Caroline Jane Ross
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View article: Inducible formation of fusion transcripts upregulates haploinsufficient CHD2 gene expression
Inducible formation of fusion transcripts upregulates haploinsufficient CHD2 gene expression Open
Modes of action of long noncoding RNAs (lncRNAs) are poorly understood. CHASERR is a broadly expressed lncRNA located immediately upstream of the promoter of the CHD2 gene. We show that antisense oligonucleotides (ASOs) targeting conserved…
View article: Inducible Formation of Fusion Transcripts Upregulates Haploinsufficient Chd2 Gene Expression
Inducible Formation of Fusion Transcripts Upregulates Haploinsufficient Chd2 Gene Expression Open
View article: Conserved RNA-binding protein interactions mediate syntologous lncRNA functions
Conserved RNA-binding protein interactions mediate syntologous lncRNA functions Open
Syntologous long noncoding RNAs (lncRNAs) are loci with conserved genomic positions that often show little or no sequence similarity. Despite diverging primary sequences, lncRNA syntologs from distant species can carry out similar function…
View article: GTP Cyclohydrolase I as a Potential Drug Target: New Insights into Its Allosteric Modulation via Normal Mode Analysis
GTP Cyclohydrolase I as a Potential Drug Target: New Insights into Its Allosteric Modulation via Normal Mode Analysis Open
Guanosine triphosphate (GTP) cyclohydrolase I (GCH1) catalyzes the conversion of GTP into dihydroneopterin triphosphate (DHNP). DHNP is the first intermediate of the folate de novo biosynthesis pathway in prokaryotic and lower eukaryotic m…
View article: Uncovering deeply conserved motif combinations in rapidly evolving noncoding sequences
Uncovering deeply conserved motif combinations in rapidly evolving noncoding sequences Open
View article: Additional file 4 of Uncovering deeply conserved motif combinations in rapidly evolving noncoding sequences
Additional file 4 of Uncovering deeply conserved motif combinations in rapidly evolving noncoding sequences Open
Additional file 4. LncLOOM output results for XIST sequences from six mammals.
View article: Additional file 2 of Uncovering deeply conserved motif combinations in rapidly evolving noncoding sequences
Additional file 2 of Uncovering deeply conserved motif combinations in rapidly evolving noncoding sequences Open
Additional file 2: Supplementary Table S2. Mass spectrometry results performed with fragments of mouse Chaserr Exon 5.
View article: Additional file 5 of Uncovering deeply conserved motif combinations in rapidly evolving noncoding sequences
Additional file 5 of Uncovering deeply conserved motif combinations in rapidly evolving noncoding sequences Open
Additional file 5. LncLOOM output results for MALAT1 sequences from 19 vertebrates.
View article: Additional file 3 of Uncovering deeply conserved motif combinations in rapidly evolving noncoding sequences
Additional file 3 of Uncovering deeply conserved motif combinations in rapidly evolving noncoding sequences Open
Additional file 3. LncLOOM output results for NORAD sequences from nine mammals.
View article: Probing the Structural Dynamics of the Plasmodium falciparum Tunneling-Fold Enzyme 6-Pyruvoyl Tetrahydropterin Synthase to Reveal Allosteric Drug Targeting Sites
Probing the Structural Dynamics of the Plasmodium falciparum Tunneling-Fold Enzyme 6-Pyruvoyl Tetrahydropterin Synthase to Reveal Allosteric Drug Targeting Sites Open
The de novo folate synthesis pathway is a well-established drug target in the treatment of many infectious diseases. Antimalarial antifolate drugs have proven to be effective against malaria, however, rapid drug resistance has emerg…
View article: The In Silico Prediction of Hotspot Residues that Contribute to the Structural Stability of Subunit Interfaces of a Picornavirus Capsid
The In Silico Prediction of Hotspot Residues that Contribute to the Structural Stability of Subunit Interfaces of a Picornavirus Capsid Open
The assembly of picornavirus capsids proceeds through the stepwise oligomerization of capsid protein subunits and depends on interactions between critical residues known as hotspots. Few studies have described the identification of hotspot…
View article: MODE-TASK: large-scale protein motion tools
MODE-TASK: large-scale protein motion tools Open
Summary MODE-TASK, a novel and versatile software suite, comprises Principal Component Analysis, Multidimensional Scaling, and t-Distributed Stochastic Neighbor Embedding techniques using Molecular Dynamics trajectories. MODE-TASK also inc…
View article: Unraveling the Motions behind Enterovirus 71 Uncoating
Unraveling the Motions behind Enterovirus 71 Uncoating Open
View article: MODE-TASK: Large-scale protein motion tools
MODE-TASK: Large-scale protein motion tools Open
Summary MODE-TASK, a novel software suite, comprises Principle Component Analysis, Multidimensional Scaling, and t-Distributed Stochastic Neighbor Embedding techniques using molecular dynamics trajectories. MODE-TASK also includes a Normal…
View article: MD-TASK: a software suite for analyzing molecular dynamics trajectories
MD-TASK: a software suite for analyzing molecular dynamics trajectories Open
Summary Molecular dynamics (MD) determines the physical motions of atoms of a biological macromolecule in a cell-like environment and is an important method in structural bioinformatics. Traditionally, measurements such as root mean square…
View article: Interacting motif networks located in hotspots associated with <scp>RNA</scp> release are conserved in Enterovirus capsids
Interacting motif networks located in hotspots associated with <span>RNA</span> release are conserved in Enterovirus capsids Open
Enteroviruses are responsible for a multitude of human diseases. Expansion of the virus capsid is associated with a cascade of conformational changes that allow the subsequent release of RNA . For the first time, this study presents a comp…