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 [...,...].
Rank Value Type Gene description Network Comparison Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 551 to 600 of 14920 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Rank
Value Type
description
Filtered
green
red
network_comparison
69 Rooted cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747] 0 13.5207 18.7392 1.38596
neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784] 1 37.2872 27.9136 1.33581
70 Measured amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433] 10307.5 6475.5 1.59177
importin alpha-2 subunit (karyopherin alpha-2 subunit) (srp1-alpha) (rag cohort protein 1). [swissprot;acc:p52292] 0 1068 607 1.75947
Ranked guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899] 1 336.074 267.142 1.25804
protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [refseq;acc:nm_003981] 0 10593.2 13975.7 1.31931
Squared dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0] 1860.93 600.627 3.09831
melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] 1 129762 219048 1.68808
Rooted chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873] 37.2872 27.9136 1.33581
enigma protein; lim domain protein. [refseq;acc:nm_005451] 0 7.5456 10.4569 1.38583
71 Measured serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007] 1 2945.26 4556.78 1.54716
ubiquitin protein ligase. [refseq;acc:nm_130466] 0 352.75 620 1.75762
Ranked guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898] 1 336.073 267.144 1.25802
nucleoporin nup43 (p42). [swissprot;acc:q8nfh3] 0 5700.79 4338.65 1.31395
Squared importin alpha-2 subunit (karyopherin alpha-2 subunit) (srp1-alpha) (rag cohort protein 1). [swissprot;acc:p52292] 269.97 87.2069 3.09574
melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] 1 129762 219048 1.68808
Rooted doc-1 related protein (doc-1r). [swissprot;acc:o75956] 37.2872 27.9136 1.33581
transducin beta-like 2 protein (ws beta-transducin repeats protein) (ws-betatrp) (williams-beuren syndrome chromosome region 13 protein). [swissprot;acc:q9y4p3] 0 16.1491 22.1933 1.37427
72 Measured 60s ribosomal protein l21. [swissprot;acc:p46778] 992.083 572 1.73441
uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48] 1 2945.28 4556.79 1.54715
Ranked guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754] 336.073 267.144 1.25802
putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7] 0 5397 4119 1.31027
Squared fos-related antigen 2. [swissprot;acc:p15408] 2188.28 6691.06 3.05768
melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366] 1 129762 219048 1.68808
Rooted importin 9. [refseq;acc:nm_018085] 0 29.828 21.8651 1.36418
neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8] 1 37.2872 27.9136 1.33581
73 Measured protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236] 0 37.693 65.2968 1.73233
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, beta isoform (pp2a, subunit b, b-beta isoform) (pp2a, subunit b, b55- beta isoform) (pp2a, subunit b, pr55-beta isoform) (pp2a, subunit b, r2-beta isoform). [swissprot;acc:q00005] 1 2945.38 4556.83 1.54711
Ranked junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2] 362 288 1.25694
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] 0 5397 4119 1.31027
Squared melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1] 1 129762 219048 1.68808
oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977] 0 509.542 1495.1 2.9342
Rooted neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562] 1 37.2872 27.9136 1.33581
nucleosome assembly protein 1-like 4 (nucleosome assembly protein 2) (nap2). [swissprot;acc:q99733] 0 29.828 21.8651 1.36418
74 Measured bone morphogenetic protein 8 precursor (bmp-8) (osteogenic protein 2) (op-2). [swissprot;acc:p34820] 859.34 501.151 1.71473
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, gamma isoform (pp2a, subunit b, b-gamma isoform) (pp2a, subunit b, b55-gamma isoform) (pp2a, subunit b, pr55-gamma isoform) (pp2a, subunit b, r2-gamma isoform) (imypno1). [swissprot;acc:q9y2t4] 1 2945.8 4556.99 1.54694
Ranked ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973] 0 8759.5 6742.5 1.29915
junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39] 1 362 288 1.25694
Squared protocadherin 16 precursor (cadherin 19) (cadherin fibroblast 1). [swissprot;acc:q96jq0] 0 0.0318343 0.092781 2.9145
trophinin. [swissprot;acc:q12816] 1 129762 219048 1.68808
Rooted high-glucose-regulated protein 8 (ny-ren-2 antigen). [swissprot;acc:q9y5a9] 0 6.80523 5.01247 1.35766
neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90] 1 37.2872 27.9136 1.33581
75 Measured nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [swissprot;acc:o43181] 2907.43 1920.75 1.5137
oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977] 0 925.298 1586.07 1.71412
Ranked nanos (fragment). [sptrembl;acc:q8wy41] 11350 8782 1.29242
sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906] 1 362 288 1.25694
Squared low affinity immunoglobulin epsilon fc receptor (lymphocyte ige receptor) (fc-epsilon-rii) (cd23) (blast-2) (immunoglobulin e-binding factor). [swissprot;acc:p06734] 0 2.13609 6.13515 2.87214
myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0] 1 184298 110342 1.67024
Rooted chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557] 37.2872 27.9136 1.33581
sh3 adapter protein spin90 (sh3 protein interacting with nck, 90 kda) (vaca-interacting protein, 54 kda) (vip54) (af3p21) (diaphanous protein interacting protein) (dia interacting protein-1) (dip-1). [swissprot;acc:q9nzq3] 0 6.80523 5.01247 1.35766

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/