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  1. Jul 2021
  2. academic.oup.com academic.oup.com
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      DOI: 10.1093/gigascience/giz036

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      DOI: 10.1093/gigascience/gix115

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    nature.com/articles/s41586-018-0845-0 
  5. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
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    ncbi.nlm.nih.gov/pmc/articles/PMC5751039/
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      DOI: 10.1093/gigascience/gix128

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    academic.oup.com/gigascience/article/7/2/gix128/4750781
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    Sex-Biased Gene Expression and Dosage Compensation on the Artemia franciscana Z-Chromosome
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    1. scibot 28 Jul 2021
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    PI3K Inhibition Activates SGK1 via a Feedback Loop to Promote Chromatin-Based Regulation of ER-Dependent Gene Expression
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    RNA Polymerase II CTD Tyrosine 1 Is Required for Efficient Termination by the Nrd1-Nab3-Sen1 Pathway
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    1. scibot 28 Jul 2021
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    sciencedirect.com/science/article/pii/S1097276518310323
  10. currentprotocols.onlinelibrary.wiley.com currentprotocols.onlinelibrary.wiley.com
    High‐Resolution Chromatin Profiling Using CUT&RUN
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      DOI: 10.1002/cpmb.85

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  12. europepmc.org europepmc.org
    A map of human PRDM9 binding provides evidence for novel behaviors of PRDM9 and other zinc-finger proteins in meiosis.
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    1. scibot 28 Jul 2021
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      DOI: 10.7554/eLife.28383

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      DOI: 10.7554/eLife.28383

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    europepmc.org/articles/PMC5705219/
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      DOI: 10.1002/cne.24282

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    Human biallelic MFN2 mutations induce mitochondrial dysfunction, upper body adipose hyperplasia, and suppression of leptin expression
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    1. scibot 28 Jul 2021
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      DOI: 10.7554/eLife.23813

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    Gain of CTCF-Anchored Chromatin Loops Marks the Exit from Naive Pluripotency
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    sciencedirect.com/science/article/pii/S2405471218303892
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    Deregulated Expression of Mammalian lncRNA through Loss of SPT6 Induces R-Loop Formation, Replication Stress, and Cellular Senescence
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    sciencedirect.com/science/article/pii/S1097276518308438
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    Spatiotemporal m(i)RNA Architecture and 3′ UTR Regulation in the C. elegans Germline
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    Merkel Cells Activate Sensory Neural Pathways through Adrenergic Synapses
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    sciencedirect.com/science/article/pii/S0896627318309425
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    MYC Protein Interactome Profiling Reveals Functionally Distinct Regions that Cooperate to Drive Tumorigenesis
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    Exon Junction Complex Shapes the Transcriptome by Repressing Recursive Splicing
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    sciencedirect.com/science/article/pii/S1097276518308323
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    Distinct Regulation of Th17 and Th1 Cell Differentiation by Glutaminase-Dependent Metabolism
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    Defining T Cell States Associated with Response to Checkpoint Immunotherapy in Melanoma
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    N6-methyladenine DNA Modification in Glioblastoma
    1
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  24. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    BALDR: a computational pipeline for paired heavy and light chain immunoglobulin reconstruction in single-cell RNA-seq data
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      DOI: 10.1186/s13073-018-0528-3

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    RNA Binding to CBP Stimulates Histone Acetylation and Transcription
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    sciencedirect.com/science/article/pii/S0092867416317366
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    Ezh2 and Runx1 Mutations Collaborate to Initiate Lympho-Myeloid Leukemia in Early Thymic Progenitors
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    sciencedirect.com/science/article/pii/S1535610818300060
  27. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
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      DOI: 10.1093/gigascience/gix112

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    ncbi.nlm.nih.gov/pmc/articles/PMC5751067/
  28. elifesciences.org elifesciences.org
    Epimutations are associated with CHROMOMETHYLASE 3-induced de novo DNA methylation
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      DOI: 10.7554/eLife.47891

