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 Rank Gene description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 501 to 550 of 14920 in total
Value Type  : Measured
Network Comparison Type  : Divided
Interaction Map  : High confidence
Rank
description
Filtered
red
green
network_comparison
251 keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854] 0 1225.08 1079.38 1.13498
tyrosine-protein kinase hck (ec 2.7.1.112) (p59-hck/p60-hck) (hemopoietic cell kinase). [swissprot;acc:p08631] 1 6417.18 7859.6 1.22477
252 crk-like protein. [swissprot;acc:p46109]
star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095] 0 1225.08 1079.38 1.13498
253 espin. [refseq;acc:nm_031475] 1225.07
proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [swissprot;acc:p00519] 1 6417.18 7859.59 1.22477
254 40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] 0 1318.22 1495.66 1.13461
proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [swissprot;acc:p06241] 1 6417.18 7859.6 1.22477
255 40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] 0 1317.84 1495.22 1.1346
proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [swissprot;acc:p09769] 1 6417.18 7859.6 1.22477
256 grb2-related adaptor protein 2 (gads protein) (growth factor receptor binding protein) (grblg) (grf40 adaptor protein) (grf-40) (grb-2-like protein) (grb2l) (grbx) (p38) (hematopoietic cell-associated adaptor protein grpl) (adapter protein grid) (sh3-sh2-sh3 adaptor mona). [swissprot;acc:o75791] 6417.19 7859.51 1.22476
keratin associated protein 9-4; keratin associated protein 9.4. [refseq;acc:nm_033191] 0 1224.65 1079.77 1.13418
257 ccaat displacement protein (cdp) (cut-like 1). [swissprot;acc:p39880] 1 6417.31 7858.12 1.22452
creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532] 0 861.401 759.896 1.13358
258 40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174] 1183.16 1337.54 1.13048
homeobox protein cux-2 (cut-like 2) (fragment). [swissprot;acc:o14529] 1 6417.33 7857.93 1.22449
259 60s ribosomal protein l23a. [swissprot;acc:p29316] 0 1295.49 1463.51 1.1297
neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401] 1 6417.81 7852.52 1.22355
260 signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 4244.95 5193.42 1.22343
voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02] 0 1949.36 2202 1.1296
261 c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02] 1295.81 1463.55 1.12945
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 1 4247.36 5192.61 1.22255
262 adenylyl cyclase-associated protein 2 (cap 2). [swissprot;acc:p40123] 0 764.479 676.971 1.12926
cleavage and polyadenylation specific factor 4, 30kd subunit; cleavage-polyadenylation specificity factor, 30kd; no arches-like (zebrafish) zinc finger protein; cleavage-polyadenylation specificity factor. [refseq;acc:nm_006693] 1 24896.4 20431.7 1.21852
263 sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538] 0 1843 1633 1.1286
trs85 homolog. [swissprot;acc:q9y2l5] 1 24896.4 20431.7 1.21852
264 cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653] 4987.58 4094.57 1.2181
sodium/potassium-transporting atpase alpha-2 chain precursor (ec 3.6.3.9) (sodium pump 2) (na+/k+ atpase 2). [swissprot;acc:p50993] 0 3336.48 2957.12 1.12829
265 60s ribosomal protein l9. [swissprot;acc:p32969] 1685.44 1894.01 1.12375
wd-repeat protein wdc146. [swissprot;acc:q9c0j8] 1 24806.9 20369.9 1.21782
266 aldehyde dehydrogenase 8 (ec 1.2.1.5). [swissprot;acc:p48448] 0 1475.05 1312.91 1.1235
cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570] 1 24806.9 20369.9 1.21782
267 ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967] 14021.4 11523 1.21682
uncharacterized bone marrow protein bm033. [refseq;acc:nm_018452] 0 1475.05 1312.91 1.1235
268 cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0] 1 24473.9 20127.8 1.21593
far upstream element-binding protein; far upstream element binding protein; fuse-binding protein. [refseq;acc:nm_003902] 0 604.529 538.094 1.12346
269 60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635] 1217.92 1367.83 1.12309
u6 snrna-associated sm-like protein lsm8. [swissprot;acc:o95777] 1 4590.18 5575.52 1.21466
270 fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917] 23640.2 19479.8 1.21358
ribosomal protein l10-like protein. [refseq;acc:nm_080746] 0 1217.96 1367.88 1.12309
271 chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0] 1 2554.89 3093.78 1.21092
histone h4. [swissprot;acc:p02304] 0 21773.1 24446.3 1.12278
272 60s ribosomal protein l15. [swissprot;acc:p39030] 846.216 753.793 1.12261
histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929] 1 3858.52 4669.27 1.21012
273 eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010] 3199.4 3870.8 1.20985
sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] 0 1410.81 1582.65 1.1218
274 brain protein 16. [refseq;acc:nm_016458] 2155.75 2418.14 1.12172
chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286] 1 3119.98 2579.49 1.20953
275 regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795]
swi/snf-related matrix-associated actin-dependent regulator of chromatin c2 isoform a; mammalian chromatin remodeling complex brg1-associated factor 170; chromatin remodeling complex baf170 subunit; swi3-like protein; swi/snf complex 170 kda subunit. [refseq;acc:nm_003075] 0 717.401 804.725 1.12172

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/