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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.


Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2430 to 2479 of 8289 in total
Value Type  : Measured
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
1215 protoheme ix farnesyltransferase, mitochondrial precursor (ec 2.5.1.-) (heme o synthase). [swissprot;acc:q12887] Low confidence 8143.05 8437.24 1.03613
1216 fibulin-2 precursor. [swissprot;acc:p98095] High confidence 8670.59 9412.9 1.08561
ischemia/reperfusion inducible protein. [refseq;acc:nm_024640] Low confidence 8005.82 8294.75 1.03609
1217 cad protein [includes: glutamine-dependent carbamoyl-phosphate synthase (ec 6.3.5.5); aspartate carbamoyltransferase (ec 2.1.3.2); dihydroorotase (ec 3.5.2.3)]. [swissprot;acc:p27708] High confidence 6021.21 6536.45 1.08557
vacuolar atp synthase membrane sector associated protein m8-9 (v-atpase m8.9 subunit). [swissprot;acc:o75787] Low confidence 8619.71 8930.83 1.03609
1218 cyclin m4; ancient conserved domain protein 4. [refseq;acc:nm_020184] High confidence 5736 6226.52 1.08552
serine/threonine-protein kinase chk1 (ec 2.7.1.-). [swissprot;acc:o14757] Low confidence 8619.71 8930.83 1.03609
1219 branched-chain amino acid aminotransferase, cytosolic (ec 2.6.1.42) (bcat(c)) (eca39 protein). [swissprot;acc:p54687] 8254.8 8552.55 1.03607
tcd37 homolog; prune. [refseq;acc:nm_021222] High confidence 5735.95 6226.46 1.08552
1220 cyclin m3; ancient conserved domain protein 3. [refseq;acc:nm_017623] 5735.65 6226.13 1.08551
guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901] Low confidence 7680.75 7957.64 1.03605
1221 cyclin m2; ancient conserved domain protein 2. [refseq;acc:nm_017649] High confidence 5736.34 6226.88 1.08551
rp42 homolog; squamous cell carcinoma-related oncogene. [refseq;acc:nm_020640] Low confidence 7923.6 8209.14 1.03604
1222 cyclin m1; ancient conserved domain protein 1. [refseq;acc:nm_020348] High confidence 5735.74 6226.23 1.08551
proline synthetase co-transcribed bacterial homolog protein. [swissprot;acc:o94903] Low confidence 8172.6 8466.95 1.03602
1223 dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33] 7921.73 8207.07
transketolase-like 1 (ec 2.2.1.1) (transketolase 2) (tk 2) (transketolase related protein). [swissprot;acc:p51854] High confidence 6011.44 6524.55 1.08536
1224 ecotropic viral integration site 5; neuroblastoma stage 4s gene. [refseq;acc:nm_005665] Low confidence 8169.38 8463.65 1.03602
splicing factor 3b subunit 4 (spliceosome associated protein 49) (sap 49) (sf3b50) (pre-mrna splicing factor sf3b 49 kda subunit). [swissprot;acc:q15427] High confidence 4331.35 4700.91 1.08532
1225 apurinic/apyrimidinic endonuclease 2; apurinic/apyrimidinic endonuclease-like 2; apex nuclease-like 2. [refseq;acc:nm_014481] 5546.5 6019.57 1.08529
thymidylate kinase (ec 2.7.4.9) (dtmp kinase). [swissprot;acc:p23919] Low confidence 8347.55 8648.14 1.03601
1226 scy1-like 1; telomerase regulation-associated protein; ht019 protein; telomerase regulation-associated protein; n-terminal kinase-like protein; teratoma-associated tyrosine kinase; n-terminal kinase-like. [refseq;acc:nm_020680] 8614.27 8924.44
tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677] High confidence 5997.24 6508.62 1.08527
1227 exportin 7 (ran-binding protein 16). [swissprot;acc:q9uia9] Low confidence 8614.27 8924.44 1.03601
pinin, desmosome associated protein; pinin. [refseq;acc:nm_002687] High confidence 5973.95 6483.32 1.08527