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    elifesciences.org/articles/47891
  29. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    A molecular portrait of maternal sepsis from Byzantine Troy
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      DOI: 10.7554/eLife.20983

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      DOI: 10.7554/eLife.20983

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  30. onlinelibrary.wiley.com onlinelibrary.wiley.com
    Transcriptome profiling of developing photoreceptor subtypes reveals candidate genes involved in avian photoreceptor diversification
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      DOI: 10.1002/cne.23702

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    onlinelibrary.wiley.com/doi/10.1002/cne.23702/full
  31. www.sciencedirect.com www.sciencedirect.com
    Targeted protein degradation reveals a direct role of SPT6 in RNAPII elongation and termination
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      DOI: 10.1016/j.molcel.2021.06.016

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    Patient-derived iPSC-cerebral organoid modeling of the 17q11.2 microdeletion syndrome establishes CRLF3 as a critical regulator of neurogenesis
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      DOI: 10.1016/j.celrep.2021.109315

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  33. Jun 2021
  34. www.sciencedirect.com www.sciencedirect.com
    Pharmacologic modulation of RNA splicing enhances anti-tumor immunity
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      DOI: 10.1016/j.cell.2021.05.038

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    A drastic shift in the energetic landscape of toothed whale sperm cells
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      DOI: 10.1016/j.cub.2021.05.062

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    Protocol for using heterologous spike-ins to normalize for technical variation in chromatin immunoprecipitation
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      DOI: 10.1016/j.xpro.2021.100609

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    sciencedirect.com/science/article/pii/S2666166721003166
  37. elifesciences.org elifesciences.org
    SORBS2 is a genetic factor contributing to cardiac malformation of 4q deletion syndrome patients
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      DOI: 10.7554/eLife.67481

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    elifesciences.org/articles/67481
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    Sublayer- and cell-type-specific neurodegenerative transcriptional trajectories in hippocampal sclerosis
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      DOI: 10.1016/j.celrep.2021.109229

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  39. May 2021
  40. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Two high-quality de novo genomes from single ethanol-preserved specimens of tiny metazoans (Collembola)
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      DOI: 10.1093/gigascience/giab035

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    ncbi.nlm.nih.gov/pmc/articles/PMC8138834/
  41. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    ZC3H4 restricts non-coding transcription in human cells
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      DOI: 10.7554/eLife.67305

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    ncbi.nlm.nih.gov/pmc/articles/PMC8137146/
  42. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Integrated sensing of host stresses by inhibition of a cytoplasmic two-component system controls M. tuberculosis acute lung infection
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    1. scibot 21 May 2021
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      DOI: 10.7554/eLife.65351

