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 Network Comparison Type Interaction Map green description red Filtered network_comparison
Results: HTML CSV LaTeX Showing element 501 to 550 of 25824 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
green
description
red
network_comparison
251 Divided 7859.6 tyrosine-protein kinase hck (ec 2.7.1.112) (p59-hck/p60-hck) (hemopoietic cell kinase). [swissprot;acc:p08631] 6417.18 1.22477
Subtracted 5940.64 breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567] 4579.34 1361.3
252 Divided 7859.6 crk-like protein. [swissprot;acc:p46109] 6417.18 1.22477
Subtracted 10994.9 glycogen [starch] synthase, muscle (ec 2.4.1.11). [swissprot;acc:p13807] 9648.27 1346.63
253 Divided 7859.59 proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [swissprot;acc:p00519] 6417.18 1.22477
Subtracted 10986.4 endo-beta-n-acetylglucosaminidase. [refseq;acc:nm_022759] 9642.22 1344.18
254 Divided 7859.6 proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [swissprot;acc:p06241] 6417.18 1.22477
Subtracted 10976.2 glycogen [starch] synthase, liver (ec 2.4.1.11). [swissprot;acc:p54840] 9634.98 1341.22
255 Divided 7859.6 proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [swissprot;acc:p09769] 6417.18 1.22477
Subtracted 5774.03 mad protein (max dimerizer). [swissprot;acc:q05195] 4455.95 1318.08
256 Divided 7859.51 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 1.22476
Subtracted 5773.77 max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539] 4456.67 1317.1
257 Divided 7858.12 ccaat displacement protein (cdp) (cut-like 1). [swissprot;acc:p39880] 6417.31 1.22452
Subtracted 5773.67 max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582] 4456.93 1316.74
258 Divided 7857.93 homeobox protein cux-2 (cut-like 2) (fragment). [swissprot;acc:o14529] 6417.33 1.22449
Subtracted 5773.63 max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300] 4457.06 1316.57
259 Divided 7852.52 neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401] 6417.81 1.22355
Subtracted 5885.79 small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331] 4569.48 1316.31
260 Divided 5193.42 signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 4244.95 1.22343
Subtracted 11221.1 cytidine triphosphate synthase ii; ctp synthetase type 2; utp-ammonia ligase; ctp synthetase isoform; cytidine 5'-triphosphate synthetase 2. [refseq;acc:nm_019857] 12515.4 1294.3
261 Divided 5192.61 signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 4247.36 1.22255
Subtracted 5864.86 source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862] 4571.89 1292.97
262 Divided 20431.7 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] 24896.4 1.21852
Subtracted 5864.86 oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977] 4571.89 1292.97
263 Divided 20431.7 trs85 homolog. [swissprot;acc:q9y2l5] 24896.4 1.21852
Subtracted 5864.86 dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kda subunit precursor (ec 2.4.1.119) (oligosaccharyl transferase 48 kda subunit) (ddost 48 kda subunit). [swissprot;acc:p39656] 4571.89 1292.97
264 Divided 4094.57 cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653] 4987.58 1.2181
Subtracted 11212 ctp synthase (ec 6.3.4.2) (utp--ammonia ligase) (ctp synthetase). [swissprot;acc:p17812] 12503.3 1291.3
265 Divided 20369.9 wd-repeat protein wdc146. [swissprot;acc:q9c0j8] 24806.9 1.21782
Subtracted 5923.4 splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533] 4638.1 1285.3
266 Divided 20369.9 cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570] 24806.9 1.21782
Subtracted 9948.93 solute carrier family 4 (anion exchanger), member 1, adaptor protein; kidney anion exchanger adaptor protein; kanadaptin; lung cancer oncogene 3. [refseq;acc:nm_018158] 11222.2 1273.27
267 Divided 11523 ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967] 14021.4 1.21682
Subtracted 9948.93 cyclin-dependent kinases regulatory subunit 2 (cks-2). [swissprot;acc:p33552] 11222.2 1273.27
268 Divided 20127.8 cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0] 24473.9 1.21593
Subtracted 9948.93 catenin (cadherin-associated protein), alpha-like 1; alpha-catulin. [refseq;acc:nm_003798] 11222.2 1273.27
269 Divided 5575.52 u6 snrna-associated sm-like protein lsm8. [swissprot;acc:o95777] 4590.18 1.21466
Subtracted 6074.21 crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945] 4808.79 1265.42
270 Divided 19479.8 fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917] 23640.2 1.21358
Subtracted 6075.04 t-complex protein 1, delta subunit (tcp-1-delta) (cct-delta) (stimulator of tar rna binding). [swissprot;acc:p50991] 4810.22 1264.82
271 Divided 3093.78 chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0] 2554.89 1.21092
Subtracted 6076.09 enhancer of filamentation 1 (hef1) (crk-associated substrate-related protein) (cas-l) (casl) (pp105) (neural precursor cell expressed developmentally down-regulated 9). [swissprot;acc:q14511] 4812.01 1264.08
272 Divided 4669.27 histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929] 3858.52 1.21012
Subtracted 3221.38 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] 1991.03 1230.35
273 Divided 3870.8 eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010] 3199.4 1.20985
Subtracted 6410.58 ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424] 5181.2 1229.38
274 Divided 2579.49 chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286] 3119.98 1.20953
Subtracted 6410.58 ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464] 5181.2 1229.38
275 Divided 2579.49 regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795] 3119.98 1.20953
Subtracted 9043.51 deoxyuridine 5'-triphosphate nucleotidohydrolase, mitochondrial precursor (ec 3.6.1.23) (dutpase) (dutp pyrophosphatase). [swissprot;acc:p33316] 10264.9 1221.39

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/