1228 dopachrome tautomerase precursor (ec 5.3.3.12) (dt) (dct) (dopachrome delta-isomerase) (tyrosinase-related protein 2) (trp-2) (trp2). [swissprot;acc:p40126] 5998.58 6509.65 1.0852
nuclear pore complex protein nup98 (nucleoporin nup98) (98 kda nucleoporin). [swissprot;acc:p52948] Low confidence 8614.27 8924.44 1.03601
1229 5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643] High confidence 5998.69 6509.74 1.08519
ammecr1 protein. [refseq;acc:nm_015365] Low confidence 8614.27 8924.44 1.03601
1230 dystrobrevin binding protein 1; dysbindin. [refseq;acc:nm_032122] High confidence 5678.02 6161.65 1.08518
u6 snrna-associated sm-like protein lsm2 (small nuclear ribonuclear protein d homolog) (g7b) (snrnp core sm-like protein sm-x5). [swissprot;acc:q9y333] Low confidence 7879.96 8163.61 1.036
1231 acetyl-coa carboxylase 2 (ec 6.4.1.2) (acc-beta) [includes: biotin carboxylase (ec 6.3.4.14)]. [swissprot;acc:o00763] 8360.8 8661.79
probable dimethyladenosine transferase (ec 2.1.1.-) (s- adenosylmethionine-6-n',n'-adenosyl(rrna) dimethyltransferase) (18s rrna dimethylase). [swissprot;acc:q9unq2] High confidence 5132.68 5569.54 1.08511
1232 eukaryotic translation initiation factor 3 subunit 4 (eif-3 delta) (eif3 p44) (eif-3 rna-binding subunit) (eif3 p42) (eif3g). [swissprot;acc:o75821] Low confidence 8164.22 8458.04 1.03599
nuclear factor, interleukin 3 regulated. [refseq;acc:nm_005384] High confidence 5869.24 6367.8 1.08494
1233 tyrosinase precursor (ec 1.14.18.1) (monophenol monooxygenase) (tumor rejection antigen ab) (sk29-ab) (lb24-ab). [swissprot;acc:p14679] 6004.54 6514.24 1.08489
wd repeat and fyve domain containing 3 isoform 1. [refseq;acc:nm_014991] Low confidence 7847.52 8129.91 1.03598
1234 dehydrodolichyl diphosphate synthase. [refseq;acc:nm_024887] 8185.39 8479.9
similar to ecotropic viral integration site 5; neuroblastoma stage 4s gene. [refseq;acc:nm_145245] High confidence 5807.83 6300.47 1.08482
1235 ecotropic viral integration site 5; neuroblastoma stage 4s gene. [refseq;acc:nm_005665]
ribose 5-phosphate isomerase (ec 5.3.1.6) (phosphoriboisomerase). [swissprot;acc:p49247] Low confidence 8274.63 8572.28 1.03597
1236 acetyl-coa carboxylase 1 (ec 6.4.1.2) (acc-alpha) [includes: biotin carboxylase (ec 6.3.4.14)]. [swissprot;acc:q13085] 8359.88 8660.53 1.03596
p10-binding protein. [refseq;acc:nm_024491] High confidence 5594.18 6067.49 1.08461
1237 aminomethyltransferase, mitochondrial precursor (ec 2.1.2.10) (glycine cleavage system t protein) (gcvt). [swissprot;acc:p48728] Low confidence 8314.67 8613.43 1.03593
tsc22-related inducible leucine zipper protein 2 (tsc-22-like protein thg-1). [swissprot;acc:q9y3q8] High confidence 5873.56 6370.31 1.08457
1238 similar to ecotropic viral integration site 5; neuroblastoma stage 4s gene. [refseq;acc:nm_145245] Low confidence 8168.67 8462.19 1.03593
sphingolipid delta 4 desaturase; membrane fatty acid (lipid) desaturase; dihydroceramide desaturase. [refseq;acc:nm_003676] High confidence 5873.56 6370.31 1.08457
1239 daz associated protein 1 isoform b; deleted in azoospermia associated protein 1. [refseq;acc:nm_018959] 5654.53 6132.76
ubiquitin carboxyl-terminal hydrolase 22 (ec 3.1.2.15) (ubiquitin thiolesterase 22) (ubiquitin-specific processing protease 22) (deubiquitinating enzyme 22) (fragment). [swissprot;acc:q9upt9] Low confidence 7748.62 8026.98 1.03592
1240 galactose-1-phosphate uridylyltransferase (ec 2.7.7.12) (gal-1-p uridylyltransferase) (udp-glucose--hexose-1-phosphate uridylyltransferase). [swissprot;acc:p07902] 8248.47 8544.52 1.03589

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/