The plant noncoding transcriptome: a versatile environmental sensor
Plant noncoding RNA transcripts have gained increasing attention in recent years due to
growing evidence that they can regulate developmental plasticity. In this review article, we …
growing evidence that they can regulate developmental plasticity. In this review article, we …
[HTML][HTML] Adenosine-to-inosine editing of endogenous Z-form RNA by the deaminase ADAR1 prevents spontaneous MAVS-dependent type I interferon responses
Nucleic acids are powerful triggers of innate immunity and can adopt the Z-conformation, an
unusual left-handed double helix. Here, we studied the biological function (s) of Z-RNA …
unusual left-handed double helix. Here, we studied the biological function (s) of Z-RNA …
ALU non-B-DNA conformations, flipons, binary codes and evolution
A Herbert - Royal Society Open Science, 2020 - royalsocietypublishing.org
ALUs contribute to genetic diversity by altering DNA's linear sequence through
retrotransposition, recombination and repair. ALUs also have the potential to form alternative …
retrotransposition, recombination and repair. ALUs also have the potential to form alternative …
[HTML][HTML] Permanganate/S1 nuclease footprinting reveals non-B DNA structures with regulatory potential across a mammalian genome
F Kouzine, D Wojtowicz, L Baranello, A Yamane… - Cell systems, 2017 - cell.com
DNA in cells is predominantly B-form double helix. Though certain DNA sequences in vitro
may fold into other structures, such as triplex, left-handed Z form, or quadruplex DNA, the …
may fold into other structures, such as triplex, left-handed Z form, or quadruplex DNA, the …
[HTML][HTML] CENP-B-mediated DNA loops regulate activity and stability of human centromeres
F Chardon, A Japaridze, H Witt, L Velikovsky… - Molecular cell, 2022 - cell.com
Chromosome inheritance depends on centromeres, epigenetically specified regions of
chromosomes. While conventional human centromeres are known to be built of long tandem …
chromosomes. While conventional human centromeres are known to be built of long tandem …
Z-DNA-forming sites identified by ChIP-Seq are associated with actively transcribed regions in the human genome
Z-DNA, a left-handed double helical DNA is structurally different from the most abundant B-
DNA. Z-DNA has been known to play a significant role in transcription and genome stability …
DNA. Z-DNA has been known to play a significant role in transcription and genome stability …
Palindrome analyser–a new web-based server for predicting and evaluating inverted repeats in nucleotide sequences
V Brázda, J Kolomazník, J Lýsek, L Hároníková… - Biochemical and …, 2016 - Elsevier
DNA cruciform structures play an important role in the regulation of natural processes
including gene replication and expression, as well as nucleosome structure and …
including gene replication and expression, as well as nucleosome structure and …
Human DHX9 helicase unwinds triple-helical DNA structures
Naturally occurring poly (purine· pyrimidine) rich regions in the human genome are prone to
adopting non-canonical DNA structures such as intramolecular triplexes (ie, H-DNA). Such …
adopting non-canonical DNA structures such as intramolecular triplexes (ie, H-DNA). Such …
[HTML][HTML] Deep learning approach for predicting functional Z-DNA regions using omics data
Computational methods to predict Z-DNA regions are in high demand to understand the
functional role of Z-DNA. The previous state-of-the-art method Z-Hunt is based on statistical …
functional role of Z-DNA. The previous state-of-the-art method Z-Hunt is based on statistical …
[HTML][HTML] A threading-based method for the prediction of DNA-binding proteins with application to the human genome
M Gao, J Skolnick - PLoS computational biology, 2009 - journals.plos.org
Diverse mechanisms for DNA-protein recognition have been elucidated in numerous atomic
complex structures from various protein families. These structural data provide an invaluable …
complex structures from various protein families. These structural data provide an invaluable …