User: alyamahmoud

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Posts by alyamahmoud

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Comment: C: RNASeq reads from two bacterial species
... The organisms are clinical isolates of *Vibrio cholera* (VCH) and *Enterotoxigenic E. coli* (ETEC). The growth rates of ETEC is faster than that of VCH when grown on M9+glucose or LB. ...
written 2.6 years ago by alyamahmoud0
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Comment: C: RNASeq reads from two bacterial species
... Also, neither methods seem to make sense at this point since the number of differentially expressed genes is unrealistic. ...
written 2.6 years ago by alyamahmoud0
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Comment: C: RNASeq reads from two bacterial species
... That's basically why I thought it would be better to rely on de novo transcriptome assembly rather than a fragmented genome assembly (since I also have illumina DNA sequences for the same isolates). Is this assumption true ? ...
written 2.6 years ago by alyamahmoud0
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Comment: C: RNASeq reads from two bacterial species
... Thanks. I have three biological replicates from each culture and co-culture. Unfortunately, most of the literature is about handling co-transcitome from two different domains (eukaryote/prokaryote) which is a bit easier to handle since you can deal with each case as contaminant reads when attempting ...
written 2.6 years ago by alyamahmoud0
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RNASeq reads from two bacterial species
... Dear All I am trying to analyze co-transcriptome data from two enteric pathogens. These are new clinical isolates (X and Y). I have RNASeq reads from each species grown individually (X or Y) and from the co-growing culture (X+Y). The pattern of growth observed in in vitro cultures is that X suppre ...
trinity co-culture kallisto rsem rna-seq written 2.6 years ago by alyamahmoud0 • updated 2.6 years ago by h.mon27k

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