Researchers have demonstrated that, despite the intrinsically low raw accuracy of long-read sequencing technologies, multiplex sequencing in these technologies can be improved to a read recovery rate and crosstalk rate similar to current high-accuracy short-read sequencing technologies using...
Read More »Efficient querying of genomic reference databases with gget
A recurring challenge in interpreting genomic data is the assessment of results in the context of existing reference databases. Currently, there is no tool implementing automated, easy programmatic access to curated reference information stored in a diverse collection of large, ...
Read More »Nuclear oligo hashing improves differential analysis of single-cell RNA-seq
Single-cell RNA sequencing (scRNA-seq) offers a high-resolution molecular view into complex tissues, but suffers from high levels of technical noise which frustrates efforts to compare the gene expression programs of different cell types. “Spike-in” RNA...
Read More »New single-cell RNA-sequencing method developed at IOB has potential to become universal tool of choice
A new single-cell RNA-sequencing protocol developed at IOB enables the detection of a significantly higher number of genes per cell than any existing method. It is also faster, less expensive...
Read More »New database to “SpUR” on cancer research
An interactive web portal developed by scientists at KAUST offers a platform for cancer researchers to interrogate how RNA splicing in noncoding parts of genes fuels the growth of different types of tumors...
Read More »scPSD – enhancing the accuracy for cell subtype separation from large-scale single-cell omics data
Emerging single-cell technologies provide high-resolution measurements of distinct cellular modalities opening new avenues for generating detailed cellular atlases of many and diverse tissues. The high dimensionality, sparsity, and inaccuracy of single cell sequencing measurements, however, can obscure discriminatory information, mask ...
Read More »SPIRAL – Significant Process InfeRence ALgorithm for single cell RNA-sequencing and spatial transcriptomics
Gene expression data is complex and may hold information regarding multiple biological processes at once. Researchers at Technion – Israel Institute of Technology have developed SPIRAL, an algorithm...
Read More »GEOexplorer – a webserver for gene expression analysis and visualisation
Gene Expression Omnibus (GEO) is a database repository hosting a substantial proportion of publicly available high throughput gene expression data. Gene expression analysis is a powerful tool to gain insight into the mechanisms and processes...
Read More »How machine learning and RNA-seq are helping patients diagnosed with the most common childhood cancer
New software developed by Peter Mac and collaborators is helping patients diagnosed with acute lymphoblastic leukaemia (ALL) to determine what subtype they have. ALL is the most common...
Read More »nf-rnaSeqCount – a Nextflow pipeline for obtaining raw read counts from RNA-seq data
The rate of raw sequence production through Next-Generation Sequencing (NGS) has been growing exponentially due to improved technology and reduced costs. This has enabled researchers to answer many biological questions through "multi-omics"...
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