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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Filtered Value Type Network Comparison Type Gene green red network_comparison Interaction Map Rank description
Results: HTML CSV LaTeX Showing element 3180 to 3229 of 77072 in total
Filtered  : 0
Value Type  : Ranked
Network Comparison Type  : Divided
green
red
network_comparison
Interaction Map
Rank
description
10636 10819.8 1.01728 Low confidence 713 dyskerin (nucleolar protein nap57) (cbf5 homolog). [swissprot;acc:o60832]
11106.3 1.04422 566 huntingtin-interacting protein hypa/fbp11 (fragment). [sptrembl;acc:o75404]
10636.1 9412.78 1.12996 286 spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813]
10636.3 11844.9 1.11363 High confidence 205 60s ribosomal protein l23a. [swissprot;acc:p29316]
10637.6 10680.4 1.00402 Low confidence 810 60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025]
10638.4 11846.3 1.11354 High confidence 208 c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]
10641.7 12303.7 1.15618 156 tubby protein homolog. [swissprot;acc:p50607]
10644.4 10978.8 1.03142 414 germ cell-less. [refseq;acc:nm_022471]
10646.1 10603 1.00406 Low confidence 808 intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3]
10653.8 10808.3 1.0145 729 40s ribosomal protein s29. [swissprot;acc:p30054]
10665.1 10273.1 1.03816 High confidence 383 chromodomain y-like protein 2. [refseq;acc:nm_152342]
10665.3 10507.6 1.01501 Low confidence 726 sodium/potassium-transporting atpase alpha-2 chain precursor (ec 3.6.3.9) (sodium pump 2) (na+/k+ atpase 2). [swissprot;acc:p50993]
10670.2 9851.59 1.08309 392 alpha-amylase, salivary precursor (ec 3.2.1.1) (1,4-alpha-d-glucan glucanohydrolase). [swissprot;acc:p04745]
10671.1 11211.1 1.0506 535 cytochrome c oxidase subunit viia-l related protein, mitochondrial precursor. [swissprot;acc:o60397]
10680.5 12301.4 1.15176 High confidence 162 putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642]
10686.7 10302.7 1.03727 385 testis-specific chromodomain protein y protein 2. [swissprot;acc:q9y6f7]
10687.4 10303.7 1.03724 386 testis-specific chromodomain y protein 1. [swissprot;acc:q9y6f8]
10695.6 10284.9 1.03993 376 ubiquinol-cytochrome c reductase complex core protein i, mitochondrial precursor (ec 1.10.2.2). [swissprot;acc:p31930]
10700.6 10775.5 1.007 Low confidence 788 galectin-4 (lactose-binding lectin 4) (l-36 lactose binding protein) (l36lbp) (antigen ny-co-27). [swissprot;acc:p56470]
10702.3 11400.2 1.06521 470 glutamate dehydrogenase 2, mitochondrial precursor (ec 1.4.1.3) (gdh). [swissprot;acc:p49448]
10710.2 11242.9 1.04974 538 cytochrome c oxidase polypeptide viia-heart, mitochondrial precursor (ec 1.9.3.1) (cytochrome c oxidase subunit viia-h) (cox viia-m). [swissprot;acc:p24310]
10716 11324.8 1.05681 511 zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623]
10723.7 9473.01 1.13203 High confidence 179 mevalonate kinase (ec 2.7.1.36) (mk). [swissprot;acc:q03426]
10736.4 10419.2 1.03044 Low confidence 620 tolloid-like 1. [refseq;acc:nm_012464]
10741 10337.6 1.03902 596 phospholipase b. [refseq;acc:nm_153021]
10757.5 11129 1.03453 607 60s ribosomal protein l17 (l23). [swissprot;acc:p18621]
10763.4 11644 1.08181 High confidence 278 associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799]
10763.7 11745.8 1.09124 Low confidence 367 60s ribosomal protein l23a. [swissprot;acc:p29316]
10764.4 11749.1 1.09148 365 c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]
10771 7230 1.48976 High confidence 38 cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336]
10772 10661 1.01041 Low confidence 758 dj408b20.3 (novel protein similar to 60s acidic ribosomal protein p2 (rplp2)). [sptrembl;acc:q9h5a9]
10779.4 11605.1 1.0766 428 60s ribosomal protein l21. [swissprot;acc:p46778]
429 solute carrier family 26 member 6 (pendrin-like protein 1) (pendrin l1). [swissprot;acc:q9bxs9]
10788.6 11454.3 1.0617 481 4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404]
10792.3 11372.3 1.05374 High confidence 340 guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148]
10794.3 12046.9 1.11604 Low confidence 302 putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642]
10806 11228.4 1.03909 High confidence 379 26s proteasome non-atpase regulatory subunit 10 (26s proteasome regulatory subunit p28) (gankyrin). [swissprot;acc:o75832]
10811.5 10369.4 1.04264 Low confidence 574 creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532]
10815.1 9633.16 1.12269 293 glycine receptor alpha-3 chain precursor. [swissprot;acc:o75311]
10823.5 11381.7 1.05157 527 germ cell-less. [refseq;acc:nm_022471]
10830.6 10634.7 1.01842 700 pepsin a precursor (ec 3.4.23.1). [swissprot;acc:p00790]
10847.1 10652.1 1.01831 704 anaphase promoting complex subunit 11 (hepatocellular carcinoma associated ring finger protein) (hspc214). [swissprot;acc:q9nyg5]
10848.6 12042.2 1.11002 320 ubiquitin-conjugating enzyme hbuce1. [refseq;acc:nm_015983]
10855.5 10767.1 1.00821 777 filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]
10860.5 11565.8 1.06494 471 voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02]
10865.5 9248.93 1.17478 129 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150]
10866.3 11186 1.02942 High confidence 421 alpha-1-acid glycoprotein 2 precursor (agp 2) (orosomucoid 2) (omd 2). [swissprot;acc:p19652]
10869.5 10481.8 1.03699 387 thymidylate kinase (ec 2.7.4.9) (dtmp kinase). [swissprot;acc:p23919]
10869.8 11714.4 1.0777 Low confidence 409 40s ribosomal protein s2 (s4) (llrep3 protein). [swissprot;acc:p15880]
10877.2 11685.1 1.07427 443 brca1 associated protein. [refseq;acc:nm_006768]

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/