Terkko Navigator / Genome Research

Data structures based on k-mers for querying large collections of sequencing data sets [REVIEW]

Panoramic transcriptome analysis and functional screening of long noncoding RNAs in mouse spermatogenesis [RESEARCH]

Profiling neural editomes reveals a molecular mechanism to regulate RNA editing during development [RESEARCH]

Thermal stress accelerates Arabidopsis thaliana mutation rate [RESEARCH]

The origin and evolution of a distinct mechanism of transcription initiation in yeasts [RESEARCH]

Deep metagenomics examines the oral microbiome during dental caries, revealing novel taxa and co-occurrences with host molecules [RESEARCH]

DENT-seq for genome-wide strand-specific identification of DNA single-strand break sites with single-nucleotide resolution [METHOD]

Transcript assembly improves expression quantification of transposable elements in single-cell RNA-seq data [METHOD]

Predictive modeling of single-cell DNA methylome data enhances integration with transcriptome data [METHOD]

Greater strength of selection and higher proportion of beneficial amino acid changing mutations in humans compared with mice and Drosophila melanogaster [METHOD]

Generation of mouse conditional knockout alleles in one step using the i-GONAD method [METHOD]

MAnorm2 for quantitatively comparing groups of ChIP-seq samples [METHOD]

Gene expression imputation and cell-type deconvolution in human brain with spatiotemporal precision and its implications for brain-related disorders [RESOURCES]

Accessing NCBI data using the NCBI Sequence Viewer and Genome Data Viewer (GDV) [RESOURCES]

Complex mosaic structural variations in human fetal brains [RESEARCH]

Widespread intron retention impairs protein homeostasis in C9orf72 ALS brains [RESEARCH]

Sequence analysis in Bos taurus reveals pervasiveness of X-Y arms races in mammalian lineages [RESEARCH]

Tissue-specific patterns of regulatory changes underlying gene expression differences among Ficedula flycatchers and their naturally occurring F1 hybrids [RESEARCH]

Loss of histone H3.3 results in DNA replication defects and altered origin dynamics in C. elegans [RESEARCH]

Distinctive regulatory architectures of germline-active and somatic genes in C. elegans [RESEARCH]

Global regulatory features of alternative splicing across tissues and within the nervous system of C. elegans [RESEARCH]

Sequencing identifies multiple early introductions of SARS-CoV-2 to the New York City region [RESEARCH]

Ultrafast and scalable variant annotation and prioritization with big functional genomics data [METHOD]

Identifying chromosomal subpopulations based on their recombination histories advances the study of the genetic basis of phenotypic traits [METHOD]

Cross-species analysis of enhancer logic using deep learning [METHOD]

Predicting unrecognized enhancer-mediated genome topology by an ensemble machine learning model [METHOD]

Pooled protein tagging, cellular imaging, and in situ sequencing for monitoring drug action in real time [METHOD]

Corrigendum: Transcriptome evidence reveals enhanced autophagy-lysosomal function in centenarians [CORRIGENDUM]

Reviewer Index, Volume 30, 2020 [REVIEWER INDEX]

V(DD)J recombination is an important and evolutionarily conserved mechanism for generating antibodies with unusually long CDR3s [RESEARCH]

Transposon expression in the Drosophila brain is driven by neighboring genes and diversifies the neural transcriptome [RESEARCH]

Active retrotransposons help maintain pericentromeric heterochromatin required for faithful cell division [RESEARCH]

Large tandem duplications affect gene expression, 3D organization, and plant-pathogen response [RESEARCH]

A systems genetics approach reveals environment-dependent associations between SNPs, protein coexpression, and drought-related traits in maize [RESEARCH]

An optogenetic switch for the Set2 methyltransferase provides evidence for transcription-dependent and -independent dynamics of H3K36 methylation [RESEARCH]

Whole-genome analysis of noncoding genetic variations identifies multiscale regulatory element perturbations associated with Hirschsprung disease [METHOD]

Agonist-induced functional analysis and cell sorting associated with single-cell transcriptomics characterizes cell subtypes in normal and pathological brain [METHOD]

Identification of bona fide B2 SINE retrotransposon transcription through single-nucleus RNA-seq of the mouse hippocampus [METHOD]

PRAM: a novel pooling approach for discovering intergenic transcripts from large-scale RNA sequencing experiments [METHOD]

Accurate reconstruction of bacterial pan- and core genomes with PEPPAN [METHOD]

Single-cell strand sequencing of a macaque genome reveals multiple nested inversions and breakpoint reuse during primate evolution [RESOURCES]

Sex differences in human adipose tissue gene expression and genetic regulation involve adipogenesis [RESEARCH]

Distinct contributions of DNA methylation and histone acetylation to the genomic occupancy of transcription factors [RESEARCH]

HDA6-dependent histone deacetylation regulates mRNA polyadenylation in Arabidopsis [RESEARCH]

Prevalence of alternative AUG and non-AUG translation initiators and their regulatory effects across plants [RESEARCH]

Mapping genome variation of SARS-CoV-2 worldwide highlights the impact of COVID-19 super-spreaders [RESEARCH]

Reconstructing double-stranded DNA fragments on a single-molecule level reveals patterns of degradation in ancient samples [METHOD]

Pooled analysis of radiation hybrids identifies loci for growth and drug action in mammalian cells [METHOD]

Identification of determinants of differential chromatin accessibility through a massively parallel genome-integrated reporter assay [METHOD]

Metabolic labeling of RNA using multiple ribonucleoside analogs enables the simultaneous evaluation of RNA synthesis and degradation rates [METHOD]