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 [...,...].
Gene Filtered Value Type network_comparison Rank green description Interaction Map Network Comparison Type red
Results: HTML CSV LaTeX Showing element 1 to 50 of 29840 in total
Filtered  : 0
Value Type  : Measured
Interaction Map  : High confidence
network_comparison
Rank
green
description
Network Comparison Type
red
0 494 0 histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [swissprot;acc:p02261] Subtracted 0
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]
0.562 492 249.857 ras-related c3 botulinum toxin substrate 1 (p21-rac1) (ras-like protein tc25). [swissprot;acc:p15154] 250.419
493 ras-related c3 botulinum toxin substrate 3 (p21-rac3). [swissprot;acc:o14658]
1 494 0.00001 histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [swissprot;acc:p02261] Divided 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 2411.78 pyruvate dehydrogenase e1 component alpha subunit, testis-specific form, mitochondrial precursor (ec 1.2.4.1) (pdhe1-a type ii). [swissprot;acc:p29803] 2410.35
1.00159 492 5046.33 3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8] 5038.33
1.00223 491 22910.9 high mobility group protein 1 (hmg-1). [swissprot;acc:p09429] 22962
1.00224 489 22895.1 dj579f20.1 (high-mobility group (nonhistone chromosomal) protein 1-like 1). [sptrembl;acc:q9nqj4] 22946.3
490 22888.8 high mobility group protein 1-like 10 (hmg-1l10). [swissprot;acc:q9ugv6] 22940.1
1.00225 487 249.857 ras-related c3 botulinum toxin substrate 1 (p21-rac1) (ras-like protein tc25). [swissprot;acc:p15154] 250.419
488 ras-related c3 botulinum toxin substrate 3 (p21-rac3). [swissprot;acc:o14658]
1.00227 486 22826.8 nuclear autoantigen sp-100 (speckled 100 kda) (nuclear dot-associated sp100 protein) (lysp100b). [swissprot;acc:p23497] 22878.7
1.00229 485 22797.8 high mobility group protein 4-like (hmg-4l). [swissprot;acc:q9uj13] 22850.1
1.00278 484 961.098 scribble. [refseq;acc:nm_015356] 958.429
1.0029 483 20672.6 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] 20612.9
1.00387 482 796.85 sprouty homolog 4 (spry-4). [swissprot;acc:q9c004] 793.778
1.00475 481 563.113 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] 565.785
1.00488 480 6396.8 orphan nuclear receptor nr2e1 (nuclear receptor tlx) (tailless homolog) (tll) (htll). [swissprot;acc:q9y466] 6428
1.00587 479 1310.67 adenylosuccinate synthase-like 1. [refseq;acc:nm_152328] 1318.37
1.00669 478 701.071 survival motor neuron protein (component of gems 1) (gemin1). [swissprot;acc:q16637] 705.758
1.00704 477 429 atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915] 426
1.00716 476 1372.31 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] 1362.55
1.00722 475 2335.98 alpha-1-acid glycoprotein 2 precursor (agp 2) (orosomucoid 2) (omd 2). [swissprot;acc:p19652] 2319.24
1.00763 474 2263.85 26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [swissprot;acc:o00232] 2281.12
1.00765 472 3919.25 histone h3.3 (h3.a) (h3.b) (h3.3q). [swissprot;acc:p06351] 3889.5
473 dj1099d15.1 (putative dnaj protein). [sptrembl;acc:q9h4j9]
1.00785 471 3825.73 signal recognition particle receptor alpha subunit (sr-alpha) (docking protein alpha) (dp-alpha). [swissprot;acc:p08240] 3855.78
1.00817 470 39485 huntingtin interacting protein e; huntingtin interactor protein e. [refseq;acc:nm_007076] 39165
1.00822 469 221.565 transcription factor btf3 homolog 3. [swissprot;acc:q13892] 219.759
1.00836 468 604.911 transcription initiation factor tfiid 20/15 kda subunits (tafii- 20/tafii-15) (tafii20/tafii15). [swissprot;acc:q16514] 599.896
1.00856 467 2782.56 similar to cg7020 gene product (fragment). [sptrembl;acc:q96ib4] 2806.38
1.01082 466 1483.62 ischemia/reperfusion inducible protein. [refseq;acc:nm_024640] 1467.74
1.01102 465 6254.09 homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272] 6323
1.01136 464 2264.37 maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [swissprot;acc:o43708] 2290.09

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/