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View article: Abundant small RNAs in the reproductive tissues and eggs of the honey bee, Apis mellifera
Abundant small RNAs in the reproductive tissues and eggs of the honey bee, Apis mellifera Open
Background Polyandrous social insects such as the honey bee are prime candidates for parental manipulation of gene expression in offspring. Although there is good evidence for parent-of-origin effects in honey bees the epigenetic mechanism…
View article: Additional file 2 of Abundant small RNAs in the reproductive tissues and eggs of the honey bee, Apis mellifera
Additional file 2 of Abundant small RNAs in the reproductive tissues and eggs of the honey bee, Apis mellifera Open
Additional file 2.
View article: Additional file 3 of Abundant small RNAs in the reproductive tissues and eggs of the honey bee, Apis mellifera
Additional file 3 of Abundant small RNAs in the reproductive tissues and eggs of the honey bee, Apis mellifera Open
Additional file 3.
View article: Additional file 5 of Abundant small RNAs in the reproductive tissues and eggs of the honey bee, Apis mellifera
Additional file 5 of Abundant small RNAs in the reproductive tissues and eggs of the honey bee, Apis mellifera Open
Additional file 5.
View article: Additional file 6 of Abundant small RNAs in the reproductive tissues and eggs of the honey bee, Apis mellifera
Additional file 6 of Abundant small RNAs in the reproductive tissues and eggs of the honey bee, Apis mellifera Open
Additional file 6.
View article: Additional file 4 of Abundant small RNAs in the reproductive tissues and eggs of the honey bee, Apis mellifera
Additional file 4 of Abundant small RNAs in the reproductive tissues and eggs of the honey bee, Apis mellifera Open
Additional file 4.
View article: Altered serum protein levels in frontotemporal dementia and amyotrophic lateral sclerosis indicate calcium and immunity dysregulation
Altered serum protein levels in frontotemporal dementia and amyotrophic lateral sclerosis indicate calcium and immunity dysregulation Open
Frontotemporal dementia (FTD) and amyotrophic lateral sclerosis (ALS) are neurodegenerative diseases that are considered to be on the same disease spectrum because of overlapping genetic, pathological and clinical traits. Changes in serum …
View article: Additional file 6 of Sierra: discovery of differential transcript usage from polyA-captured single-cell RNA-seq data
Additional file 6 of Sierra: discovery of differential transcript usage from polyA-captured single-cell RNA-seq data Open
Additional file 6 List of the primers used in qRT-PCR. Format: XLSX file.
View article: Additional file 1 of Sierra: discovery of differential transcript usage from polyA-captured single-cell RNA-seq data
Additional file 1 of Sierra: discovery of differential transcript usage from polyA-captured single-cell RNA-seq data Open
Additional file 1 Metrics from peak calling, counting and annotation for the 19 individual datasets analysed is this study. Shown are 1) the number of peaks, 2) number of genes, 3) median peaks per-gene, 4-7) % of peaks falling on 3’UTRs, …
View article: Additional file 7 of Sierra: discovery of differential transcript usage from polyA-captured single-cell RNA-seq data
Additional file 7 of Sierra: discovery of differential transcript usage from polyA-captured single-cell RNA-seq data Open
Additional file 7 Review history. Format: DOCX file.
View article: Additional file 5 of Sierra: discovery of differential transcript usage from polyA-captured single-cell RNA-seq data
Additional file 5 of Sierra: discovery of differential transcript usage from polyA-captured single-cell RNA-seq data Open
Additional file 5 Output for DTU testing between activated/proliferating fibroblast populations and the resting populations. DTU testing based on 3’UTR peaks, after filtering out peaks tagged as proximal to an A-rich region. Format: XLSX f…
View article: Additional file 3 of Sierra: discovery of differential transcript usage from polyA-captured single-cell RNA-seq data
Additional file 3 of Sierra: discovery of differential transcript usage from polyA-captured single-cell RNA-seq data Open
Additional file 3 Comparison of overlapping detected differential transcript usage genes and differentially expressed genes for different cell-type comparisons between the PBMC 7k and PBMC 4k datasets. Format: XLSX file.
