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 Rank green description Network Comparison Type Value Type Interaction Map red network_comparison
Results: HTML CSV LaTeX Showing element 101 to 150 of 9634 in total
Filtered  : 0
Network Comparison Type  : Divided
Value Type  : Ranked
Rank
green
description
Interaction Map
red
network_comparison
51 5102 importin alpha-2 subunit (karyopherin alpha-2 subunit) (srp1-alpha) (rag cohort protein 1). [swissprot;acc:p52292] High confidence 7168 1.40494
9346.75 succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521] Low confidence 12242.7 1.30983
52 4554.5 ariadne-2 protein homolog (ari-2) (triad1 protein) (ht005). [swissprot;acc:o95376] High confidence 3284 1.38688
5406 rna transcribed from l1 repetitive element (shr4) (fragment). [sptrembl;acc:q9y443] Low confidence 7068 1.30744
53 4554.5 ubiquitin-conjugating enzyme e2-18 kda ubch7 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (ubcm4) (e2-f1) (l-ubc). [swissprot;acc:p51966] High confidence 3284 1.38688
5406 putative p150. [sptrembl;acc:o00370] Low confidence 7068 1.30744
54 lamin-like protein in hindiii repetitive element derived dna, 3' end (fragment). [sptrembl;acc:q14755]
19014.6 syntaxin 10 (syn10). [swissprot;acc:o60499] High confidence 13884.4 1.36949
55 5406 line-1 reverse transcriptase (fragment). [sptrembl;acc:o00172] Low confidence 7068 1.30744
16388 sedlin. [swissprot;acc:o14582] High confidence 22440 1.36929
56 13931.4 phosphatase and tensin homolog 2 (fragment). [sptrembl;acc:o43460] Low confidence 18203.5 1.30665
16388 synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296] High confidence 22440 1.36929
57 7869.25 testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [swissprot;acc:p16562] Low confidence 10279 1.30622
11134.8 hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [swissprot;acc:q16543] High confidence 8152.55 1.36581
58 14294.6 fos39347_1. [sptrembl;acc:o75863] Low confidence 11024.6 1.29661
14486 dead-box protein. [refseq;acc:nm_018665] High confidence 10628.3 1.36296
59 11662.3 glutamate dehydrogenase 2, mitochondrial precursor (ec 1.4.1.3) (gdh). [swissprot;acc:p49448] 15863.6 1.36025
14282.8 dj254p11.1 (novel protein similar to rna polymerase ii elongation factor siii, subunit p15). [sptrembl;acc:q9h575] Low confidence 11031 1.29479
60 14378 ephrin type-b receptor 4 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor htk). [swissprot;acc:p54760] 18604 1.29392
15924 glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926] High confidence 11761 1.35397
61 10324.5 protein kinase, lysine deficient 3. [refseq;acc:nm_020922] Low confidence 13320.5 1.29018
11346.5 testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [swissprot;acc:p16562] High confidence 15352 1.35302
62 6438 ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973] Low confidence 5029 1.28017
12695.6 glycine receptor alpha-3 chain precursor. [swissprot;acc:o75311] High confidence 9418.7 1.34791
63 11453 oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977] 8519.83 1.34428
15783.5 60s ribosomal protein l37a. [swissprot;acc:p12751] Low confidence 12374.3 1.27551
64 11356 selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611] 14463 1.2736
20387 similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] High confidence 15264 1.33563
65 10406.3 e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409] 7853.67 1.32502
12943.5 alpha-parvin (calponin-like integrin-linked kinase binding protein) (ch-ilkbp). [swissprot;acc:q9nvd7] Low confidence 10172.1 1.27245
66 10030.4 kinesin-like protein kif13b (kinesin-like protein gakin). [swissprot;acc:q9nqt8] 7923.89 1.26584
15180 heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174] High confidence 11461 1.32449
67 14291.5 presenilin enhancer 2; hematopoietic stem/progenitor cells protein mds033. [refseq;acc:nm_172341] 10793.5 1.32408
14697.6 dynamin-like 120 kda protein, mitochondrial precursor (optic atrophy 1 gene protein). [swissprot;acc:o60313] Low confidence 11636.2 1.26309
68 9824.6 repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273] 7803.58 1.25899
11823.3 purine nucleoside phosphorylase (ec 2.4.2.1) (inosine phosphorylase) (pnp). [swissprot;acc:p00491] High confidence 8932.56 1.32362
69 10174.1 collagen alpha 5(iv) chain precursor. [swissprot;acc:p29400] 7704.7 1.32051
12610.3 transcription elongation factor a protein 1 (transcription elongation factor s-ii protein 1) (transcription elongation factor tfiis.o). [swissprot;acc:p23193] Low confidence 15870.7 1.25855
70 10593.2 protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [refseq;acc:nm_003981] High confidence 13975.7 1.31931
12392 latrophilin 2; lectomedin-1; latrophilin homolog 2 (cow). [refseq;acc:nm_012302] Low confidence 9856 1.25731
71 5700.79 nucleoporin nup43 (p42). [swissprot;acc:q8nfh3] High confidence 4338.65 1.31395
9117 sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538] Low confidence 11448.7 1.25575
72 5397 putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7] High confidence 4119 1.31027
21866 carbohydrate (n-acetylglucosamine 6-o) sulfotransferase 6; macular dystrophy, corneal, 1; carbohydate sulfotransferase 6; corneal n-acetylglucosamine 6-sulfotransferase. [refseq;acc:nm_021615] Low confidence 17449 1.25314
73 5397 phosphoglycerate mutase 1 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme b) (pgam-b) (bpg-dependent pgam 1). [swissprot;acc:p18669] High confidence 4119 1.31027
21866 carbohydrate (n-acetylglucosamine-6-o) sulfotransferase 2; carbohydrate (chondroitin 6/keratan) sulfotransferase 2. [refseq;acc:nm_004267] Low confidence 17449 1.25314
74 7386.89 oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977] 5900.08 1.252
8759.5 ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973] High confidence 6742.5 1.29915
75 11350 nanos (fragment). [sptrembl;acc:q8wy41] 8782 1.29242
12104.2 transducin beta-like 2 protein (ws beta-transducin repeats protein) (ws-betatrp) (williams-beuren syndrome chromosome region 13 protein). [swissprot;acc:q9y4p3] Low confidence 9688.47 1.24934

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/