protein 1. [refseq;acc:nm_021930] Low confidence 71.0277 64.6594 1.09849
74 Measured b(0,+)-type amino acid transporter 1 (b(0,+)at) (glycoprotein- associated amino acid transporter b0,+at1). [swissprot;acc:p82251] 7848.45 6991.78 1.12253
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, gamma isoform (pp2a, subunit b, b-gamma isoform) (pp2a, subunit b, b55-gamma isoform) (pp2a, subunit b, pr55-gamma isoform) (pp2a, subunit b, r2-gamma isoform) (imypno1). [swissprot;acc:q9y2t4] High confidence 2945.8 4556.99 1.54694
Ranked junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39] 362 288 1.25694
putative adenosylhomocysteinase 2 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:o43865] Low confidence 215.516 195.817 1.1006
Squared platelet glycoprotein v precursor (gpv) (cd42d). [swissprot;acc:p40197] 51013.3 63279.9 1.24046
trophinin. [swissprot;acc:q12816] High confidence 129762 219048 1.68808
Rooted diacylglycerol kinase, eta isoform 1. [refseq;acc:nm_152910] Low confidence 68.3765 62.2472 1.09847
neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90] High confidence 37.2872 27.9136 1.33581
75 Measured nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [swissprot;acc:o43181] 2907.43 1920.75 1.5137
septin 7 (cdc10 protein homolog). [swissprot;acc:q16181] Low confidence 12942.3 11616 1.11418
Ranked nipsnap2 protein (glioblastoma amplified sequence). [swissprot;acc:o75323] 226.944 249.709 1.10031
sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906] High confidence 362 288 1.25694
Squared b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [swissprot;acc:p15056] Low confidence 50932.2 63087.3 1.23865
myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0] High confidence 184298 110342 1.67024
Rooted chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557] 37.2872 27.9136 1.33581
diacylglycerol kinase, delta (ec 2.7.1.107) (diglyceride kinase) (dgk-delta) (dag kinase delta) (130 kda diacylglycerol kinase) (fragment). [swissprot;acc:q16760] Low confidence 68.3765 62.2472 1.09847

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/