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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Rank Gene Value Type Interaction Map description Network Comparison Type Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 501 to 550 of 8289 in total
Value Type  : Measured
Network Comparison Type  : Divided
Filtered  : 1
Rank
Interaction Map
description
red
green
network_comparison
251 High confidence tyrosine-protein kinase hck (ec 2.7.1.112) (p59-hck/p60-hck) (hemopoietic cell kinase). [swissprot;acc:p08631] 6417.18 7859.6 1.22477
Low confidence kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [swissprot;acc:q16719] 8527.55 9058.09 1.06221
252 High confidence crk-like protein. [swissprot;acc:p46109] 6417.18 7859.6 1.22477
Low confidence 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] 8492.92 9018.94 1.06194
253 High confidence proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [swissprot;acc:p00519] 6417.18 7859.59 1.22477
Low confidence fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757] 8223.39 8732.25 1.06188
254 High confidence proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [swissprot;acc:p06241] 6417.18 7859.6 1.22477
Low confidence dj842g6.2 (novel protein imilar to sel1l (sel-1 (suppressor of lin-12, c.elegans)-like)) (fragment). [sptrembl;acc:q9ugd3] 8219.97 8727.87 1.06179
255 High confidence proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [swissprot;acc:p09769] 6417.18 7859.6 1.22477
Low confidence sel-1 homolog precursor (suppressor of lin-12-like protein) (sel-1l). [swissprot;acc:q9ubv2] 8219.95 8727.84 1.06179
256 High confidence 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
Low confidence fructose-1,6-bisphosphatase (ec 3.1.3.11) (d-fructose-1,6-bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:p09467] 8216.87 8723.91 1.06171
257 High confidence ccaat displacement protein (cdp) (cut-like 1). [swissprot;acc:p39880] 6417.31 7858.12 1.22452
Low confidence synaptojanin 1 (ec 3.1.3.36) (synaptic inositol-1,4,5-trisphosphate 5- phosphatase 1). [swissprot;acc:o43426] 8082.34 8579.93 1.06157
258 High confidence homeobox protein cux-2 (cut-like 2) (fragment). [swissprot;acc:o14529] 6417.33 7857.93 1.22449
Low confidence aflatoxin b1 aldehyde reductase 2 (ec 1.-.-.-) (afb1-ar 2). [swissprot;acc:o95154] 9249.74 9818.95 1.06154
259 High confidence neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401] 6417.81 7852.52 1.22355
Low confidence oligophrenin 1. [swissprot;acc:o60890] 6428.7 6824.22 1.06152
260 High confidence signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 4244.95 5193.42 1.22343
Low confidence aflatoxin b1 aldehyde reductase 1 (ec 1.-.-.-) (afb1-ar 1) (aldoketoreductase 7). [swissprot;acc:o43488] 9246.23 9814.59 1.06147
261 High confidence signal recognition particle 9 kda protein (srp9). [swissprot;acc:p49458] 4247.36 5192.61 1.22255
Low confidence adrenodoxin, mitochondrial precursor (adrenal ferredoxin) (hepatoredoxin) (ferredoxin 1). [swissprot;acc:p10109] 8837.18 9379.17 1.06133
262 High confidence 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 20431.7 1.21852
Low confidence oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1] 6440.08 6834.37 1.06122
263 High confidence trs85 homolog. [swissprot;acc:q9y2l5] 24896.4 20431.7 1.21852
Low confidence oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977] 7424.14 7877.49 1.06106
264 High confidence 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
Low confidence diacylglycerol kinase, theta (ec 2.7.1.107) (diglyceride kinase) (dgk- theta) (dag kinase theta). [swissprot;acc:p52824] 6396.44 6786.96 1.06105
265 High confidence wd-repeat protein wdc146. [swissprot;acc:q9c0j8] 24806.9 20369.9 1.21782
Low confidence synaptojanin 2 (ec 3.1.3.36) (synaptic inositol-1,4,5-trisphosphate 5- phosphatase 2) (fragment). [swissprot;acc:o15056] 8081.02 8573.8 1.06098
266 High confidence cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570] 24806.9 20369.9 1.21782
Low confidence carboxypeptidase a1 precursor (ec 3.4.17.1). [swissprot;acc:p15085] 8817.03 9353.9 1.06089
267 High confidence ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967] 14021.4 11523 1.21682
Low confidence choline/ethanolaminephosphotransferase. [refseq;acc:nm_006090] 8813.83 9348.71 1.06069
268 High confidence cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0] 24473.9 20127.8 1.21593
Low confidence reversion-inducing cysteine-rich protein with kazal motifs precursor (hreck) (suppressor of tumorigenicity 15) (st15). [swissprot;acc:o95980] 8813.83 9348.71 1.06069
269 High confidence u6 snrna-associated sm-like protein lsm8. [swissprot;acc:o95777] 4590.18 5575.52 1.21466
Low confidence choline phosphotransferase 1; cholinephosphotransferase 1 alpha; cholinephosphotransferase 1. [refseq;acc:nm_020244] 8813.95 9348.9 1.06069
270 High confidence fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917] 23640.2 19479.8 1.21358
Low confidence carboxypeptidase a5. [refseq;acc:nm_080385] 8811.88 9345.51 1.06056
271 High confidence chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0] 2554.89 3093.78 1.21092
Low confidence carboxypeptidase b precursor (ec 3.4.17.2) (pancreas-specific protein) (pasp). [swissprot;acc:p15086] 8811.69 9345.26 1.06055
272 High confidence histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929] 3858.52 4669.27 1.21012
Low confidence delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial precursor (ec 1.5.1.12) (p5c dehydrogenase). [swissprot;acc:p30038] 11162 10526.2 1.0604
273 High confidence eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010] 3199.4 3870.8 1.20985
Low confidence phospholipase a-2-activating protein (plap) (pla2p). [swissprot;acc:q9y263] 11162 10526.2 1.0604
274 High confidence chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286] 3119.98 2579.49 1.20953
Low confidence small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356] 7718.85 8184.75 1.06036
275 High confidence regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795] 3119.98 2579.49 1.20953
Low confidence udp-glucose 4-epimerase (ec 5.1.3.2) (galactowaldenase) (udp- galactose 4-epimerase). [swissprot;acc:q14376] 7506.19 7958.12 1.06021

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/