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The technological landscape and applications of single-cell multi-omics
Single-cell multi-omics technologies and methods characterize cell states and activities by
simultaneously integrating various single-modality omics methods that profile the …
simultaneously integrating various single-modality omics methods that profile the …
PANTHER: Making genome‐scale phylogenetics accessible to all
PD Thomas, D Ebert, A Muruganujan… - Protein …, 2022 - Wiley Online Library
Phylogenetics is a powerful tool for analyzing protein sequences, by inferring their
evolutionary relationships to other proteins. However, phylogenetics analyses can be …
evolutionary relationships to other proteins. However, phylogenetics analyses can be …
A genomic mutational constraint map using variation in 76,156 human genomes
The depletion of disruptive variation caused by purifying natural selection (constraint) has
been widely used to investigate protein-coding genes underlying human disorders,,–, but …
been widely used to investigate protein-coding genes underlying human disorders,,–, but …
CADD v1. 7: using protein language models, regulatory CNNs and other nucleotide-level scores to improve genome-wide variant predictions
Abstract Machine Learning-based scoring and classification of genetic variants aids the
assessment of clinical findings and is employed to prioritize variants in diverse genetic …
assessment of clinical findings and is employed to prioritize variants in diverse genetic …
hdWGCNA identifies co-expression networks in high-dimensional transcriptomics data
Biological systems are immensely complex, organized into a multi-scale hierarchy of
functional units based on tightly regulated interactions between distinct molecules, cells …
functional units based on tightly regulated interactions between distinct molecules, cells …
Efficient site-specific integration of large genes in mammalian cells via continuously evolved recombinases and prime editing
Methods for the targeted integration of genes in mammalian genomes suffer from low
programmability, low efficiencies or low specificities. Here we show that phage-assisted …
programmability, low efficiencies or low specificities. Here we show that phage-assisted …
Evolutionary constraint and innovation across hundreds of placental mammals
Zoonomia is the largest comparative genomics resource for mammals produced to date. By
aligning genomes for 240 species, we identify bases that, when mutated, are likely to affect …
aligning genomes for 240 species, we identify bases that, when mutated, are likely to affect …
Fusobacterium infection facilitates the development of endometriosis through the phenotypic transition of endometrial fibroblasts
A Muraoka, M Suzuki, T Hamaguchi… - Science translational …, 2023 - science.org
Retrograde menstruation is a widely accepted cause of endometriosis. However, not all
women who experience retrograde menstruation develop endometriosis, and the …
women who experience retrograde menstruation develop endometriosis, and the …
Characterizing cis-regulatory elements using single-cell epigenomics
Cell type-specific gene expression patterns and dynamics during development or in disease
are controlled by cis-regulatory elements (CREs), such as promoters and enhancers …
are controlled by cis-regulatory elements (CREs), such as promoters and enhancers …
The sequences of 150,119 genomes in the UK Biobank
Detailed knowledge of how diversity in the sequence of the human genome affects
phenotypic diversity depends on a comprehensive and reliable characterization of both …
phenotypic diversity depends on a comprehensive and reliable characterization of both …