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 Gene Value Type Network Comparison Type Interaction Map network_comparison Rank description green red
Results: HTML CSV LaTeX Showing element 1 to 50 of 77072 in total
Filtered  : 0
Value Type  : Measured
Network Comparison Type  : Divided
Interaction Map  : High confidence
network_comparison
Rank
description
green
red
1 494 histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [swissprot;acc:p02261] 0.00001 0.00001
495 histone h2a.a (h2a/a) (h2a.2). [swissprot;acc:p28001]
496 mitochondrial 28s ribosomal protein s6 (mrp-s6). [swissprot;acc:p82932]
497 histone h2a; h2a histone family, member r. [refseq;acc:nm_170745]
498 translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598]
499 homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]
500 rwd domain containing 1; ptd013 protein; cgi-24 protein. [refseq;acc:nm_015952]
501 h2a histone family, member j isoform 1. [refseq;acc:nm_018267]
502 brca1 associated protein. [refseq;acc:nm_006768]
1.00059 493 pyruvate dehydrogenase e1 component alpha subunit, testis-specific form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type ii). [swissprot;acc:p29803] 2411.78 2410.35
1.00159 492 3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8] 5046.33 5038.33
1.00223 491 high mobility group protein 1 (hmg-1). [swissprot;acc:p09429] 22910.9 22962
1.00224 489 dj579f20.1 (high-mobility group (nonhistone chromosomal) protein 1-like 1). [sptrembl;acc:q9nqj4] 22895.1 22946.3
490 high mobility group protein 1-like 10 (hmg-1l10). [swissprot;acc:q9ugv6] 22888.8 22940.1
1.00225 487 ras-related c3 botulinum toxin substrate 1 (p21-rac1) (ras-like protein tc25). [swissprot;acc:p15154] 249.857 250.419
488 ras-related c3 botulinum toxin substrate 3 (p21-rac3). [swissprot;acc:o14658]
1.00227 486 nuclear autoantigen sp-100 (speckled 100 kda) (nuclear dot-associated sp100 protein) (lysp100b). [swissprot;acc:p23497] 22826.8 22878.7
1.00229 485 high mobility group protein 4-like (hmg-4l). [swissprot;acc:q9uj13] 22797.8 22850.1
1.00278 484 scribble. [refseq;acc:nm_015356] 961.098 958.429
1.0029 483 probable glutamyl-trna(gln) amidotransferase subunit b, mitochondrial precursor (ec 6.3.5.-) (glu-adt subunit b) (cytochrome oxidase assembly factor pet112 homolog). [swissprot;acc:o75879] 20672.6 20612.9
1.00387 482 sprouty homolog 4 (spry-4). [swissprot;acc:q9c004] 796.85 793.778
1.00475 481 mitogen-activated protein kinase kinase kinase 5 (ec 2.7.1.-) (mapk/erk kinase kinase 5) (mek kinase 5) (mekk 5) (apoptosis signal- regulating kinase 1) (ask-1). [swissprot;acc:q99683] 563.113 565.785
1.00488 480 orphan nuclear receptor nr2e1 (nuclear receptor tlx) (tailless homolog) (tll) (htll). [swissprot;acc:q9y466] 6396.8 6428
1.00587 479 adenylosuccinate synthase-like 1. [refseq;acc:nm_152328] 1310.67 1318.37
1.00669 478 survival motor neuron protein (component of gems 1) (gemin1). [swissprot;acc:q16637] 701.071 705.758
1.00704 477 atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915] 429 426
1.00716 476 dead/h (asp-glu-ala-asp/his) box polypeptide 11; dead/h box-11 (chl1-related helicase gene-1); yeast chl1 homolog. [refseq;acc:nm_030655] 1372.31 1362.55
1.00722 475 alpha-1-acid glycoprotein 2 precursor (agp 2) (orosomucoid 2) (omd 2). [swissprot;acc:p19652] 2335.98 2319.24
1.00763 474 26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [swissprot;acc:o00232] 2263.85 2281.12
1.00765 472 histone h3.3 (h3.a) (h3.b) (h3.3q). [swissprot;acc:p06351] 3919.25 3889.5
473 dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9]
1.00785 471 signal recognition particle receptor alpha subunit (sr-alpha) (docking protein alpha) (dp-alpha). [swissprot;acc:p08240] 3825.73 3855.78
1.00817 470 huntingtin interacting protein e; huntingtin interactor protein e. [refseq;acc:nm_007076] 39485 39165
1.00822 469 transcription factor btf3 homolog 3. [swissprot;acc:q13892] 221.565 219.759
1.00836 468 transcription initiation factor tfiid 20/15 kda subunits (tafii- 20/tafii-15) (tafii20/tafii15). [swissprot;acc:q16514] 604.911 599.896
1.00856 467 similar to cg7020 gene product (fragment). [sptrembl;acc:q96ib4] 2782.56 2806.38
1.01082 466 ischemia/reperfusion inducible protein. [refseq;acc:nm_024640] 1483.62 1467.74
1.01102 465 homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272] 6254.09 6323
1.01136 464 maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [swissprot;acc:o43708] 2264.37 2290.09
1.01163 463 dihydrofolate reductase (ec 1.5.1.3). [swissprot;acc:p00374] 1248.14 1262.65
1.01202 462 leucine rich repeat (in flii) interacting protein 1. [refseq;acc:nm_004735] 11305 11170.7
1.01229 461 dna-directed rna polymerase i 16 kda polypeptide (ec 2.7.7.6) (rpa16). [swissprot;acc:q9y2s0] 1892.44 1915.69
1.01259 460 intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3] 3739.55 3693.07
1.01266 459 intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811] 3821.87 3774.08
1.01327 458 nuclear rna export factor 5 (tap-like protein 1) (tapl-1). [swissprot;acc:q9h1b4] 2668.56 2633.61
1.01341 457 dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692] 1541.69 1562.36
1.01343 456 cop9 signalosome complex subunit 1 (g protein pathway suppressor 1) (gps1 protein) (mfh protein). [swissprot;acc:q13098] 17126 17356
1.01362 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] 2371.24 2403.53
1.01402 454 transducin-like enhancer protein 1 (esg1). [swissprot;acc:q04724] 3174.79 3219.3
1.01438 453 bloom's syndrome protein (ec 3.6.1.-) (recq protein-like 3) (dna helicase, recq-like, type 2). [swissprot;acc:p54132] 1356.52 1337.29

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/