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.


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Value Type Network Comparison Type Gene description Rank Filtered Interaction Map green network_comparison red
Results: HTML CSV LaTeX Showing element 1180 to 1229 of 3228 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Interaction Map  : High confidence
description
Rank
green
network_comparison
red
grpe protein homolog 1, mitochondrial precursor (mt-grpe#1) (hmge). [swissprot;acc:q9hav7] 2511 234.948 1.00241 234.384
grpe protein homolog 2, mitochondrial precursor (mt-grpe#2). [swissprot;acc:q8taa5] 2510
gtp binding protein 2. [refseq;acc:nm_019096] 1679 213.889 1.01407 216.899
gtp cyclohydrolase i (ec 3.5.4.16) (gtp-ch-i). [swissprot;acc:p30793] 2131 227.851 1.00696 226.277
gtp-binding nuclear protein ran (tc4) (ran gtpase) (androgen receptor- associated protein 24). [swissprot;acc:p17080] 735 244.534 1.0513 232.601
gtp-binding protein era homolog (hera) (fragment). [swissprot;acc:o75616] 1543 209.965 1.01706 213.546
gtp:amp phosphotransferase mitochondrial (ec 2.7.4.10) (ak3) (adenylate kinase 3 alpha like 1). [swissprot;acc:q9uij7] 347 265.697 1.09729 242.14
guanine deaminase (ec 3.5.4.3) (guanase) (guanine aminase) (guanine aminohydrolase) (gah) (p51-nedasin). [swissprot;acc:q9y2t3] 2023 210.464 1.00893 208.601
guanine nucleotide exchange factor mss4 (rab interacting factor). [swissprot;acc:p47224] 2777 0.00001 1 0.00001
guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0] 109 333.281 1.24856 266.933
guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775] 82 335.359 1.25304 267.636
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] 2761 0.00001 1 0.00001
guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388] 959 229.677 1.03431 237.558
guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898] 71 336.073 1.25802 267.144
guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899] 70 336.074 1.25804 267.142
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151] 62 336.181 1.25974 266.865
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] 64 336.159 1.25965 266.868
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6] 57 336.233 1.25998 266.856
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798] 59 336.19 1.25978 266.863
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] 58 336.191 1.25979
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] 63 336.178 1.25973 266.865
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670] 61 336.182 1.25975 266.864
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262] 56 336.233 1.25998 266.856
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08] 60 336.184 1.25976 266.864
guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901] 105 333.165 1.24914 266.716
guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520] 116 334.483 1.24545 268.565
guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754] 72 336.073 1.25802 267.144
guanine nucleotide-binding protein g(o), alpha subunit 1. [swissprot;acc:p09471] 160 298.263 1.19466 249.663
guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] 65 336.077 1.25807 267.136
guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488] 69 336.075 1.25805 267.14
guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087] 67
guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] 66 336.077 1.25807 267.136
guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086] 68 336.075 1.25805 267.139
guanine nucleotide-binding protein-like 1 (gtp-binding protein hsr1). [swissprot;acc:p36915] 534 235.004 1.06782 250.942
guanylate kinase (ec 2.7.4.8) (gmp kinase). [swissprot;acc:q16774] 2437 220.116 1.00344 219.361
h2a histone family, member j isoform 1. [refseq;acc:nm_018267] 3077 0.00001 1 0.00001
hairy/enhancer-of-split related with yrpw motif 1 (hairy and enhancer of split related-1) (hesr-1) (cardiovascular helix-loop-helix factor 2) (hes-related repressor protein 2 herp2). [swissprot;acc:q9y5j3] 659 216.576 1.0577 229.072
hairy/enhancer-of-split related with yrpw motif 2; gridlock; hes-related repressor protein 1. [refseq;acc:nm_012259] 665
hairy/enhancer-of-split related with yrpw motif-like. [refseq;acc:nm_014571] 661
hbs1-like. [refseq;acc:nm_006620] 8 322 1.49767 215
hcdi protein. [refseq;acc:nm_020195] 3138 0.00001 1 0.00001
hcv ns3-transactivated protein 1. [refseq;acc:nm_019048] 1055 212.468 1.03079 219.01
headcase homolog; hhdc for homolog of drosophila headcase. [refseq;acc:nm_016217] 3068 0.00001 1 0.00001
heat shock 27 kda protein (hsp 27) (stress-responsive protein 27) (srp27) (estrogen-regulated 24 kda protein) (28 kda heat shock protein). [swissprot;acc:p04792] 1446 226.23 1.01989 221.817
heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107] 2179 209.563 1.00667 210.961
heat shock cognate 71 kda protein. [swissprot;acc:p11142] 2180
heat shock factor binding protein 1. [swissprot;acc:o75506] 1603 213.22 1.01595 216.62
heat shock protein hsp 90-alpha (hsp 86). [swissprot;acc:p07900] 2735 220.887 1.00025 220.943
heat shock protein hsp 90-beta (hsp 84) (hsp 90). [swissprot;acc:p08238] 2724 220.963 1.00041 221.053
heat shock-related 70 kda protein 2 (heat shock 70 kda protein 2). [swissprot;acc:p54652] 2178 209.563 1.00667 210.961

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/