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.


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 [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 151 to 200 of 7460 in total
Value Type  : Ranked
Interaction Map  : High confidence
Rank
description
Network Comparison Type
Filtered
red
green
network_comparison
38 microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083] Divided 1 322 253 1.27273
p28 ing5. [refseq;acc:nm_032329] Subtracted 0 12124.8 7562.05 4562.75
39 acrc protein; putative nuclear protein. [refseq;acc:nm_052957] 6313.38 10621.4 4308.02
ero1-like. [refseq;acc:nm_014584] Divided 13853 20536 1.48242
guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520] Subtracted 1 268.565 334.483 65.918
protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726] Divided 322 253 1.27273
40 deltex 2. [refseq;acc:nm_020892] Subtracted 333.144 267.393 65.751
ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485] Divided 322 253 1.27273
filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333] 0 3845 5699 1.48218
phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086] Subtracted 7395 11625 4230
41 60s ribosomal protein l21. [swissprot;acc:p46778] Divided 9994.33 6758.83 1.47871
beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938] Subtracted 7395 11625 4230
deltex homolog 1; hdx-1. [refseq;acc:nm_004416] 1 332.925 267.274 65.651
protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949] Divided 322 253 1.27273
42 adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236] 0 8158 5530.5 1.47509
folylpolyglutamate synthase, mitochondrial precursor (ec 6.3.2.17) (folylpoly-gamma-glutamate synthetase) (fpgs). [swissprot;acc:q05932] Subtracted 9429.18 5208.84 4220.34
proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100] Divided 1 204.641 160.957 1.2714
t-lak cell-originated protein kinase; spermatogenesis-related protein kinase; pdz-binding kinase; pbk; mapkk-like protein kinase; serine/threonine protein kinase. [refseq;acc:nm_018492] Subtracted 332.874 267.246 65.628
43 dok-like protein. [refseq;acc:nm_024872] 0 17571 21783 4212
glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712] Divided 12143.8 8356.02 1.4533
jun dimerization protein. [refseq;acc:nm_130469] 1 204.641 160.957 1.2714
kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558] Subtracted 332.874 267.246 65.628
44 fos-related antigen 2. [swissprot;acc:p15408] Divided 204.641 161.046 1.2707
glutamate dehydrogenase 2, mitochondrial precursor (ec 1.4.1.3) (gdh). [swissprot;acc:p49448] Subtracted 0 15863.6 11662.3 4201.3
kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559] 1 332.874 267.246 65.628
serpin b12. [swissprot;acc:q96p63] Divided 0 14604.2 21138.6 1.44743
45 glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926] Subtracted 11761 15924 4163
hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8] Divided 14592 21113.7 1.44694
kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] Subtracted 1 332.874 267.246 65.628
protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] Divided 204.641 161.051 1.27066
46 60s ribosomal protein l37a. [swissprot;acc:p12751] 0 12941.7 18499.2 1.42943
fos-related antigen 1 (fra-1). [swissprot;acc:p15407] 1 204.642 161.068 1.27053
heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107] Subtracted 0 5210.5 9264.5 4054
neuralized-like. [refseq;acc:nm_004210] 1 332.326 266.948 65.378
47 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528] Divided 0 12941.7 18499.2 1.42943
gbp protein isoform a. [refseq;acc:nm_017870] 1 325.586 256.492 1.26938
testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [swissprot;acc:p16562] Subtracted 0 15352 11346.5 4005.5
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] 1 350 290 60
48 gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] Divided 65.4586 83.0461 1.26868
nadh-ubiquinone oxidoreductase 13 kda-b subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-13kd-b) (ci-13kd-b) (complex i subunit b13). [swissprot;acc:q16718] 0 9830 6909 1.42278
small nuclear ribonucleoprotein associated proteins b and b' (snrnp-b) (sm protein b/b') (sm-b/sm-b') (smb/smb'). [swissprot;acc:p14678] Subtracted 18359.8 14447.8 3912
tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] 1 350 290 60
49 beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] Divided 133 105 1.26667
brain protein 16. [refseq;acc:nm_016458] 0 6890.54 4854.99 1.41927
dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552] Subtracted 1 350 290 60
dead-box protein. [refseq;acc:nm_018665] 0 10628.3 14486 3857.7
50 beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] Divided 1 133 105 1.26667
cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747] 0 9249.73 13091.4 1.41533
Subtracted 3841.67
cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627] 1 350 290 60

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/