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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1218 to 1267 of 14920 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Rank
description
Value Type
Filtered
red
green
network_comparison
153 hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703] Measured 1 23693.7 18263 1.29736
luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032] Rooted 55.297 65.9236 1.19217
maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168] Squared 0 81.4343 135.97 1.66969
ret finger protein 2 (leukemia associated protein 5) (b-cell chronic lymphocytic leukemia tumor suppressor leu5) (putative tumor suppressor rfp2) (tripartite motif protein 13). [swissprot;acc:o60858] 1 70011 49783 1.40632
sh2-b homolog; likely ortholog of mouse sh2 domain-containing putative adapter sh2-b; sh2-b gamma signaling protein; sh2-b alpha signaling protein. [refseq;acc:nm_015503] Rooted 0 10.3441 8.83176 1.17124
tubulin gamma-1 chain (gamma-1 tubulin) (gamma-tubulin complex component 1) (gcp-1). [swissprot;acc:p23258] Ranked 7879.3 6789.92 1.16044
udp-glucuronosyltransferase 2b4 precursor, microsomal (ec 2.4.1.17) (udpgt) (hyodeoxycholic acid) (hlug25) (udpgth-1). [swissprot;acc:p06133] Measured 2230.13 1729.7 1.28932
154 eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010] Rooted 1 43.5479 51.5473 1.18369
glutamyl aminopeptidase (ec 3.4.11.7) (eap) (aminopeptidase a) (apa) (differentiation antigen gp160). [swissprot;acc:q07075] Measured 0 2230.13 1729.7 1.28932
likely ortholog of rat cytochrome p450 4x1. [refseq;acc:nm_178033] Rooted 14.1274 16.5305 1.1701
melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] Measured 1 23693.7 18263 1.29736
myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] Ranked 0 10883 12622.8 1.15986
regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795] 1 249.663 298.263 1.19466
t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [swissprot;acc:p49368] Squared 42788.3 60162.6 1.40605
transcription factor e2f2 (e2f-2). [swissprot;acc:q14209] 0 1110.11 669.13 1.65903
155 cleavage stimulation factor, 64 kda subunit (cstf 64 kda subunit) (cf-1 64 kda subunit). [swissprot;acc:p33240] 1 126408 89940.5 1.40546
cytochrome p450 4f12 (ec 1.14.14.1) (cypivf12). [swissprot;acc:q9hcs2] Rooted 0 14.232 16.6448 1.16953
melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] Measured 1 23693.7 18263 1.29736
polyposis locus protein 1-like 1; likely ortholog of mouse polyposis locus protein 1-like 1. [refseq;acc:nm_138393] Ranked 0 12759.4 11028.8 1.15692
putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] 1 249.663 298.263 1.19466
regulator of chromosome condensation (cell cycle regulatory protein). [swissprot;acc:p18754] Squared 0 21273.2 12858.5 1.65441
small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330] Rooted 1 55.7423 65.6839 1.17835
udp-glucuronosyltransferase 2b10 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:p36537] Measured 0 2230.13 1729.7 1.28932
156 cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [swissprot;acc:q9hbi6] Rooted 14.2464 16.6605 1.16945
melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] Measured 1 23693.7 18263 1.29736
poly (adp-ribose) glycohydrolase. [refseq;acc:nm_003631] Squared 0 366.272 222.124 1.64895
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] Ranked 1 249.663 298.263 1.19466
septin 10 isoform 1. [refseq;acc:nm_144710] Squared 89578.7 125883 1.40528
sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489] Rooted 56.3447 66.124 1.17356
tubby protein homolog. [swissprot;acc:p50607] Ranked 0 12303.7 10641.7 1.15618
udp-glucuronosyltransferase 2b15 precursor, microsomal (ec 2.4.1.17) (udpgt) (udpgth-3) (hlug4). [swissprot;acc:p54855] Measured 2230.13 1729.7 1.28932
157 brain protein 44. [swissprot;acc:o95563] Squared 1 89182.8 125229 1.40418
cytochrome p450 4f8 (ec 1.14.14.1) (cypivf8). [swissprot;acc:p98187] Rooted 0 14.2752 16.6919 1.16929
eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760] 1 52.7582 61.9123 1.17351
hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] Measured 23693.7 18263 1.29736
mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476] 0 261.105 336.584 1.28908
transcription factor lbx1. [swissprot;acc:p52954] Ranked 1 249.663 298.263 1.19466
transcription initiation factor iie, beta subunit (tfiie-beta). [swissprot;acc:p29084] 0 18079 15652 1.15506
udp-glucuronosyltransferase 2b17 precursor, microsomal (ec 2.4.1.17) (udpgt) (c19-steroid specific udp-glucuronosyltransferase). [swissprot;acc:o75795] Squared 6123.28 3763.18 1.62716
158 breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567] Rooted 1 56.3507 66.1252 1.17346
cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329] 0 14.2752 16.6919 1.16929
guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388] Measured 1283.48 1649.37 1.28508
melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] 1 23693.7 18263 1.29736
mosaic protein lgn. [swissprot;acc:p81274] Ranked 249.663 298.263 1.19466
putative nucleoside diphosphate kinase (ec 2.7.4.6) (ndk) (ndp kinase). [swissprot;acc:o60361] 0 10060.2 11616.4 1.15469
septin 7 (cdc10 protein homolog). [swissprot;acc:q16181] Squared 1 89182.8 125229 1.40418
udp-glucuronosyltransferase 2b11 precursor, microsomal (ec 2.4.1.17) (udpgt). [swissprot;acc:o75310] 0 6123.28 3763.18 1.62716
159 cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] Ranked 5813.32 6706.32 1.15361
lipocalin-interacting membrane receptor. [refseq;acc:nm_018113] Measured 734.025 574.372 1.27796
myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] Rooted 52.3183 44.8382 1.16682

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/