?url_ver=Z39.88-2004&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Adc&rft.relation=http%3A%2F%2Fmiis.maths.ox.ac.uk%2Fmiis%2F283%2F&rft.title=Identifying+Bio-markers+for+EcoArray&rft.creator=Bhan%2C+Ashish&rft.creator=Kesir%2C+Mustafa&rft.creator=Malioutov%2C+Mikhail+B.&rft.subject=Medical+and+pharmaceutical&rft.description=EcoArray+is+a+company+that+makes+specialized+microarrays+for+environmental+and+ecological+research.+The+goal+of+this+project+was+to+rigorously+identify+contaminants+that+affect+fish%2C+and+by+extension%2C+humans%2C+using+microarray+data.+This+is+done+by+finding+genes+that+are+differentially+expressed+in+fish+under+normal+conditions+and+under+treatment+by+8+different+chemical+families+PCB-126%2C+Bis-A%2C+Cd%2C+Pb%2C+Hg%2C+Phenantharene%2C+Estradiol+and+Testosterone.+EcoArray+uses+a+proprietary+black-box+software+program+called+GeneSpring+to+identify+differentially+expressed+genes+that+could+serve+as+bio-markers+for+the+8+different+contaminants.+The+goal+of+this+workshop+problem+was+to+develop+a+statistically+robust+method+of+identifying+differentially+expressed+genes+given+replicate+measurements+with+very+different+levels+of+variability.%0D%0A%0D%0AThe+top+ranking+results+of+our+CyberT+analysis+on+the+data+supplied+by+EcoArray+are+markedly+different+from+those+obtained+earlier+by+EcoArray+using+the+black+box+routines+implemented+in+GeneSpring.+The+output+of+CyberT+on+the+data+are+genes+that+have+high+differential+expression+and+low+variance+among+the+replicates.+This+suggests+that+we+have+implemented+a+statistically+robust+method+for+identifying+differentially+expressed+genes+and+used+it+successfully+on+the+data.+A+further+indicator+that+our+method+produces+more+accurate+bio-markers+is+the+following%3A+the+biomarkers+chosen+for+Cd+and+Hg+by+our+method+have+a+high+degree+of+overlap+and+this+makes+biochemical+sense+given+the+similarity+between+these+two+toxins+-+the+output+produced+by+GeneSpring+did+not+have+this+additional+signature+of+consistency.&rft.date=2009&rft.type=Study+Group+Report&rft.type=NonPeerReviewed&rft.format=application%2Fpdf&rft.language=en&rft.identifier=http%3A%2F%2Fmiis.maths.ox.ac.uk%2Fmiis%2F283%2F1%2F2_EcoArray_Inc.pdf&rft.identifier=++Bhan%2C+Ashish+and+Kesir%2C+Mustafa+and+Malioutov%2C+Mikhail+B.++(2009)+Identifying+Bio-markers+for+EcoArray.++%5BStudy+Group+Report%5D+++++