简介：TheR(replicase)proteinistheuniquelydefinednon-structuralprotein(NSP)responsibleforRNAreplication,mutationrateorfidelity,regulationoftranscrip-tionincoronavirusesandmanyotherssRNAviruses.Basedonourcompletegenomesequencesoffourisolates(BJ01-BJ04)ofSARS-CoVfromBeijing,China,weanalyzedthestructureandpredictedfunctionsoftheRproteinincomparisonwith13otherisolatesofSARS-CoVand6othercoronaviruses.TheentireORF(open-readingframe)encodesfortwomajorenzymeactivities,RNA-dependentRNApolymerase(RdRp)andproteinaseactivities.TheRpolyproteinunder-goesacomplexproteolyticprocesstoproduce15function-relatedpeptides.Ahydrophobicdomain(HOD)andahydrophilicdomain(HID)arenewlyidentifiedwithinNSP1.ThesubstitutionrateoftheRproteinisclosetotheaverageoftheSARS-CoVgenome.ThefunctionaldomainsinallNSPsoftheRproteingivedifferentphylogeneticresultsthatsuggesttheirdifferentmutationrateunderselectivepressure.ElevenhighlyconservedregionsinRdRpandtwelvecleavagesitesby3CLP(chymotrypsin-likeprotein)havebeenidentifiedaspotentialdrugtargets.Findingssuggestthatitispossibletoobtaininformationaboutthephy-logenyofSARS-CoV,aswellaspotentialtoolsfordrugdesign,genotypinganddiagnosticsofSARS.

简介：WedevelopedanRfunctionnamed'microarrayoutlierfilter'(MOF)toassistintheidentificationoffailedarrays.Insortingagroupofsimilararraysbythelike-lihoodoffailure,twostatisticalindiceswereemployed:thecorrelationcoefficientandthepercentageofoutlierspots.MOFcanbeusedtomonitorthequalityofmi-croarraydataforbothtroubleshooting,andtoeliminatebaddatasetsfromdown-streamanalysis.Thefunctionisfreelyavaliableathttp://www.wriwindber.org/applications/mof/.

简介：BeijinghasbeenoneoftheepicentersattackedmostseverelybytheSARS-CoV(severeacuterespiratorysyndrome-associatedcoronavirus)sincethefirstpatientwasdiagnosedinoneofthecity'shospitals.WenowreportcompletegenomesequencesoftheBJGroup,includingfourisolates(IsolatesBJ01,BJ02,BJ03,andBJ04)oftheSARS-CoV.ItisremarkablethatallmembersoftheBJGroupshareacommonhaplotype,consistingofsevenlocithatdifferentiatethegroupfromotherisolatespublishedtodate.Among42substitutionsuniquelyidentifledfromtheBJgroup,32arenon-synonymouschangesattheaminoacidlevel.Rootedphylogenetictrees,proposedonthebasisofhaplotypesandothersequencevariationsofSARS-CoVisolatesfromCanada,USA,Singapore,andChina,gaverisetodifferentparadigmsbutpositionedtheBJGroup,togetherwiththenewlydiscoveredGD01(GD-Ins29)inthesameclade,followedbytheH-UGroup(fromHongKongtoUSA)andtheH-TGroup(fromHongKongtoToronto),leavingtheSPGroup(Singapore)moredistant.ThisresultappearstosuggestapossibletransmissionpathfromGuangdongtoBeijing/HongKong,thentoothercountriesandregions.