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

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/