Synthetic reversed sequences reveal default genomic states
… sites of transcription initiation can produce functional mRNAs, we cloned the his5 transcription
unit … Illumina libraries were sequenced in paired-end mode on an Illumina NextSeq 500 …
unit … Illumina libraries were sequenced in paired-end mode on an Illumina NextSeq 500 …
The landscape of promoter-centred RNA–DNA interactions in rice
Q Xiao, X Huang, Y Zhang, W Xu, Y Yang, Q Zhang… - Nature Plants, 2022 - nature.com
… transcribed DNA strand, resulting in high enrichment of sense RNAs downstream of transcription
start … PCR products were then subjected to size selection and paired-end sequencing (2 …
start … PCR products were then subjected to size selection and paired-end sequencing (2 …
Transcription initiation mapping in 31 bovine tissues reveals complex promoter activity, pervasive transcription, and tissue-specific promoter usage
DE Goszczynski, MM Halstead, AD Islas-Trejo… - Genome …, 2021 - genome.cshlp.org
… By evaluating the chromatin landscape surrounding TSCs, we observed a consistent co-…
bp and were sequenced on an Illumina HiSeq 4000 system, generating paired-end reads of …
bp and were sequenced on an Illumina HiSeq 4000 system, generating paired-end reads of …
Defining genome architecture at base-pair resolution
… Fourth, we generated contact maps with base-pair accuracy by directly sequencing the …
paired-end sequencing by sonicating the MNase 3C library to 200-bp fragments and sequencing …
paired-end sequencing by sonicating the MNase 3C library to 200-bp fragments and sequencing …
Integrated paired-end enhancer profiling and whole-genome sequencing reveals recurrent CCNE1 and IGF2 enhancer hijacking in primary gastric adenocarcinoma
… Of these tumour-associated enhancer-based SVs, 20% (n=30) exhibited breakpoints localised
at H3K27ac-enriched promoter regions (±2.5 Kb from annotated transcription start sites (…
at H3K27ac-enriched promoter regions (±2.5 Kb from annotated transcription start sites (…
[HTML][HTML] Mapping the genetic landscape of DNA double-strand break repair
… damage across diverse pools of perturbed cells, followed by linked recovery of perturbation
identities and repair outcomes from individual cells by paired-end sequencing (Figure 1B). …
identities and repair outcomes from individual cells by paired-end sequencing (Figure 1B). …
The landscape of RNA Pol II binding reveals a stepwise transition during ZGA
… with sequencing (Stacc–seq), we investigated the landscapes of … TSS, transcription start site.
b, UCSC browser views and heat … For paired-end reads, SNP information from both reads in …
b, UCSC browser views and heat … For paired-end reads, SNP information from both reads in …
Conserved DNA sequence features underlie pervasive RNA polymerase pausing
M Gajos, O Jasnovidova, A van Bömmel… - Nucleic acids …, 2021 - academic.oup.com
… Third, ChIP-seq peak callers rely on paired-end sequencing … if they partially emerged from
transcription initiation events at … We used PDA to determine the pausing landscapes of RNA …
transcription initiation events at … We used PDA to determine the pausing landscapes of RNA …
RNA polymerase II dynamics shape enhancer–promoter interactions
… Hi-C\Micro-C unique paired-end reads (which we will refer to … Samples were paired-end
sequenced (read length = 150 bp) … define the position of transcription initiation at each of these …
sequenced (read length = 150 bp) … define the position of transcription initiation at each of these …
[HTML][HTML] Pervasive downstream RNA hairpins dynamically dictate start-codon selection
… and subjected to next-generation sequencing using the Illumina NovaSeq (S2, full flow cell)
with paired-end reads of 50 bp in length. The six libraries for RNA sequencing (RNA-seq) (…
with paired-end reads of 50 bp in length. The six libraries for RNA sequencing (RNA-seq) (…