A single-molecule long-read survey of the human transcriptome

By Donald Sharon, Hagen U. Tilgner, Fabian Grubert, Michael P. Snyder. Nature Biotechnology, 2013

634 citations recorded by the source corpus.

Subfields: Cancer Research, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/06645f24a366940bd2054b6b742200b05b8306dc

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Citations in the corpus

FEELnc: a tool for long non-coding RNA annotation and its application to the dog transcriptome (2017, background): “With the availability of very long reads from third generation sequencing technologies (64), the issue will not so much consist in annotating fulllength transcripts but rather in taking into account the high error rate inherent to these technologies, which could lead to the misannotation of the corr”
PacBio Sequencing and Its Applications (2015, background): “Interestingly, over 10% of their alignments represent previously-unannotated intron structures [56].”
Gaining comprehensive biological insight into the transcriptome by performing a broad-spectrum RNA-seq analysis (2017, background): “Given the error-corrected or error-free long-read sequences, full-length isoforms can be directly predicted 12, 36 .”
Araport11: a complete reannotation of the Arabidopsis thaliana reference genome (2016, background): “embryonic and senescent tissues) and environmental stimuli, and advancement in long read sequencing technology will most certainly result in the discovery of novel features as proven in the latest annotation release for maize, sorghum, human and mouse (Sharon et al., 2013; Abdel-Ghany et al., 2016; ”
The Third Revolution in Sequencing Technology. (2018, methodology): “The PacBio workflow to study alternative splicing is commonly referred to as ‘Isoseq’ [53].”
Single-cell RNA-seq: advances and future challenges (2014, positive): “Long-read sequencing technologies have enabled RNA-seq with a median read length of up to 1.5 kb (101,151).”
NONCODE 2016: an informative and valuable data source of long non-coding RNAs (2015, background): “NONCODE contacted the authors of the thirdgeneration single-molecule long-read survey of the human transcriptome paper (12).”
RNA Sequencing and Analysis (2015, positive): “Another advantage of this sequencing approach is the ability to produce extraordinarily long reads with average lengths of 4200 to 8500 bp, which greatly improves the detection of novel transcript structures (Au et al. 2013; Sharon et al. 2013).”
Sequence Analysis (2020, neutral): “…(ONT), have made it possible to perform transcriptome analysis at the isoform level and accurately predict full-length novel transcripts (Au et al. 2013, Sharon et al. 2013, Tilgner et al. 2014, Pertea et al. 2015, Kuo et al. 2020, Nip et al. 2020, Tang et al. 2020, Prjibelski et al. 2023).”
Next generation sequencing technology: Advances and applications. (2014, background): “Other applications of long-read sequencing are RNA structure analysis [63] and studies to unravel complex repeat structures (e.”
High-Throughput Sequencing Technologies (2015, background): “, 2015) and isoform usage in the transcriptome (Sharon et al., 2013) are also key areas where SMRT sequencing has clear advantages over short read technologies.”