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Oral microbiome brain axis and cognitive performance in older adults

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1. scibot 10 Apr 2025
  
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nature.com/articles/s44400-025-00004-4
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Intestinal secretory differentiation reflects niche-driven phenotypic and epigenetic plasticity of a common signal-responsive terminal cell

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  DOI: 10.1016/j.stem.2025.03.005
  
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sciencedirect.com/science/article/pii/S1934590925000955
Apr 2025
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Stratified Medicine Pediatrics: Cell-Free DNA and Serial Tumor Sequencing Identifies Subtype-Specific Cancer Evolution and Epigenetic States

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pmc.ncbi.nlm.nih.gov/articles/PMC11962403/
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Development and comparison of single FLT3-inhibitors to dual FLT3/TAF1-inhibitors as an anti-leukemic approach

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1. scibot 02 Apr 2025
  
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pmc.ncbi.nlm.nih.gov/articles/PMC11952222/
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A Checkpoint Reversal Receptor Mediates Bipartite Activation and Enhances CAR T-cell Function

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pmc.ncbi.nlm.nih.gov/articles/PMC11955954/
Mar 2025
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Seeded aggregation of TDP-43 induces its loss of function and reveals early pathological signatures

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1. scibot 29 Mar 2025
  
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  DOI: 10.1016/j.neuron.2025.03.008
  
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sciencedirect.com/science/article/pii/S0896627325001801
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Metallophilic marginal zone macrophages cross-prime CD8+ T cell-mediated protective immunity against blood-borne tumors

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  DOI: 10.1016/j.immuni.2025.02.027
  
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sciencedirect.com/science/article/pii/S1074761325000949
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Lineage contribution of the mesendoderm progenitors in the gastrulating mouse embryo

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1. scibot 29 Mar 2025
  
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  DOI: 10.1016/j.devcel.2025.02.015
  
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sciencedirect.com/science/article/pii/S1534580725001200
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Orchestration of pluripotent stem cell genome reactivation during mitotic exit

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1. scibot 28 Mar 2025
  
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  DOI: 10.1016/j.celrep.2025.115486
  
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sciencedirect.com/science/article/pii/S2211124725002578
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Characteristics and filtering of low-frequency artificial short deletion variations based on nanopore sequencing

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1. scibot 27 Mar 2025
  
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  DOI: 10.1093/gigascience/giaf018
  
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pmc.ncbi.nlm.nih.gov/articles/PMC11927395/
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Comparative analysis of Parkinson’s and inflammatory bowel disease gut microbiomes reveals shared butyrate-producing bacteria depletion

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1. scibot 23 Mar 2025
  
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  DOI: 10.1038/s41531-025-00894-4
  
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nature.com/articles/s41531-025-00894-4
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Multi-cohort cerebrospinal fluid proteomics identifies robust molecular signatures across the Alzheimer disease continuum

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1. scibot 20 Mar 2025
  
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  DOI: 10.1016/j.neuron.2025.02.014
  
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Dietary timing enhances exercise by modulating fat-muscle crosstalk via adipocyte AMPKα2 signaling

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1. scibot 20 Mar 2025
  
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  DOI: 10.1016/j.cmet.2025.02.007
  
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sciencedirect.com/science/article/pii/S1550413125000658
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Genome-wide mutagenesis identifies factors involved in MRSA vaginal colonization

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1. scibot 20 Mar 2025
  
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  DOI: 10.1016/j.celrep.2025.115421
  
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sciencedirect.com/science/article/pii/S2211124725001925
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Identification of early genes in the pathophysiology of fibrotic interstitial lung disease in a new model of pulmonary fibrosis

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1. scibot 14 Mar 2025
  
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  DOI: 10.1007/s00018-025-05620-0
  
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link.springer.com/article/10.1007/s00018-025-05620-0
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Translatome analysis reveals cellular network in DLK-dependent hippocampal glutamatergic neuron degeneration

