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 Network Comparison Type Interaction Map Value Type green red network_comparison Filtered
Results: HTML CSV LaTeX Showing element 51 to 100 of 3730 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Value Type  : Ranked
Rank
description
green
red
network_comparison
Filtered
26 dystrobrevin binding protein 1; dysbindin. [refseq;acc:nm_032122] 7533.33 12128.3 1.60995 0
pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999] 44 58 1.31818 1
27 mitochondrial solute carrier protein. [refseq;acc:nm_145305]
ptd016 protein. [refseq;acc:nm_016125] 11234 18050 1.60673 0
28 cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847] 153.671 201.949 1.31416 1
p28 ing5. [refseq;acc:nm_032329] 7562.05 12124.8 1.60337 0
29 phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086] 11625 7395 1.57201
uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48] 243.678 187.458 1.29991 1
30 beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938] 11625 7395 1.57201 0
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] 243.678 187.457 1.29991 1
31 leucine rich repeat (in flii) interacting protein 1. [refseq;acc:nm_004735] 5266.67 8082.33 1.53462 0
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] 243.677 187.458 1.2999 1
32 importin 9. [refseq;acc:nm_018085] 8691.76 13292.2 1.52929 0
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] 243.673 187.462 1.29985 1
33 nucleosome assembly protein 1-like 4 (nucleosome assembly protein 2) (nap2). [swissprot;acc:q99733] 8691.76 13292.2 1.52929 0
serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, beta isoform (pp2a, subunit a, pr65-beta isoform) (pp2a, subunit a, r1-beta isoform). [swissprot;acc:p30154] 242.742 188.688 1.28647 1
34 microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268] 17173.8 11284 1.52196 0
serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, alpha isoform (pp2a, subunit a, pr65-alpha isoform) (pp2a, subunit a, r1-alpha isoform) (medium tumor antigen-associated 61 kda protein). [swissprot;acc:p30153] 242.453 189.07 1.28235 1
35 nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] 4871.6 3208.8 1.5182 0
nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952] 204.309 260.532 1.27519 1
36 ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511]
guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [swissprot;acc:q9byb4] 14964 22422 1.4984 0
37 dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0] 2582 3859 1.49458
protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256] 253 322 1.27273 1
38 cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336] 10771 7230 1.48976 0
microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083] 253 322 1.27273 1
39 ero1-like. [refseq;acc:nm_014584] 20536 13853 1.48242 0
protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726] 253 322 1.27273 1
40 ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]
filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333] 5699 3845 1.48218 0
41 60s ribosomal protein l21. [swissprot;acc:p46778] 6758.83 9994.33 1.47871
protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949] 253 322 1.27273 1
42 adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236] 5530.5 8158 1.47509 0
proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100] 160.957 204.641 1.2714 1
43 glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712] 8356.02 12143.8 1.4533 0
jun dimerization protein. [refseq;acc:nm_130469] 160.957 204.641 1.2714 1
44 fos-related antigen 2. [swissprot;acc:p15408] 161.046 1.2707
serpin b12. [swissprot;acc:q96p63] 21138.6 14604.2 1.44743 0
45 hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8] 21113.7 14592 1.44694
protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] 161.051 204.641 1.27066 1
46 60s ribosomal protein l37a. [swissprot;acc:p12751] 18499.2 12941.7 1.42943 0
fos-related antigen 1 (fra-1). [swissprot;acc:p15407] 161.068 204.642 1.27053 1
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] 18499.2 12941.7 1.42943 0
gbp protein isoform a. [refseq;acc:nm_017870] 256.492 325.586 1.26938 1
48 gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] 83.0461 65.4586 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] 6909 9830 1.42278 0
49 beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] 105 133 1.26667 1
brain protein 16. [refseq;acc:nm_016458] 4854.99 6890.54 1.41927 0
50 beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] 105 133 1.26667 1
cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747] 13091.4 9249.73 1.41533 0

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/