Machine-learning analysis reveals an important role for negative selection in shaping cancer aneuploidy landscapes
BMC » Genome Biology
by
5d ago
Aneuploidy, an abnormal number of chromosomes within a cell, is a hallmark of cancer. Patterns of aneuploidy differ across cancers, yet are similar in cancers affecting closely related tissues. The selection p ..read more
Visit website
Benchmarking bioinformatic virus identification tools using real-world metagenomic data across biomes
BMC » Genome Biology
by
5d ago
As most viruses remain uncultivated, metagenomics is currently the main method for virus discovery. Detecting viruses in metagenomic data is not trivial. In the past few years, many bioinformatic virus identif ..read more
Visit website
Powerful and accurate detection of temporal gene expression patterns from multi-sample multi-stage single-cell transcriptomics data with TDEseq
BMC » Genome Biology
by
5d ago
We present a non-parametric statistical method called TDEseq that takes full advantage of smoothing splines basis functions to account for the dependence of multiple time points in scRNA-seq studies, and uses ..read more
Visit website
Library size confounds biology in spatial transcriptomics data
BMC » Genome Biology
by
5d ago
Spatial molecular data has transformed the study of disease microenvironments, though, larger datasets pose an analytics challenge prompting the direct adoption of single-cell RNA-sequencing tools including no ..read more
Visit website
Characterizing glucokinase variant mechanisms using a multiplexed abundance assay
BMC » Genome Biology
by
5d ago
Amino acid substitutions can perturb protein activity in multiple ways. Understanding their mechanistic basis may pinpoint how residues contribute to protein function. Here, we characterize the mechanisms unde ..read more
Visit website
Minimum information and guidelines for reporting a multiplexed assay of variant effect
BMC » Genome Biology
by
5d ago
Multiplexed assays of variant effect (MAVEs) have emerged as a powerful approach for interrogating thousands of genetic variants in a single experiment. The flexibility and widespread adoption of these techniq ..read more
Visit website
Measuring, visualizing, and diagnosing reference bias with biastools
BMC » Genome Biology
by
5d ago
Many bioinformatics methods seek to reduce reference bias, but no methods exist to comprehensively measure it. analyzes and categorizes instances of reference bias. It works in various scenarios: when t ..read more
Visit website
RBM22 regulates RNA polymerase II 5′ pausing, elongation rate, and termination by coordinating 7SK-P-TEFb complex and SPT5
BMC » Genome Biology
by
5d ago
Splicing factors are vital for the regulation of RNA splicing, but some have also been implicated in regulating transcription. The underlying molecular mechanisms of their involvement in transcriptional proces ..read more
Visit website
Single Cell Atlas: a single-cell multi-omics human cell encyclopedia
BMC » Genome Biology
by
5d ago
Single-cell sequencing datasets are key in biology and medicine for unraveling insights into heterogeneous cell populations with unprecedented resolution. Here, we construct a single-cell multi-omics map of hu ..read more
Visit website
Bento: a toolkit for subcellular analysis of spatial transcriptomics data
BMC » Genome Biology
by
2w ago
The spatial organization of molecules in a cell is essential for their functions. While current methods focus on discerning tissue architecture, cell–cell interactions, and spatial expression patterns, they ar ..read more
Visit website

Follow BMC » Genome Biology on FeedSpot

Continue with Google
Continue with Apple
OR