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1. scibot 13 Mar 2025
  
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  DOI: 10.7554/eLife.101173
  
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pmc.ncbi.nlm.nih.gov/articles/PMC11896613/
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Lineage-Specific Class-A GPCR Dynamics Reflect Diverse Chemosensory Adaptations in Lophotrochozoa

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1. scibot 13 Mar 2025
  
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  DOI: 10.1093/molbev/msaf042
  
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pmc.ncbi.nlm.nih.gov/articles/PMC11886862/
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1-s2.0-S2589004225004274-main-html.html

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1. scibot 13 Mar 2025
  
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52.53.155.43/2f5ef07fa9d1fbe9a3aabe7390d1a8130ee9c564/1-s2.0-S2589004225004274-main-html.html
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LTA4H improves the tumor microenvironment and prevents HCC progression via targeting the HNRNPA1/LTBP1/TGF-β axis

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1. scibot 11 Mar 2025
  
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  DOI: 10.1016/j.xcrm.2025.102000
  
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sciencedirect.com/science/article/pii/S2666379125000734
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Sensory input, sex and function shape hypothalamic cell type development

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  DOI: 10.1038/s41586-025-08603-0
  
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nature.com/articles/s41586-025-08603-0
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Roux-en-Y gastric bypass-associated fecal tyramine promotes colon cancer risk via increased DNA damage, cell proliferation, and inflammation

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  DOI: 10.1186/s40168-025-02049-2
  
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link.springer.com/article/10.1186/s40168-025-02049-2
Feb 2025
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Fusion oncoproteins and cooperating mutations define disease phenotypes in NUP98-rearranged leukemia

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  DOI: 10.1101/2025.01.21.25320683
  
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pmc.ncbi.nlm.nih.gov/articles/PMC11838931/
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The telomere-to-telomere genome of flowering cherry (Prunus campanulata) reveals genomic evolution of the subgenus Cerasus

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pmc.ncbi.nlm.nih.gov/articles/PMC11843098/
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Pharmacological rescue of mutant p53 triggers spontaneous tumor regression via immune responses

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pmc.ncbi.nlm.nih.gov/articles/PMC11970324/
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Effect of MisMatch repair deficiency on metastasis occurrence in a syngeneic mouse model

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  DOI: 10.1016/j.neo.2025.101145
  
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sciencedirect.com/science/article/pii/S1476558625000247
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Inflammation mediated by gut microbiome alterations promotes lung cancer development and an immunosuppressed tumor microenvironment

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  DOI: 10.1158/2326-6066.CIR-24-0469
  
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aacrjournals.org/cancerimmunolres/article/12/12/1736/750301/Inflammation-Mediated-by-Gut-Microbiome
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MR1 gene and protein expression are enhanced by inhibition of the extracellular signal-regulated kinase ERK

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  DOI: 10.1158/2326-6066.CIR-24-0110
  
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aacrjournals.org/cancerimmunolres/article/12/10/1452/748716/MR1-Gene-and-Protein-Expression-Are-Enhanced-by
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An IgE antibody targeting HER2 identified by clonal selection restricts breast cancer growth via immune-stimulating activities

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  DOI: 10.1186/s13046-025-03319-5
  
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pmc.ncbi.nlm.nih.gov/articles/PMC11818027/
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Age‐associated metabolic and epigenetic barriers during direct reprogramming of mouse fibroblasts into induced cardiomyocytes

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  DOI: 10.1111/acel.14371
  
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pmc.ncbi.nlm.nih.gov/articles/PMC11822649/
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Differences in the prognostic role of age, extent of resection and tumor grade between astrocytoma IDHmt and oligodendroglioma: a single center cohort study

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  DOI: 10.1158/1078-0432.CCR-24-0901
  
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aacrjournals.org/clincancerres/article/30/17/3837/747269/Differences-in-the-Prognostic-Role-of-Age-Extent
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ccr-24-1722-html.html

