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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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 [...,...].
Filtered network_comparison Value Type description green Interaction Map red Network Comparison Type Rank Gene
Results: HTML CSV LaTeX Showing element 451 to 500 of 77072 in total
Filtered  : 0
Network Comparison Type  : Subtracted
network_comparison
Value Type
description
green
Interaction Map
red
Rank
0.81 Measured hexokinase, type i (ec 2.7.1.1) (hk i) (brain form hexokinase). [swissprot;acc:p19367] 1242.41 Low confidence 1243.22 833
0.8237 Rooted brain protein 16. [refseq;acc:nm_016458] 30.3649 31.1886 622
0.823905 Squared 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] 0.823905 High confidence 0 450
Low confidence 804
0.8251 Rooted 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] 92.7071 High confidence 93.5322 395
0.8321 transcription factor tel-2 (ets-related protein tel2) (tel related ets factor). [swissprot;acc:q9y603] 30.6602 Low confidence 31.4923 621
0.8349 glycogenin-2 (ec 2.4.1.186) (gn-2) (gn2). [swissprot;acc:o15488] 61.8357 High confidence 62.6706 394
0.8418 pr-domain zinc finger protein 16 (transcription factor mel1). [swissprot;acc:q9haz2] 22.1303 Low confidence 22.9721 620
0.8517 mitochondrial 28s ribosomal protein s6 (mrp-s6). [swissprot;acc:p82932] 10.7395 11.5912 619
0.852071 Squared similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] 0 High confidence 0.852071 449
0.85277 Rooted ras-related c3 botulinum toxin substrate 1 (p21-rac1) (ras-like protein tc25). [swissprot;acc:p15154] 8.90701 8.05424 392
ras-related c3 botulinum toxin substrate 3 (p21-rac3). [swissprot;acc:o14658] 393
0.8528 syntaxin 10 (syn10). [swissprot;acc:o60499] 16.7543 Low confidence 15.9015 618
0.8578 gaba-a receptor-associated protein. [sptrembl;acc:q9by60] 21.3142 22.172 617
0.8615 peptidyl-prolyl cis-trans isomerase a (ec 5.2.1.8) (ppiase) (rotamase) (cyclophilin a) (cyclosporin a-binding protein). [swissprot;acc:p05092] 23.698 24.5595 616
0.8626 transcription initiation factor tfiid 20/15 kda subunits (tafii- 20/tafii-15) (tafii20/tafii15). [swissprot;acc:q16514] 26.2481 25.3855 615
0.8635 protein disulfide isomerase precursor (pdi) (ec 5.3.4.1) (prolyl 4- hydroxylase beta subunit) (cellular thyroid hormone binding protein) (p55). [swissprot;acc:p07237] 21.8063 High confidence 20.9428 391
0.868 dead (asp-glu-ala-asp) box polypeptide 47; hqp0256 protein. [refseq;acc:nm_016355] 11.8854 12.7534 390
0.8712 transcription initiation factor tfiid 20/15 kda subunits (tafii- 20/tafii-15) (tafii20/tafii15). [swissprot;acc:q16514] 16.3116 15.4404 389
0.8724 cytochrome p450 3a7 (ec 1.14.14.1) (cypiiia7) (p450-hfla). [swissprot;acc:p24462] 25.3903 Low confidence 26.2627 614
0.875765 Squared protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236] 0.365145 High confidence 1.24091 448
0.876 Rooted cop9 signalosome complex subunit 1 (g protein pathway suppressor 1) (gps1 protein) (mfh protein). [swissprot;acc:q13098] 130.866 131.742 388
0.8796 eukaryotic initiation factor 4a-like nuk-34. [swissprot;acc:p38919] 30.7905 Low confidence 29.9109 613
0.8834 tera protein. [refseq;acc:nm_021238] 17.6702 18.5536 612
0.8843 apoptosis inhibitor fksg2. [swissprot;acc:q9hau6] 24.7479 25.6322 611
0.886 zinc finger imprinted 2. [swissprot;acc:q9nzv7] 17.1712 18.0572 610
0.8881 signal recognition particle receptor alpha subunit (sr-alpha) (docking protein alpha) (dp-alpha). [swissprot;acc:p08240] 31.8153 32.7034 609
0.8905 zinc finger protein 215 (bwscr2 associated zinc-finger protein 2) (baz 2). [swissprot;acc:q9ul58] 17.1797 18.0702 608
0.8909 zinc finger protein 24 (zinc finger protein 191) (zinc finger protein kox17) (retinoic acid suppression protein a) (rsg-a). [swissprot;acc:p17028] 17.1807 18.0716 607
0.8932 transketolase-like 1 (ec 2.2.1.1) (transketolase 2) (tk 2) (transketolase related protein). [swissprot;acc:p51854] 40.2337 39.3405 606
0.8941 crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0] 27.1011 27.9952 605
0.9 Ranked protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236] 13844.1 13845 836
0.9013 Rooted polyposis locus protein 1-like 1; likely ortholog of mouse polyposis locus protein 1-like 1. [refseq;acc:nm_138393] 24.3387 23.4374 604
0.9128 dna-crosslink repair gene snm1. [refseq;acc:nm_014881] 27.2883 28.2011 602
t-cell activation protein phosphatase 2c. [refseq;acc:nm_139283] 603
0.9161 dead-box protein abstrakt homolog. [swissprot;acc:q9ujv9] 33.096 32.1799 601
0.9185 aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468] 79.3914 High confidence 78.4729 387
Low confidence 600
0.9241 intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3] 68.7756 67.8515 599
0.926159 Squared ephrin type-b receptor 4 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor htk). [swissprot;acc:p54760] 1.06249 0.136331 803
0.9331 Rooted alanine aminotransferase (ec 2.6.1.2) (glutamic--pyruvic transaminase) (gpt) (glutamic--alanine transaminase). [swissprot;acc:p24298] 18.9799 19.913 598
0.9334 ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1] 25.0878 26.0212 597
0.9381 ubiquitin and ribosomal protein s27a precursor; ubiquitin carboxyl extension protein 80; 40s ribosomal protein s27a; ubiquitin; ubiquitin-cep80. [refseq;acc:nm_002954] 27.3399 26.4018 596
0.9422 intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811] 68.5228 67.5806 595
0.95 high mobility group protein 4-like (hmg-4l). [swissprot;acc:q9uj13] 111.493 High confidence 110.543 386
0.951 nuclear autoantigen sp-100 (speckled 100 kda) (nuclear dot-associated sp100 protein) (lysp100b). [swissprot;acc:p23497] 111.576 110.625 385
paired box protein pax-9. [swissprot;acc:p55771] 34.2093 Low confidence 33.2583 594
0.955 high mobility group protein 1-like 10 (hmg-1l10). [swissprot;acc:q9ugv6] 111.754 High confidence 110.799 384
0.956 dj579f20.1 (high-mobility group (nonhistone chromosomal) protein 1-like 1). [sptrembl;acc:q9nqj4] 111.772 110.816 383
high mobility group protein 1 (hmg-1). [swissprot;acc:p09429] 111.817 110.861 382

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/