Terkko Navigator / Genome Research

Chromatin activation as a unifying principle underlying pathogenic mechanisms in multiple myeloma [RESEARCH]

Somatic structural variation targets neurodevelopmental genes and identifies SHANK2 as a tumor suppressor in neuroblastoma [RESEARCH]

Long-read sequencing for non-small-cell lung cancer genomes [RESEARCH]

Comprehensive analysis of structural variants in breast cancer genomes using single-molecule sequencing [RESEARCH]

Reconstruction of clone- and haplotype-specific cancer genome karyotypes from bulk tumor samples [METHOD]

HiCanu: accurate assembly of segmental duplications, satellites, and allelic variants from high-fidelity long reads [METHOD]

Background-suppressed live visualization of genomic loci with an improved CRISPR system based on a split fluorophore [METHOD]

High-throughput single-cell functional elucidation of neurodevelopmental disease-associated genes reveals convergent mechanisms altering neuronal differentiation [METHOD]

Native molecule sequencing by nano-ID reveals synthesis and stability of RNA isoforms [METHOD]

Molecular barcoding of native RNAs using nanopore sequencing and deep learning [METHOD]

High precision Neisseria gonorrhoeae variant and antimicrobial resistance calling from metagenomic Nanopore sequencing [METHOD]

The Nubeam reference-free approach to analyze metagenomic sequencing reads [METHOD]

Corrigendum: 3' UTR lengthening as a novel mechanism in regulating cellular senescence [CORRIGENDUM]

Corrigendum: Functional annotation of human long noncoding RNAs via molecular phenotyping [CORRIGENDUM]

LCM-seq reveals unique transcriptional adaptation mechanisms of resistant neurons and identifies protective pathways in spinal muscular atrophy [RESEARCH]

Diploid genome architecture revealed by multi-omic data of hybrid mice [RESEARCH]

ADAR-deficiency perturbs the global splicing landscape in mouse tissues [RESEARCH]

PR-DUB maintains the expression of critical genes through FOXK1/2- and ASXL1/2/3-dependent recruitment to chromatin and H2AK119ub1 deubiquitination [RESEARCH]

Xylem systems genetics analysis reveals a key regulator of lignin biosynthesis in Populus deltoides [RESEARCH]

Detection and characterization of jagged ends of double-stranded DNA in plasma [METHOD]

Detection of simple and complex de novo mutations with multiple reference sequences [METHOD]

A pedigree-based prediction model identifies carriers of deleterious de novo mutations in families with Li-Fraumeni syndrome [METHOD]

TransBorrow: genome-guided transcriptome assembly by borrowing assemblies from different assemblers [METHOD]

RNA-Bloom enables reference-free and reference-guided sequence assembly for single-cell transcriptomes [METHOD]

SNP-based quantitative deconvolution of biological mixtures: application to the detection of cows with subclinical mastitis by whole-genome sequencing of tank milk [METHOD]

LEMMI: a continuous benchmarking platform for metagenomics classifiers [RESOURCES]

Dissecting the regulatory activity and sequence content of loci with exceptional numbers of transcription factor associations [RESEARCH]

Comparative transcriptomics of primary cells in vertebrates [RESEARCH]

Binding specificities of human RNA-binding proteins toward structured and linear RNA sequences [RESEARCH]

Translation initiation downstream from annotated start codons in human mRNAs coevolves with the Kozak context [RESEARCH]

Transcriptome-wide sites of collided ribosomes reveal principles of translational pausing [RESEARCH]

Independent evolution of transcript abundance and gene regulatory dynamics [RESEARCH]

System-wide analyses of the fission yeast poly(A)+ RNA interactome reveal insights into organization and function of RNA-protein complexes [METHOD]

Parallel bimodal single-cell sequencing of transcriptome and chromatin accessibility [METHOD]

TRACE: transcription factor footprinting using chromatin accessibility data and DNA sequence [METHOD]

A limited set of transcriptional programs define major cell types [RESOURCES]

Functional annotation of human long noncoding RNAs via molecular phenotyping [RESOURCES]

Recounting the FANTOM CAGE-Associated Transcriptome [RESOURCES]

Characterization of colibactin-associated mutational signature in an Asian oral squamous cell carcinoma and in other mucosal tumor types [RESEARCH]

Single-cell analysis of human embryos reveals diverse patterns of aneuploidy and mosaicism [RESEARCH]

Paternal age in rhesus macaques is positively associated with germline mutation accumulation but not with measures of offspring sociability [RESEARCH]

Coexpression enrichment analysis at the single-cell level reveals convergent defects in neural progenitor cells and their cell-type transitions in neurodevelopmental disorders [RESEARCH]

Untangling the effects of cellular composition on coexpression analysis [RESEARCH]

Quantitative analysis of Y-Chromosome gene expression across 36 human tissues [RESEARCH]

The evolution of sex-biased gene expression in the Drosophila brain [RESEARCH]

A long-read RNA-seq approach to identify novel transcripts of very large genes [METHOD]

Ultralow-input single-tube linked-read library method enables short-read second-generation sequencing systems to routinely generate highly accurate and economical long-range sequencing information [METHOD]

Simple and efficient profiling of transcription initiation and transcript levels with STRIPE-seq [METHOD]

Dynamic transcriptional and chromatin accessibility landscape of medaka embryogenesis [RESOURCES]

Corrigendum: Human auditory ossicles as an alternative optimal source of ancient DNA [CORRIGENDUM]