Redefining fundamental concepts of transcription initiation in bacteria
… of the Sequence Ontology, which aims to define the sequence … (positive numbers represent
bases downstream of the TSS, … , we define a promoter as a DNA segment essential for the …
bases downstream of the TSS, … , we define a promoter as a DNA segment essential for the …
Expanded encyclopaedias of DNA elements in the human and mouse genomes
… The RNA sequences and structures recognized by RBPs are encoded by the underlying
genomic sequence, and thus represent a class of functional sequence elements not previously …
genomic sequence, and thus represent a class of functional sequence elements not previously …
Overlapping genes in natural and engineered genomes
BW Wright, MP Molloy, PR Jaschke - Nature Reviews Genetics, 2022 - nature.com
… a downstream stop codon, produces an overlapping ORF 18 . d | Non-coding intron sequences
may acquire a start codon through mutation and, in conjunction with a downstream stop …
may acquire a start codon through mutation and, in conjunction with a downstream stop …
The structural, functional and evolutionary impact of transposable elements in eukaryotes
… and concordant gene conversion to eliminate the deletion site … for replication of host DNA
sequences downstream from the origin … sequences necessary for their own transcription. These …
sequences downstream from the origin … sequences necessary for their own transcription. These …
Measuring and interpreting transposable element expression
S Lanciano, G Cristofari - Nature Reviews Genetics, 2020 - nature.com
… c | Consensus sequences are essential for annotating genomes and can be used to … can
occur in the downstream flanking sequence. For example, Alu elements do not contain a Pol III …
occur in the downstream flanking sequence. For example, Alu elements do not contain a Pol III …
Transposable elements contribute to cell and species-specific chromatin looping and gene regulation in mammalian genomes
… from most types of functional sequence, they have broadly … -binding sites are functionally
equivalent as loop anchors, … To do so, we defined upstream and downstream boundary …
equivalent as loop anchors, … To do so, we defined upstream and downstream boundary …
lentiMPRA and MPRAflow for high-throughput functional characterization of gene regulatory elements
… , Bash, and R), manages all necessary packages and environments with Anaconda 17 , …
sequence and the sample index sequence upstream and a P7 flowcell sequence downstream …
sequence and the sample index sequence upstream and a P7 flowcell sequence downstream …
Independent generation of sequence elements by motor cortex
AJ Zimnik, MM Churchland - Nature neuroscience, 2021 - nature.com
… downstream … essential to the rapid production of motor sequences. Based on our findings,
it is clear that a holistic strategy is not necessary for motor cortex to generate rapid sequences, …
it is clear that a holistic strategy is not necessary for motor cortex to generate rapid sequences, …
uORFs: Important Cis-Regulatory Elements in Plants
T Zhang, A Wu, Y Yue, Y Zhao - International Journal of Molecular …, 2020 - mdpi.com
… The canonical AUG start codon sequence functions as the translation … -element in eukaryotes,
uORFs usually suppress the translation of downstream mORFs, which play essential roles …
uORFs usually suppress the translation of downstream mORFs, which play essential roles …
Sequence determinants, function, and evolution of CpG islands
A Angeloni, O Bogdanovic - Biochemical Society Transactions, 2021 - portlandpress.com
… the chromatin state necessary for the functional readout of CGIs. … elements. Understanding
how CGIs emerged and evolved to have functional significance in gene regulatory elements …
how CGIs emerged and evolved to have functional significance in gene regulatory elements …