Single-cell 3D genome structure reveals distinct human pluripotent states
Authors (first, second and last of 8)
Volume 25, issue 1, December 2024
122 articles in this issue
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EmptyDropsMultiome discriminates real cells from background in single-cell multiomics assays
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A novel approach to exploring the dark genome and its application to mapping of the vertebrate virus fossil record
Authors (first, second and last of 9)
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SCIPAC: quantitative estimation of cell-phenotype associations
Authors (first, second and last of 4)
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Commonly used software tools produce conflicting and overly-optimistic AUPRC values
Authors (first, second and last of 11)
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Disruption of maternal vascular remodeling by a fetal endoretrovirus-derived gene in preeclampsia
Authors (first, second and last of 20)
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Mapping and functional characterization of structural variation in 1060 pig genomes
Authors (first, second and last of 23)
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Genome-wide distribution of 5-hydroxymethyluracil and chromatin accessibility in the Breviolum minutum genome
Authors (first, second and last of 6)
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Differences in 5'untranslated regions highlight the importance of translational regulation of dosage sensitive genes
Authors (first, second and last of 13)
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Disruption of metazoan gene regulatory networks in cancer alters the balance of co-expression between genes of unicellular and multicellular origins
Authors (first, second and last of 8)
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hadge: a comprehensive pipeline for donor deconvolution in single-cell studies
Authors (first, second and last of 12)
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Enhancing prime editor flexibility with coiled-coil heterodimers
Authors (first, second and last of 12)
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NextDenovo: an efficient error correction and accurate assembly tool for noisy long reads
Authors (first, second and last of 15)
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Ki-67 is necessary during DNA replication for fork protection and genome stability
Authors (first, second and last of 6)
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Single Cell Atlas: a single-cell multi-omics human cell encyclopedia
Authors (first, second and last of 14)
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RBM22 regulates RNA polymerase II 5′ pausing, elongation rate, and termination by coordinating 7SK-P-TEFb complex and SPT5
Authors (first, second and last of 17)
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Measuring, visualizing, and diagnosing reference bias with biastools
Authors (first, second and last of 4)
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Minimum information and guidelines for reporting a multiplexed assay of variant effect
Authors (first, second and last of 14)
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Library size confounds biology in spatial transcriptomics data
Authors (first, second and last of 16)
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Characterizing glucokinase variant mechanisms using a multiplexed abundance assay
Authors (first, second and last of 7)
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Benchmarking bioinformatic virus identification tools using real-world metagenomic data across biomes
Authors (first, second and last of 6)
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Machine-learning analysis reveals an important role for negative selection in shaping cancer aneuploidy landscapes
Authors (first, second and last of 6)
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Demuxafy: improvement in droplet assignment by integrating multiple single-cell demultiplexing and doublet detection methods
Authors (first, second and last of 13)
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Scoary2: rapid association of phenotypic multi-omics data with microbial pan-genomes
Authors (first, second and last of 10)
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Evaluating and improving the representation of bacterial contents in long-read metagenome assemblies
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scifi-ATAC-seq: massive-scale single-cell chromatin accessibility sequencing using combinatorial fluidic indexing
Authors (first, second and last of 4)
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SuperCellCyto: enabling efficient analysis of large scale cytometry datasets
Authors (first, second and last of 5)
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PMF-GRN: a variational inference approach to single-cell gene regulatory network inference using probabilistic matrix factorization
Authors (first, second and last of 4)
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Increased DNA methylation contributes to the early ripening of pear fruits during domestication and improvement
Authors (first, second and last of 12)
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Response to: “Merit of integrating in situ transcriptomics and anatomical information for cell annotation and lineage construction in single-cell analyses of Populus”
Authors (first, second and last of 7)
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Merit of integrating in situ transcriptomics and anatomical information for cell annotation and lineage construction in single-cell analyses of Populus
Authors (first, second and last of 12)
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DNA methylation remodeling and the functional implication during male gametogenesis in rice
Authors (first, second and last of 13)
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Species-aware DNA language models capture regulatory elements and their evolution
Authors (first, second and last of 6)
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Bento: a toolkit for subcellular analysis of spatial transcriptomics data
Authors (first, second and last of 14)
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FixNCut: single-cell genomics through reversible tissue fixation and dissociation
Authors (first, second and last of 28)
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Divergent composition and transposon-silencing activity of small RNAs in mammalian oocytes
Authors (first, second and last of 7)
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txci-ATAC-seq: a massive-scale single-cell technique to profile chromatin accessibility
Authors (first, second and last of 9)
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Depletion of lamins B1 and B2 promotes chromatin mobility and induces differential gene expression by a mesoscale-motion-dependent mechanism
Authors (first, second and last of 17)
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Next-Gen GWAS: full 2D epistatic interaction maps retrieve part of missing heritability and improve phenotypic prediction
Authors (first, second and last of 8)
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Cataloging the phylogenetic diversity of human bladder bacterial isolates
Authors (first, second and last of 10)
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