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  DOI: 10.1158/1078-0432.ccr-24-1722
  
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52.53.155.43/0565d50b3d4bb71baffec2ebd1c6f9c1324624cf/ccr-24-1722-html.html
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Multiomics Profiling Distinguishes Sebaceous Carcinoma from Benign Sebaceous Neoplasms and Provides Insight into the Genetic Evolution of Sebaceous Carcinogenesis

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  DOI: 10.1158/1078-0432.CCR-24-1327
  
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aacrjournals.org/clincancerres/article/30/21/4887/749133/Multiomics-Profiling-Distinguishes-Sebaceous
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Hepatocellular Carcinoma Immune Microenvironment Analysis: A Comprehensive Assessment with Computational and Classical Pathology

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1. scibot 13 Feb 2025
  
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  DOI: 10.1158/1078-0432.CCR-24-0960
  
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aacrjournals.org/clincancerres/article/30/22/5105/749569/Hepatocellular-Carcinoma-Immune-Microenvironment
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Dynamic changes in gene expression of growing nonhuman primate antral follicles

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1. scibot 13 Feb 2025
  
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  DOI: 10.1152/physiolgenomics.00023.2024
  
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52.53.155.43/49f6611beaedd87b4aab143a7b7a3a4852bcab7a/vandevoort-et-al-2024-dynamic-changes-in-gene-expression-of-growing-nonhuman-primate-antral-follicles-html.html
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Unveiling early-life microbial colonization profile through characterizing low-biomass maternal-infant microbiomes by 2bRAD-M

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A chromosome-level, haplotype-resolved genome assembly and annotation for the Eurasian minnow (Leuciscidae: Phoxinus phoxinus) provide evidence of haplotype diversity

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Steatohepatitis-induced vascular niche alterations promote melanoma metastasis

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Gene expression responses of CF airway epithelial cells exposed to elexacaftor/tezacaftor/ivacaftor suggest benefits beyond improved CFTR channel function

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Integration of 168,000 samples reveals global patterns of the human gut microbiome

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The genome of the sapphire damselfish Chrysiptera cyanea: a new resource to support further investigation of the evolution of Pomacentrids

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ERK activation waves coordinate mechanical cell competition leading to collective elimination via extrusion of bacterially infected cells

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Phenotypic plasticity and increased infiltration of peripheral blood-derived TREM1+ mono-macrophages following radiotherapy in rectal cancer

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Validation of the Emotionally Congruent and Incongruent Face–Body Static Set (ECIFBSS)

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Low-pass nanopore sequencing for measurement of global methylation levels in plants

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JAK inhibition decreases the autoimmune burden in Down syndrome

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Nuclear respiratory factor-1 (NRF1) induction as a powerful strategy to deter mitochondrial dysfunction and senescence in mesenchymal stem cells

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FGFR2-RUNX2 activation: An unexplored therapeutic pathway in luminal breast cancer related to tumor progression

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Splenic fibroblasts control marginal zone B cell movement and function via two distinct Notch2-dependent regulatory programs

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Evaluation of intestinal biopsy tissue preservation methods to facilitate large-scale mucosal microbiota research

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Expanding GABAergic Neuronal Diversity in iPSC-Derived Disease Models

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A genome-wide nucleosome-resolution map of promoter-centered interactions in human cells corroborates the enhancer-promoter looping model

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Comprehensive genomic characterization of hematologic malignancies at a pediatric tertiary care center

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Personalized Medicine in Acromegaly: The ACROFAST Study

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The chromosome-level genome assembly of an endangered herb Bergenia scopulosa provides insights into local adaptation and genomic vulnerability under climate change

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Single-cell transcriptomics of vomeronasal neuroepithelium reveals a differential endoplasmic reticulum environment amongst neuronal subtypes

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Pan-Cancer Insights: A Study of Microbial Metabolite Receptors in Malignancy Dynamics

