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 [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 301 to 350 of 8289 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
151 cathepsin z precursor (ec 3.4.22.-) (cathepsin x) (cathepsin p). [swissprot;acc:q9ubr2] Low confidence 206.516 194.554 1.06148
myosin vc (myosin 5c). [swissprot;acc:q9nqx4] High confidence 55 46 1.19565
152 high-mobility group 20a. [refseq;acc:nm_018200] Low confidence 202.934 191.187 1.06144
myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] High confidence 55 46 1.19565
153 chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286] 249.663 298.263 1.19466
rab11-family interacting protein 4. [refseq;acc:nm_032932] Low confidence 183.27 172.702 1.06119
154 eferin. [swissprot;acc:o75154]
regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795] High confidence 249.663 298.263 1.19466
155 cathepsin l2 precursor (ec 3.4.22.43) (cathepsin v) (cathepsin u). [swissprot;acc:o60911] Low confidence 211.818 199.734 1.0605
putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] High confidence 249.663 298.263 1.19466
156 cathepsin l precursor (ec 3.4.22.15) (major excreted protein) (mep). [swissprot;acc:p07711] Low confidence 211.808 199.761 1.06031
regulator of g-protein signaling 20 (rgs20) (regulator of gz- selective protein signaling 1) (gz-selective gtpase-activating protein) (g(z)gap). [swissprot;acc:o76081] High confidence 249.663 298.263 1.19466
157 dj310o13.4 (novel protein similar to predicted c. elegans and c. intestinalis proteins) (fragment). [sptrembl;acc:q9nug5] Low confidence 178.507 168.371 1.0602
transcription factor lbx1. [swissprot;acc:p52954] High confidence 249.663 298.263 1.19466
158 dnaj homolog subfamily c member 8 (splicing protein spf31) (hspc315). [swissprot;acc:o75937] Low confidence 219.838 207.417 1.05988
mosaic protein lgn. [swissprot;acc:p81274] High confidence 249.663 298.263 1.19466
159 c3hc4-type zinc finger protein; likely ortholog of mouse dioxin inducible factor 3. [refseq;acc:nm_024835] Low confidence 219.838 207.417 1.05988
regulator of g-protein signaling 17 (rgs17). [swissprot;acc:q9ugc6] High confidence 249.663 298.263 1.19466
160 adenomatous polyposis coli protein (apc protein). [swissprot;acc:p25054] Low confidence 222.31 235.538 1.0595
guanine nucleotide-binding protein g(o), alpha subunit 1. [swissprot;acc:p09471] High confidence 249.663 298.263 1.19466
161 adenomatous polyposis coli like. [refseq;acc:nm_005883] Low confidence 222.34 235.547 1.0594
rap1 gtpase-activating protein 1 (rap1gap). [swissprot;acc:p47736] High confidence 249.663 298.263 1.19466
162 defender against cell death 1 (dad-1). [swissprot;acc:p46966] Low confidence 197.99 186.913 1.05926
nostrin. [refseq;acc:nm_052946] High confidence 209.299 249.187 1.19058
163 eap30 subunit of ell complex. [refseq;acc:nm_007241]
vacuolar assembly protein vps41 homolog (s53). [swissprot;acc:p49754] Low confidence 202.698 191.393 1.05907
164 liv-1 protein, estrogen regulated. [refseq;acc:nm_012319] High confidence 209.299 249.187 1.19058
protein phosphatase 2c beta isoform (ec 3.1.3.16) (pp2c-beta). [swissprot;acc:o75688] Low confidence 196.714 185.758 1.05898
165 calpain 1, large [catalytic] subunit (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (mu-type) (mucanp) (micromolar-calpain). [swissprot;acc:p07384] 222.508 210.345 1.05782
glutamate decarboxylase, 65 kda isoform (ec 4.1.1.15) (gad-65) (65 kda glutamic acid decarboxylase). [swissprot;acc:q05329] High confidence 209.299 249.187 1.19058
166 calpain 2, large [catalytic] subunit precursor (ec 3.4.22.17) (calcium-activated neutral proteinase) (canp) (m-type) (m-calpain) (millimolar-calpain) (calpain large polypeptide l2). [swissprot;acc:p17655] Low confidence 222.502 210.342 1.05781
gamma-soluble nsf attachment protein (snap-gamma) (n-ethylmaleimide- sensitive factor attachment protein, gamma). [swissprot;acc:q99747] High confidence 209.299 249.187 1.19058
167 glutamate decarboxylase, 67 kda isoform (ec 4.1.1.15) (gad-67) (67 kda glutamic acid decarboxylase). [swissprot;acc:q99259]
rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] Low confidence 212.695 201.131 1.05749
168 gaba-a receptor-associated protein. [sptrembl;acc:q9by60] High confidence 82.5916 98.0548 1.18722
proto-oncogene tyrosine-protein kinase fer (ec 2.7.1.112) (p94-fer) (c-fer). [swissprot;acc:p16591] Low confidence 216.796 205.073 1.05717
169 60s ribosomal protein l29 (cell surface heparin binding protein hip). [swissprot;acc:p47914] 216.79 205.07 1.05715
apg3p; pc3-96 protein. [refseq;acc:nm_022488] High confidence 82.5916 98.0548 1.18722
170 nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483] 227.199 192.715 1.17894
proto-oncogene tyrosine-protein kinase fes/fps (ec 2.7.1.112) (c-fes). [swissprot;acc:p07332] Low confidence 216.783 205.066 1.05714
171 forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1] 219.889 208.064 1.05683
nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085] High confidence 227.202 192.823 1.17829
172 cg9578-like; yeast ypr037w and worm c02c2.6 predicted proteins-like. [refseq;acc:nm_152902] 174.667 205.556 1.17685
f-actin capping protein alpha-1 subunit (capz alpha-1). [swissprot;acc:p52907] Low confidence 213.671 202.205 1.0567
173 sad1/unc-84 protein-like 1. [swissprot;acc:o94901] 221.678 209.795 1.05664
small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641] High confidence 227.032 193.056 1.17599
174 dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8] 335 286 1.17133
forkhead box protein p1 (hspc215). [swissprot;acc:q9h334] Low confidence 219.6 207.907 1.05624
175 cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653] High confidence 199.949 234.187 1.17123
forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457] Low confidence 219.593 207.903 1.05623

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/