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    The Meishan pig genome reveals structural variation mediated gene expression and phenotypic divergence underlying Asian pig domestication
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    Cell of Origin Influences Pancreatic Cancer Subtype
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    Alterations in BAP1 are Associated with Cisplatin Resistance Through Inhibition of Apoptosis in Malignant Pleural Mesothelioma (MPM).
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    Derivation of Intermediate Pluripotent Stem Cells Amenable to Primordial Germ Cell Specification
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    Adult Neural Stem Cells Are Alerted by Systemic Inflammation through TNF-α Receptor Signaling
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    Repetitive Elements Trigger RIG-I-like Receptor Signaling that Regulates the Emergence of Hematopoietic Stem and Progenitor Cells
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    A Prion-like Domain in Transcription Factor EBF1 Promotes Phase Separation and Enables B Cell Programming of Progenitor Chromatin
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    How to characterize a strain? Clonal heterogeneity in industrial Saccharomyces influences both phenotypes and heterogeneity in phenotypes
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    Chromatin Accessibility Dynamics and a Hierarchical Transcriptional Regulatory Network Structure for Plant Somatic Embryogenesis
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    Transcription factor chromatin profiling genome-wide using uliCUT&RUN in single cells and individual blastocysts
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    Nested association mapping reveals the genetic architecture of spike emergence and anthesis timing in intermediate wheatgrass
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  57. Apr 2021
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    Recording of DNA-binding events reveals the importance of a repurposed Candida albicans regulatory network for gut commensalism
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    5-hydroxymethylcytosine is dynamically regulated during forebrain organoid development and aberrantly altered in Alzheimer’s disease
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    Efficient RNA polymerase II pause release requires U2 snRNP function
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    A High-Resolution Map of Human Enhancer RNA Loci Characterizes Super-enhancer Activities in Cancer
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    Analysis of Brugada syndrome loci reveals that fine-mapping clustered GWAS hits enhances the annotation of disease-relevant variants
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    The genome of Tripterygium wilfordii and characterization of the celastrol biosynthesis pathway
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    A pan-cancer transcriptome analysis of exitron splicing identifies novel cancer driver genes and neoepitopes
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    Cellular mRNA triggers structural transformation of Ebola virus matrix protein VP40 to its essential regulatory form
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    Impact of chromatin context on Cas9-induced DNA double-strand break repair pathway balance
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    The SMC5/6 complex compacts and silences unintegrated HIV-1 DNA and is antagonized by Vpr
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    Evidence for additive and synergistic action of mammalian enhancers during cell fate determination
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    Transcriptional profiling reveals potential involvement of microvillous TRPM5-expressing cells in viral infection of the olfactory epithelium
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  70. Mar 2021
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    Genomic exploration of the targets of FOXL2 and ESR2 unveils their implication in cell migration, invasion, and adhesion
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    Global analysis of shared T cell specificities in human non-small cell lung cancer enables HLA inference and antigen discovery
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    Comparative analysis of 7 short-read sequencing platforms using the Korean Reference Genome: MGI and Illumina sequencing benchmark for whole-genome sequencing
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    New Insights Into Mitochondrial DNA Reconstruction and Variant Detection in Ancient Samples
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    Germline EGFR variants are over-represented in adolescents and young adults (AYA) with adrenocortical carcinoma
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  78. Feb 2021
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    The glucocorticoid receptor recruits the COMPASS complex to regulate inflammatory transcription at macrophage enhancers
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    Interferon-λ Mediates Non-redundant Front-Line Antiviral Protection against Influenza Virus Infection without Compromising Host Fitness
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    The corepressors GPS2 and SMRT control enhancer and silencer remodeling via eRNA transcription during inflammatory activation of macrophages
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    Quantitative Trait Locus Mapping and Identification of Candidate Genes Controlling Flowering Time in Brassica napus L.
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    Genomic diversity affects the accuracy of bacterial single-nucleotide polymorphism–calling pipelines
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    Multifaceted Hi-C benchmarking: what makes a difference in chromosome-scale genome scaffolding?
