• By Genome Biology   -   Oct 4, 2022

    MBD5 AND MBD6 STABILIZE THE BAP1 COMPLEX AND PROMOTE BAP1-DEPENDENT CANCER

    BRCA1-associated protein 1 is an ubiquitin carboxy-terminal hydrolase, which forms a multi-protein complex with different epigenetic...

    Protein, Cancer, Research
  • By Genome Biology   -   Oct 4, 2022

    FALSE GENE AND CHROMOSOME LOSSES IN GENOME ASSEMBLIES CAUSED BY GC CONTENT VARIATION AND REPEATS

    Many short-read genome assemblies have been found to be incomplete and contain mis-assemblies. The Vertebrate Genomes Project has been...

    Genomics, Genes, Genome, Chromosomes, Gene, Research
  • By Genome Biology   -   Oct 4, 2022

    WIDESPREAD FALSE GENE GAINS CAUSED BY DUPLICATION ERRORS IN GENOME ASSEMBLIES

    False duplications in genome assemblies lead to false biological conclusions. We quantified false duplications in popularly used previous...

    Biological, Gene, Genes, Genome, Biologic, Genomics, Biology, Research
  • By Genome Biology   -   Oct 4, 2022

    SINGLE-CELL MULTI-OMICS PROFILING LINKS DYNAMIC DNA METHYLATION TO CELL FATE DECISIONS DURING MOUSE EARLY ORGANOGENESIS

    Perturbation of DNA methyltransferases and of the active DNA demethylation pathway via ten-eleven translocation methylcytosine dioxygenases...

    DNA, Research
  • By Genome Biology   -   Oct 4, 2022

    WHOLE-GENOME SEQUENCING REVEALS THE GENETIC MECHANISMS OF DOMESTICATION IN CLASSICAL INBRED MICE

    The laboratory mouse was domesticated from the wild house mouse. Understanding the genetics underlying domestication in laboratory...

    Genetics, Genomics, Genome, Research
  • By Genome Biology   -   Oct 4, 2022

    REPEATED TURNOVERS KEEP SEX CHROMOSOMES YOUNG IN WILLOWS

    Salicaceae species have diverse sex determination systems and frequent sex chromosome turnovers. However, compared with poplars, the...

    Chromosomes, Research
  • By Genome Biology   -   Oct 4, 2022

    GENOMICS AND EPIGENETICS GUIDED IDENTIFICATION OF TISSUE-SPECIFIC GENOMIC SAFE HARBORS

    Genomic safe harbors are regions of the genome that can maintain transgene expression without disrupting the function of host cells....

    Tissue, Genomics, Genome, Transgenic, Research
  • By Genome Biology   -   Oct 4, 2022

    DNA METHYLATION UNDERPINS THE EPIGENOMIC LANDSCAPE REGULATING GENOME TRANSCRIPTION IN ARABIDOPSIS

    It is challenging to determine the effect of DNA methylation on the epigenetic landscape and the function in higher organisms due to...

    DNA, Genome, Genomics, Research
  • By Genome Biology   -   Oct 4, 2022

    AUTHOR CORRECTION: TOWARDS ACCURATE AND RELIABLE RESOLUTION OF STRUCTURAL VARIANTS FOR CLINICAL DIAGNOSIS

    Clinical, Author Correction
  • By Genome Biology   -   Oct 4, 2022

    GENETIC REGULATION OF RNA SPLICING IN HUMAN PANCREATIC ISLETS

    Non-coding genetic variants that influence gene transcription in pancreatic islets play a major role in the susceptibility to type...

    Genetics, Gene, RNA, Genes, Research
  • By Genome Biology   -   Oct 4, 2022

    COMPREHENSIVE AND SCALABLE QUANTIFICATION OF SPLICING DIFFERENCES WITH MNTJULIP

    Tools for differential splicing detection have failed to provide a comprehensive and consistent view of splicing variation. We present...

    Method
  • By Genome Biology   -   Oct 4, 2022

    TESTING THE GENERALIZABILITY OF ANCESTRY-SPECIFIC POLYGENIC RISK SCORES TO PREDICT PROSTATE CANCER IN SUB-SAHARAN AFRICA

    Genome-wide association studies do not always replicate well across populations, limiting the generalizability of polygenic risk scores....

    Genomics, Cancer, Genome, Research
  • By Genome Biology   -   Oct 4, 2022

    COMPARATIVE ANALYSES OF VERTEBRATE CPEB PROTEINS DEFINE TWO SUBFAMILIES WITH COORDINATED YET DISTINCT FUNCTIONS IN POST-TRANSCRIPTIONAL GENE REGULATION

    Vertebrate CPEB proteins bind mRNAs at cytoplasmic polyadenylation elements in their 3′ UTRs, leading to cytoplasmic changes in their...

    Gene, Genes, Protein, Research
  • By Genome Biology   -   Oct 4, 2022

    CONTROL OF IMMEDIATE EARLY GENE EXPRESSION BY CPEB4-REPRESSOR COMPLEX-MEDIATED MRNA DEGRADATION

    Cytoplasmic polyadenylation element-binding protein 4 is known to associate with cytoplasmic polyadenylation elements located in the...

    Genes, Protein, Gene, Research
  • By Genome Biology   -   Oct 4, 2022

    POSITIONAL MOTIF ANALYSIS REVEALS THE EXTENT OF SPECIFICITY OF PROTEIN-RNA INTERACTIONS OBSERVED BY CLIP

    Crosslinking and immunoprecipitation is a method used to identify in vivo RNA-protein binding sites on a transcriptome-wide scale....

    RNA, Protein, Research
  • By Genome Biology   -   Oct 4, 2022

    SCALABLE, ULTRA-FAST, AND LOW-MEMORY CONSTRUCTION OF COMPACTED DE BRUIJN GRAPHS WITH CUTTLEFISH 2

    The de Bruijn graph is a key data structure in modern computational genomics, and construction of its compacted variant resides upstream...

    Genomics, Computers, Genome, Method
  • By Genome Biology   -   Oct 4, 2022

    GENOMIC INSIGHTS INTO THE EVOLUTIONARY HISTORY AND DIVERSIFICATION OF BULB TRAITS IN GARLIC

    Garlic is an entirely sterile crop with important value as a vegetable, condiment, and medicine. However, the evolutionary history...

    Genomics, Genome, Medicine, Research
  • By Genome Biology   -   Oct 4, 2022

    ABNORMAL MOLECULAR SIGNATURES OF INFLAMMATION, ENERGY METABOLISM, AND VESICLE BIOLOGY IN HUMAN HUNTINGTON DISEASE PERIPHERAL TISSUES

    A major challenge in neurodegenerative diseases concerns identifying biological disease signatures that track with disease progression...

    Biological, Clinical, Biologic, Tissue, Energy, Biology, Research
  • By Genome Biology   -   Oct 4, 2022

    THE HISTONE MODIFICATION READER ZCWPW1 PROMOTES DOUBLE-STRAND BREAK REPAIR BY REGULATING CROSS-TALK OF HISTONE MODIFICATIONS AND CHROMATIN ACCESSIBILITY AT MEIOTIC HOTSPOTS

    The PRDM9-dependent histone methylation H3K4me3 and H3K36me3 function in assuring accurate homologous recombination at recombination...

    Research
  • By Genome Biology   -   Oct 4, 2022

    INTEGRATING TEMPORAL SINGLE-CELL GENE EXPRESSION MODALITIES FOR TRAJECTORY INFERENCE AND DISEASE PREDICTION

    Current methods for analyzing single-cell datasets have relied primarily on static gene expression measurements to characterize the...

    Genes, Gene, Research