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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Gene Rank Filtered description Value Type Network Comparison Type Interaction Map green red network_comparison
Results: HTML CSV LaTeX Showing element 1001 to 1050 of 9634 in total
Value Type  : Measured
Network Comparison Type  : Divided
Rank
Filtered
description
Interaction Map
green
red
network_comparison
251 0 keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854] High confidence 1079.38 1225.08 1.13498
zinc finger protein 74 (hznf7). [swissprot;acc:q16587] Low confidence 1969.49 2352.49 1.19447
1 kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [swissprot;acc:q16719] 9058.09 8527.55 1.06221
tyrosine-protein kinase hck (ec 2.7.1.112) (p59-hck/p60-hck) (hemopoietic cell kinase). [swissprot;acc:p08631] High confidence 7859.6 6417.18 1.22477
252 0 star-related lipid transfer protein 6 (stard6) (start domain- containing protein 6). [swissprot;acc:p59095] 1079.38 1225.08 1.13498
zinc finger protein 285. [refseq;acc:nm_152354] Low confidence 1969.39 2352.38 1.19447
1 1-acyl-sn-glycerol-3-phosphate acyltransferase gamma (ec 2.3.1.51) (1- agp acyltransferase 3) (1-agpat 3) (lysophosphatidic acid acyltransferase-gamma) (lpaat-gamma) (1-acylglycerol-3-phosphate o- acyltransferase 3). [swissprot;acc:q9nrz7] 9018.94 8492.92 1.06194
crk-like protein. [swissprot;acc:p46109] High confidence 7859.6 6417.18 1.22477
253 0 espin. [refseq;acc:nm_031475] 1079.38 1225.07 1.13498
zinc finger protein 117 (zinc finger protein hpf9) (fragment). [swissprot;acc:q03924] Low confidence 1969.43 2352.42 1.19447
1 fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757] 8732.25 8223.39 1.06188
proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [swissprot;acc:p00519] High confidence 7859.59 6417.18 1.22477
254 0 40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] 1495.66 1318.22 1.13461
zinc finger protein 141. [swissprot;acc:q15928] Low confidence 1969.43 2352.42 1.19447
1 dj842g6.2 (novel protein imilar to sel1l (sel-1 (suppressor of lin-12, c.elegans)-like)) (fragment). [sptrembl;acc:q9ugd3] 8727.87 8219.97 1.06179
proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [swissprot;acc:p06241] High confidence 7859.6 6417.18 1.22477
255 0 40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] 1495.22 1317.84 1.1346
zinc finger protein 197 (znf20). [swissprot;acc:o14709] Low confidence 1969.57 2352.58 1.19446
1 proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [swissprot;acc:p09769] High confidence 7859.6 6417.18 1.22477
sel-1 homolog precursor (suppressor of lin-12-like protein) (sel-1l). [swissprot;acc:q9ubv2] Low confidence 8727.84 8219.95 1.06179
256 0 keratin associated protein 9-4; keratin associated protein 9.4. [refseq;acc:nm_033191] High confidence 1079.77 1224.65 1.13418
similar to zinc finger protein 85 (zinc finger protein hpf4) (htf1). [refseq;acc:nm_033196] Low confidence 1969.57 2352.58 1.19446
1 fructose-1,6-bisphosphatase (ec 3.1.3.11) (d-fructose-1,6-bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:p09467] 8723.91 8216.87 1.06171
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] High confidence 7859.51 6417.19 1.22476
257 0 creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532] 759.896 861.401 1.13358
zinc finger protein mgc21738. [refseq;acc:nm_145044] Low confidence 1969.72 2352.73 1.19445
1 ccaat displacement protein (cdp) (cut-like 1). [swissprot;acc:p39880] High confidence 7858.12 6417.31 1.22452
synaptojanin 1 (ec 3.1.3.36) (synaptic inositol-1,4,5-trisphosphate 5- phosphatase 1). [swissprot;acc:o43426] Low confidence 8579.93 8082.34 1.06157
258 0 40s ribosomal protein s15 (rig protein). [swissprot;acc:p11174] High confidence 1337.54 1183.16 1.13048
zinc finger protein 257 (bone marrow zinc finger 4) (bmzf-4). [swissprot;acc:q9y2q1] Low confidence 1969.86 2352.89 1.19445
1 aflatoxin b1 aldehyde reductase 2 (ec 1.-.-.-) (afb1-ar 2). [swissprot;acc:o95154] 9818.95 9249.74 1.06154
homeobox protein cux-2 (cut-like 2) (fragment). [swissprot;acc:o14529] High confidence 7857.93 6417.33 1.22449
259 0 60s ribosomal protein l23a. [swissprot;acc:p29316] 1463.51 1295.49 1.1297
krueppel-related zinc finger protein 1 (hkr1 protein). [swissprot;acc:p10072] Low confidence 1969.86 2352.89 1.19445
1 neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401] High confidence 7852.52 6417.81 1.22355
oligophrenin 1. [swissprot;acc:o60890] Low confidence 6824.22 6428.7 1.06152
260 0 voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02] High confidence 2202 1949.36 1.1296
zinc finger protein 354c; krab-zinc finger protein synten. [refseq;acc:nm_014594] Low confidence 1969.68 2352.69 1.19445
1 aflatoxin b1 aldehyde reductase 1 (ec 1.-.-.-) (afb1-ar 1) (aldoketoreductase 7). [swissprot;acc:o43488] 9814.59 9246.23 1.06147
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] High confidence 5193.42 4244.95 1.22343
261 0 c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02] 1463.55 1295.81 1.12945
zinc finger protein zfd25. [swissprot;acc:q9uii5] Low confidence 1969.64 2352.64 1.19445
1 adrenodoxin, mitochondrial precursor (adrenal ferredoxin) (hepatoredoxin) (ferredoxin 1). [swissprot;acc:p10109] 9379.17 8837.18 1.06133
signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] High confidence 5192.61 4247.36 1.22255
262 0 adenylyl cyclase-associated protein 2 (cap 2). [swissprot;acc:p40123] 676.971 764.479 1.12926
zinc finger protein 44 (zinc finger protein kox7) (gonadotropin inducible transcription repressor-2) (giot-2). [swissprot;acc:p15621] Low confidence 1969.64 2352.64 1.19445
1 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] High confidence 20431.7 24896.4 1.21852
oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1] Low confidence 6834.37 6440.08 1.06122
263 0 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] High confidence 1633 1843 1.1286
zinc finger protein 62; likely ortholog of mouse zinc finger protein 62. [refseq;acc:nm_152283] Low confidence 1969.78 2352.8 1.19445

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/