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    Pancreatic progenitor epigenome maps prioritize type 2 diabetes risk genes with roles in development
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    A microbial gene catalog of anaerobic digestion from full-scale biogas plants
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  87. Jan 2021
  88. link.springer.com link.springer.com
    The hard clam genome reveals massive expansion and diversification of inhibitors of apoptosis in Bivalvia
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  89. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Failures of nerve regeneration caused by aging or chronic denervation are rescued by restoring Schwann cell c-Jun
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  90. www.sciencedirect.com www.sciencedirect.com
    Protocol for assaying chromatin accessibility using ATAC-seq in plants
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    Re-expression of SMARCA4/BRG1 in small cell carcinoma of ovary, hypercalcemic type (SCCOHT) promotes an epithelial-like gene signature through an AP-1-dependent mechanism
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  92. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    A new duck genome reveals conserved and convergently evolved chromosome architectures of birds and mammals
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    Chromosome-level reference genome of the European wasp spider Argiope bruennichi: a resource for studies on range expansion and evolutionary adaptation
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  94. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Manipulation of the human tRNA pool reveals distinct tRNA sets that act in cellular proliferation or cell cycle arrest
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  95. Dec 2020
  96. www.cell.com www.cell.com
    Circadian VIPergic Neurons of the Suprachiasmatic Nuclei Sculpt the Sleep-Wake Cycle
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    Genome sequencing of deep-sea hydrothermal vent snails reveals adaptions to extreme environments
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    Lineage-Resolved Enhancer and Promoter Usage during a Time Course of Embryogenesis
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  99. pubmed.ncbi.nlm.nih.gov pubmed.ncbi.nlm.nih.gov
    Turnip mosaic virus in oilseed rape activates networks of sRNA-mediated interactions between viral and host genomes
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  100. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Single-cell multiomic profiling of human lungs reveals cell-type-specific and age-dynamic control of SARS-CoV2 host genes
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  101. Nov 2020
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    Three-Dimensional Human Alveolar Stem Cell Culture Models Reveal Infection Response to SARS-CoV-2
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  103. Oct 2020
  104. www.sciencedirect.com www.sciencedirect.com
    TARGET-Seq: A Protocol for High-Sensitivity Single-Cell Mutational Analysis and Parallel RNA Sequencing
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    Host-induced spermidine production in motile Pseudomonas aeruginosa triggers phagocytic uptake
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  106. Sep 2020
  107. www.sciencedirect.com www.sciencedirect.com
    Unbiased Identification of trans Regulators of ADAR and A-to-I RNA Editing
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  108. onlinelibrary.wiley.com onlinelibrary.wiley.com
    Changes in the transcriptional fingerprint of satellite glial cells following peripheral nerve injury
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  109. pubmed.ncbi.nlm.nih.gov pubmed.ncbi.nlm.nih.gov
    Construction of a chromosome-scale long-read reference genome assembly for potato
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  110. pubmed.ncbi.nlm.nih.gov pubmed.ncbi.nlm.nih.gov
    Long-read only assembly of Drechmeria coniospora genomes reveals widespread chromosome plasticity and illustrates the limitations of current nanopore methods
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    Binding of the Treslin-MTBP Complex to Specific Regions of the Human Genome Promotes the Initiation of DNA Replication
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    Recruitment of mRNAs to P granules by condensation with intrinsically-disordered proteins
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  113. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    ZCWPW1 is recruited to recombination hotspots by PRDM9 and is essential for meiotic double strand break repair
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  114. elifesciences.org elifesciences.org
    Umbilical cord blood-derived ILC1-like cells constitute a novel precursor for mature KIR+NKG2A- NK cells
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  115. academic.oup.com academic.oup.com
    Introgression of Eastern Chinese and Southern Chinese haplotypes contributes to the improvement of fertility and immunity in European modern pigs
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  116. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Cell-type diversity and regionalized gene expression in the planarian intestine
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  117. www.sciencedirect.com www.sciencedirect.com
    Functional and Genomic Variation between Human-Derived Isolates of Lachnospiraceae Reveals Inter- and Intra-Species Diversity
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  118. www.nature.com www.nature.com
    Lactate production by Staphylococcus aureus biofilm inhibits HDAC11 to reprogramme the host immune response during persistent infection
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      DOI: 10.1038/s41564-020-0756-3

