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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Rank Gene description Interaction Map Value Type Network Comparison Type Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 101 to 150 of 8289 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
green
red
network_comparison
51 junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39] Low confidence 260.98 234.802 1.11149
spermatogenesis associated 6. [refseq;acc:nm_019073] High confidence 105 133 1.26667
52 amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433]
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] Low confidence 260.98 234.802 1.11149
53 db83 protein. [swissprot;acc:p57088]
transcription factor jun-b. [swissprot;acc:p17275] High confidence 158.868 201.144 1.26611
54 cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912] Low confidence 240.822 267.448 1.11056
transcription factor jun-d. [swissprot;acc:p17535] High confidence 158.941 200.941 1.26425
55 cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627] Low confidence 240.78 267.376 1.11046
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] High confidence 254.434 320.927 1.26134
56 brachyury protein (t protein). [swissprot;acc:o15178] Low confidence 202.592 224.922 1.11022
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262] High confidence 336.233 266.856 1.25998
57 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6]
proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100] Low confidence 182.73 202.802 1.10985
58 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] High confidence 336.191 266.863 1.25979
jun dimerization protein. [refseq;acc:nm_130469] Low confidence 182.73 202.802 1.10985
59 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798] High confidence 336.19 266.863 1.25978
nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [swissprot;acc:q9ui09] Low confidence 210.267 233.134 1.10875
60 fos-related antigen 2. [swissprot;acc:p15408] 182.961 202.793 1.10839
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08] High confidence 336.184 266.864 1.25976
61 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670] 336.182 1.25975
protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] Low confidence 182.974 202.792 1.10831
62 fos-related antigen 1 (fra-1). [swissprot;acc:p15407] 183.017 202.79 1.10804
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151] High confidence 336.181 266.865 1.25974
63 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] 336.178 1.25973
putative rna-binding protein 7 (rna binding motif protein 7). [swissprot;acc:q9y580] Low confidence 239.902 265.688 1.10749
64 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] High confidence 336.159 266.868 1.25965
transcription factor jun-d. [swissprot;acc:p17535] Low confidence 183.361 202.709 1.10552
65 guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] High confidence 336.077 267.136 1.25807
transcription factor jun-b. [swissprot;acc:p17275] Low confidence 183.388 202.728 1.10546
66 guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] High confidence 336.077 267.136 1.25807
mitochondrial tumor suppressor gene 1; transcription factor mtsg1; at2 receptor-interacting protein 1; erythroid differentiation-related gene. [refseq;acc:nm_020749] Low confidence 200.783 221.902 1.10518
67 guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087] High confidence 336.075 267.14 1.25805
retinoblastoma-associated factor 600. [refseq;acc:nm_020765] Low confidence 149.799 165.535 1.10505
68 60s ribosomal protein l37a. [swissprot;acc:p12751] 217.005 239.692 1.10455
guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086] High confidence 336.075 267.139 1.25805
69 guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488] 267.14
testis-specific protein tex28. [swissprot;acc:o15482] Low confidence 235.017 259.517 1.10425
70 27 kda golgi snare protein (golgi snap receptor complex member 2) (membrin). [swissprot;acc:o14653]
guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899] High confidence 336.074 267.142 1.25804
71 cysteine-rich protein 1 (cysteine-rich intestinal protein) (crip) (cysteine-rich heart protein) (hcrhp). [swissprot;acc:p50238] Low confidence 209.149 230.944 1.10421
guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898] High confidence 336.073 267.144 1.25802
72 guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754]
set and mynd domain containing 2; hskm-b protein; zinc finger, mynd domain containing 14. [refseq;acc:nm_020197] Low confidence 209.149 230.944 1.10421
73 junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2] High confidence 362 288 1.25694
set and mynd domain containing protein 1. [sptrembl;acc:q8nb12] Low confidence 209.149 230.944 1.10421
74 junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39] High confidence 362 288 1.25694
putative adenosylhomocysteinase 2 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:o43865] Low confidence 215.516 195.817 1.1006
75 nipsnap2 protein (glioblastoma amplified sequence). [swissprot;acc:o75323] 226.944 249.709 1.10031
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] High confidence 362 288 1.25694

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/