View article: Sierra: discovery of differential transcript usage from polyA-captured single-cell RNA-seq data
Sierra: discovery of differential transcript usage from polyA-captured single-cell RNA-seq data Open
High-throughput single-cell RNA-seq (scRNA-seq) is a powerful tool for studying gene expression in single cells. Most current scRNA-seq bioinformatics tools focus on analysing overall expression levels, largely ignoring alternative mRNA is…
View article: scReClassify: post hoc cell type classification of single-cell rNA-seq data
scReClassify: post hoc cell type classification of single-cell rNA-seq data Open
Background Single-cell RNA-sequencing (scRNA-seq) is a fast emerging technology allowing global transcriptome profiling on the single cell level. Cell type identification from scRNA-seq data is a critical task in a variety of research such…
View article: scMerge leverages factor analysis, stable expression, and pseudoreplication to merge multiple single-cell RNA-seq datasets
scMerge leverages factor analysis, stable expression, and pseudoreplication to merge multiple single-cell RNA-seq datasets Open
Concerted examination of multiple collections of single-cell RNA sequencing (RNA-seq) data promises further biological insights that cannot be uncovered with individual datasets. Here we present scMerge, an algorithm that integrates multip…
View article: MSH3 modifies somatic instability and disease severity in Huntington’s and myotonic dystrophy type 1
MSH3 modifies somatic instability and disease severity in Huntington’s and myotonic dystrophy type 1 Open
The mismatch repair gene MSH3 has been implicated as a genetic modifier of the CAG·CTG repeat expansion disorders Huntington’s disease and myotonic dystrophy type 1. A recent Huntington’s disease genome-wide association study found rs55787…
View article: scReClassify: post hoc cell type classification of single-cell RNA-seq data
scReClassify: post hoc cell type classification of single-cell RNA-seq data Open
Single-cell RNA-sequencing (scRNA-seq) is a fast emerging technology allowing global transcriptome profiling on the single cell level. Cell type identification from scRNA-seq data is a critical task in a variety of research such as develop…
View article: scMerge: Integration of multiple single-cell transcriptomics datasets leveraging stable expression and pseudo-replication
scMerge: Integration of multiple single-cell transcriptomics datasets leveraging stable expression and pseudo-replication Open
Concerted examination of multiple collections of single cell RNA-Seq (scRNA-Seq) data promises further biological insights that cannot be uncovered with individual datasets. However, such integrative analyses are challenging and require so…
View article: Humanized mutant FUS drives progressive motor neuron degeneration without aggregation in ‘FUSDelta14’ knockin mice
Humanized mutant FUS drives progressive motor neuron degeneration without aggregation in ‘FUSDelta14’ knockin mice Open
Mutations in FUS are causative for amyotrophic lateral sclerosis with a dominant mode of inheritance. In trying to model FUS-amyotrophic lateral sclerosis (ALS) in mouse it is clear that FUS is dosage-sensitive and effects arise from overe…
View article: RNA-Seq of Huntington’s disease patient myeloid cells reveals innate transcriptional dysregulation associated with proinflammatory pathway activation
RNA-Seq of Huntington’s disease patient myeloid cells reveals innate transcriptional dysregulation associated with proinflammatory pathway activation Open
Innate immune activation beyond the central nervous system is emerging as a vital component of the pathogenesis of neurodegeneration. Huntington's disease (HD) is a fatal neurodegenerative disorder caused by a CAG repeat expansion in the h…
View article: Radio detections of southern ultracool dwarfs
Radio detections of southern ultracool dwarfs Open
We report the results of a volume-limited survey using the Australia Telescope Compact Array to search for transient and quiescent radio emission from 15 Southern hemisphere ultracool dwarfs. We detect radio emission from 2MASSW J0004348−4…