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  119. academic.oup.com academic.oup.com
    Activin A determines steroid levels and composition in the fetal testis
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  120. www.mdpi.com www.mdpi.com
    Investigating Human Mitochondrial Genomes in Single Cells
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  121. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Aire-dependent genes undergo Clp1-mediated 3’UTR shortening associated with higher transcript stability in the thymus
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  122. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    A haplotype-resolved, de novo genome assembly for the wood tiger moth (Arctia plantaginis) through trio binning
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    Cell Type-Specific Intralocus Interactions Reveal Oligodendrocyte Mechanisms in MS
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  124. www.frontiersin.org www.frontiersin.org
    A Preliminary Study to Investigate the Genetic Background of Longevity Based on Whole-Genome Sequence Data of Two Methuselah Dogs
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    Draft Genome of the Asian Buffalo Leech Hirudinaria manillensis
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    Resolving the 3D Landscape of Transcription-Linked Mammalian Chromatin Folding
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    Imprinted Maternally Expressed microRNAs Antagonize Paternally Driven Gene Programs in Neurons
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    NuRD subunit CHD4 regulates super-enhancer accessibility in rhabdomyosarcoma and represents a general tumor dependency
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  129. elifesciences.org elifesciences.org
    Transposase-assisted tagmentation of RNA/DNA hybrid duplexes
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  130. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Global genome diversity of the Leishmania donovani complex
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    Genomic Rewiring of SOX2 Chromatin Interaction Network during Differentiation of ESCs to Postmitotic Neurons
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    C/EBPα and GATA-2 Mutations Induce Bilineage Acute Erythroid Leukemia through Transformation of a Neomorphic Neutrophil-Erythroid Progenitor
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    Large, three-generation human families reveal post-zygotic mosaicism and variability in germline mutation accumulation
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    Genome and population sequencing of a chromosome-level genome assembly of the Chinese tapertail anchovy ( Coilia nasus ) provides novel insights into migratory adaptation
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    Recurrent SMARCB1 Mutations Reveal a Nucleosome Acidic Patch Interaction Site That Potentiates mSWI/SNF Complex Chromatin Remodeling
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    Chromosomal-level reference genome of Chinese peacock butterfly ( Papilio bianor ) based on third-generation DNA sequencing and Hi-C analysis
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    Active and Repressed Chromatin Domains Exhibit Distinct Nucleosome Segregation during DNA Replication
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    Comparison of single-nucleotide variants identified by Illumina and Oxford Nanopore technologies in the context of a potential outbreak of Shiga toxin–producing Escherichia coli
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    Genome-Edited Triple-Recessive Mutation Alters Seed Dormancy in Wheat
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    High-quality Schistosoma haematobium genome achieved by single-molecule and long-range sequencing
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    Assembly of the 373k gene space of the polyploid sugarcane genome reveals reservoirs of functional diversity in the world's leading biomass crop
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    Identification and Analyses of Extra-Cranial and Cranial Rhabdoid Tumor Molecular Subgroups Reveal Tumors with Cytotoxic T Cell Infiltration
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    Chromosomal-level assembly of the blood clam, Scapharca ( Anadara ) broughtonii , using long sequence reads and Hi-C
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    Quantification of Differential Transcription Factor Activity and Multiomics-Based Classification into Activators and Repressors: diffTF
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    Chromosome‐level genome assembly of the razor clam Sinonovacula constricta (Lamarck, 1818)
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    RNA sequencing of isolated cell populations expressing human APOL1 G2 risk variant reveals molecular correlates of sickle cell nephropathy in zebrafish podocytes
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    Single-Cell RNA-Seq Reveals Developmental Origins and Ontogenetic Stability of Neurexin Alternative Splicing Profiles
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    Combinatorial action of NF–Y and TALE at embryonic enhancers defines distinct gene expression programs during zygotic genome activation in zebrafish
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    Yeast Sirtuin Family Members Maintain Transcription Homeostasis to Ensure Genome Stability
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    Oligodendrocyte Intrinsic miR-27a Controls Myelination and Remyelination
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    The Dynamics of Cytoplasmic mRNA Metabolism
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    Oncogenic Notch Promotes Long-Range Regulatory Interactions within Hyperconnected 3D Cliques
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    Common workflow language (CWL)-based software pipeline for de novo genome assembly from long- and short-read data
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    Distinct Immune Cell Populations Define Response to Anti-PD-1 Monotherapy and Anti-PD-1/Anti-CTLA-4 Combined Therapy
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    Maternal Ribosomes Are Sufficient for Tissue Diversification during Embryonic Development in C. elegans
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