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.


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Filtered network_comparison Gene green Rank description Network Comparison Type Value Type red Interaction Map
Results: HTML CSV LaTeX Showing element 501 to 550 of 38536 in total
Filtered  : 0
Network Comparison Type  : Divided
network_comparison
green
Rank
description
Value Type
red
Interaction Map
1.01265 30.7252 464 arp2/3 complex 41 kda subunit (p41-arc) (actin-related protein 2/3 complex subunit 1b). [swissprot;acc:o15143] Rooted 30.3413 High confidence
1.01266 3821.87 459 intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811] Measured 3774.08
1.0127 11463 471 galectin-4 (lactose-binding lectin 4) (l-36 lactose binding protein) (l36lbp) (antigen ny-co-27). [swissprot;acc:p56470] Ranked 11319.2
1.01275 2887.65 747 protein cgi-147. [swissprot;acc:q9y3e5] Measured 2851.31 Low confidence
1.01279 794.983 746 glycerol kinase (ec 2.7.1.30) (atp:glycerol 3-phosphotransferase) (glycerokinase) (gk). [swissprot;acc:p32189] 784.942
1.01284 11235.2 738 pyruvate dehydrogenase e1 component alpha subunit, testis-specific form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type ii). [swissprot;acc:p29803] Ranked 11092.8
1.01289 21.2529 749 spir-2 protein (fragment). [sptrembl;acc:q8wwl2] Rooted 21.5268
1.01291 1011.49 745 tera protein. [refseq;acc:nm_021238] Measured 1024.55
1.01292 35.3221 463 transducin-like enhancer protein 1 (esg1). [swissprot;acc:q04724] Rooted 35.7784 High confidence
1.01296 794.045 744 glycerol kinase, testis specific 1 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14409] Measured 783.888 Low confidence
1.01302 838.364 743 40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865] 827.585
1.01304 6006.69 742 transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653] 6085.01
1.01318 14698.6 737 mitochondrial carrier protein mgc4399. [refseq;acc:nm_032315] Ranked 14892.4
1.01319 42474.3 782 cgmp-dependent protein kinase 1, beta isozyme (ec 2.7.1.37) (cgk 1 beta) (cgki-beta). [swissprot;acc:p14619] Squared 41921.4
1.01321 2084.19 741 putative forkhead box protein kiaa1041. [swissprot;acc:q9upw0] Measured 2111.72
2549.32 740 pellino protein. [refseq;acc:nm_020651] 2516.09
2941.38 739 tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735] 2980.23
1.01327 2668.56 458 nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [swissprot;acc:q9h1b4] 2633.61 High confidence
1.01334 18.2858 462 sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633] Rooted 18.5298
1.01341 1541.69 457 dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692] Measured 1562.36
1.01343 17126 456 cop9 signalosome complex subunit 1 (g protein pathway suppressor 1) (gps1 protein) (mfh protein). [swissprot;acc:q13098] 17356
1.01344 791.14 738 glycerol kinase, testis specific 2 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14410] 780.647 Low confidence
3025.5 781 tera protein. [refseq;acc:nm_021238] Squared 3066.15
1.0135 61.8357 461 glycogenin-2 (ec 2.4.1.186) (gn-2) (gn2). [swissprot;acc:o15488] Rooted 62.6706 High confidence
1.01359 27.2466 748 60s ribosomal protein l12. [swissprot;acc:p30050] 26.8813 Low confidence
1.01362 68.7756 747 intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3] 67.8515
2371.24 455 protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949] Measured 2403.53 High confidence
737 Low confidence
1.01365 1530.84 736 40s ribosomal protein s25. [swissprot;acc:p25111] 1551.74
1.01366 2082.4 735 forkhead box protein j1 (forkhead-related protein fkhl13) (hepatocyte nuclear factor 3 forkhead homolog 4) (hfh-4). [swissprot;acc:q92949] 2110.84
1.01368 27.2528 746 dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02] Rooted 26.8851
1.01371 11002.1 736 importin 4. [refseq;acc:nm_024658] Ranked 11152.9
1.01372 22.0538 745 myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3] Rooted 21.7553
27.2559 744 60s ribosomal protein l12 like protein. [sptrembl;acc:o60886] 26.8871
1.01376 16.5202 460 dj718p11.1.2 (novel class ii aminotransferase similar to serine palmotyltransferase (isoform 2)) (fragment). [sptrembl;acc:q9ugb5] 16.2959 High confidence
1.01377 8632.48 780 ubiquitin-conjugating enzyme hbuce1. [refseq;acc:nm_015983] Squared 8515.24 Low confidence
1.0138 1960.13 734 histone h2b.q (h2b/q) (h2b-gl105). [swissprot;acc:q16778] Measured 1987.18
1.01381 34.9415 743 filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333] Rooted 34.4657
1.01382 1960.31 733 histone h2b.d (h2b/d). [swissprot;acc:q99877] Measured 1987.41
1.01384 1959.64 730 histone h2b. [refseq;acc:nm_175055] 1986.76
1959.66 732 histone h2b.e (h2b/e). [swissprot;acc:q99879] 1986.79
1959.76 731 histone h2b.s (h2b/s). [swissprot;acc:p57053] 1986.88
1.01391 20914 467 histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [swissprot;acc:p02261] Ranked 21205 High confidence
468 histone h2a.a (h2a/a) (h2a.2). [swissprot;acc:p28001]
469 histone h2a; h2a histone family, member r. [refseq;acc:nm_170745]
470 h2a histone family, member j isoform 1. [refseq;acc:nm_018267]
1.01394 68.5228 742 intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811] Rooted 67.5806 Low confidence
11066.5 735 pr-domain zinc finger protein 7. [swissprot;acc:q9nqw5] Ranked 11220.8
1.01395 23.8664 741 thymidylate kinase (ec 2.7.4.9) (dtmp kinase). [swissprot;acc:p23919] Rooted 24.1994
1961.27 729 histone h2b.c (h2b/c). [swissprot;acc:q99880] Measured 1988.62

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/