Ivan de la Rubia
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View article: Differential kinetics of splenic CD169+ macrophage death is one underlying cause of virus infection fate regulation
Differential kinetics of splenic CD169+ macrophage death is one underlying cause of virus infection fate regulation Open
Acute infection and chronic infection are the two most common fates of pathogenic virus infections. While several factors that contribute to these fates are described, the critical control points and the mechanisms that underlie infection …
View article: RATTLE: reference-free reconstruction and quantification of transcriptomes from Nanopore sequencing
RATTLE: reference-free reconstruction and quantification of transcriptomes from Nanopore sequencing Open
View article: Additional file 2 of RATTLE: reference-free reconstruction and quantification of transcriptomes from Nanopore sequencing
Additional file 2 of RATTLE: reference-free reconstruction and quantification of transcriptomes from Nanopore sequencing Open
Additional file 2: Tables S1-S12. Supporting Tables.
View article: RATTLE Paper Data
RATTLE Paper Data Open
Results for different tools and datasets from the RATTLE paper
View article: RATTLE: Reference-free reconstruction and quantification of transcriptomes from Nanopore sequencing
RATTLE: Reference-free reconstruction and quantification of transcriptomes from Nanopore sequencing Open
Nanopore sequencing enables the efficient and unbiased measurement of transcriptomes from any sample. However, current methods for transcript identification and quantification rely of mapping reads to a reference genome, which precludes th…
View article: ReorientExpress: reference-free orientation of nanopore cDNA reads with deep learning
ReorientExpress: reference-free orientation of nanopore cDNA reads with deep learning Open
View article: ReorientExpress: reference-free orientation of nanopore cDNA reads with deep learning
ReorientExpress: reference-free orientation of nanopore cDNA reads with deep learning Open
Long-read sequencing technologies allow the systematic interrogation of transcriptomes from any species. However, functional characterization requires the determination of the correct 5’-to-3’ orientation of reads. Oxford Nanopore Technolo…
View article: MOESM3 of ReorientExpress: reference-free orientation of nanopore cDNA reads with deep learning
MOESM3 of ReorientExpress: reference-free orientation of nanopore cDNA reads with deep learning Open
Additional file 3. Matches of the 32 motifs from Additional file 2 to RBP motifs from CISBP-RNA database.
View article: MOESM2 of ReorientExpress: reference-free orientation of nanopore cDNA reads with deep learning
MOESM2 of ReorientExpress: reference-free orientation of nanopore cDNA reads with deep learning Open
Additional file 2. Motif file for the 32 filters from the CNN model.