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Tubulin sequence divergence is associated with the use of distinct microtubule regulators

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Genomic Landscape of ctDNA and Real-World Outcomes in Advanced Endometrial Cancer

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Circulating Chromogranin A as a Surveillance Biomarker in Patients with Carcinoids—The CASPAR Study

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The telomere-to-telomere (T2T) genome provides insights into the evolution of specialized centromere sequences in sandalwood

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TCR-Engineered T Cells Directed against Ropporin-1 Constitute a Safe and Effective Treatment for Triple-Negative Breast Cancer

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Lurbinectedin sensitizes PD-L1 blockade therapy by activating STING-IFN signaling in small-cell lung cancer

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Age-Related ECM Stiffness Mediates TRAIL Activation in Muscle Stem Cell Differentiation

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Using parenclitic networks on phaeochromocytoma and paraganglioma tumours provides novel insights on global DNA methylation

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Evolutionary genomics of the emergence of brown algae as key components of coastal ecosystems

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NeuroVar: an open-source tool for the visualization of gene expression and variation data for biomarkers of neurological diseases

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HDAC1 fine-tunes Th17 polarization in vivo to restrain tissue damage in fungal infections

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Granulins rescue inflammation, lysosome dysfunction, lipofuscin, and neuropathology in a mouse model of progranulin deficiency

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Control of Murine Brown Adipocyte Development by GATA6

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Targeting Catechol-O-Methyltransferase Induces Mitochondrial Dysfunction and Enhances the Efficacy of Radiotherapy in Glioma

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Acute Lymphoblastic Leukemia with Myeloid Mutations Is a High-Risk Disease Associated with Clonal Hematopoiesis

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An in vitro approach reveals molecular mechanisms underlying endocrine disruptor-induced epimutagenesis

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Quiescence and aging of melanocyte stem cells and a novel association with PD-L1

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RNA sequencing and Immunohistochemistry Reveal ZFN7 as a Stronger Marker of Survival than Molecular Subtypes in G-CIMP–negative Glioblastoma

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Glioblastoma TCGA Mesenchymal and IGS 23 Tumors are Identifiable by IHC and have an Immune-phenotype Indicating a Potential Benefit from Immunotherapy

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A clinically effective model based on cell-free DNA methylation and low-dose CT for risk stratification of pulmonary nodules

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Circulating Tumor DNA Assessment for Treatment Monitoring Adds Value to PSA in Metastatic Castration Resistant Prostate Cancer

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Coagulation factor X promotes resistance to androgen-deprivation therapy in prostate cancer

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Tumour-associated mesenchymal stromal cells modulate macrophage phagocytosis in stromal-rich colorectal cancer via PD-1 signalling.

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Aberrant L-Fucose accumulation and increased core fucosylation are metabolic liabilities in mesenchymal glioblastoma

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Multiple direct and indirect roles of the Paf1 complex in transcription elongation, splicing, and histone modifications

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Inhibition of Aberrantly Overexpressed Polo-like Kinase 4 Is a Potential Effective Treatment for DNA Damage Repair–Deficient Uterine Leiomyosarcoma

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Inhibitory co-receptor Lag3 supports Foxp3+ regulatory T cell function by restraining Myc-dependent metabolic programming

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The Lactate Receptor GPR81 is a Mechanism of Leukemia-Associated Macrophage Polarization in the Bone Marrow Microenvironment

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Low-pass nanopore sequencing for measurement of global methylation levels in plants

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Released bacterial ATP shapes local and systemic inflammation during abdominal sepsis

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Transient Differentiation-State Plasticity Occurs During Acute Lymphoblastic Leukemia Initiation

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Dysfunctional BTN3A together with deregulated immune checkpoints and type I/II IFN dictate defective interplay between pDCs and γδ T cells in melanoma patients, which impacts clinical outcomes

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BRCA Status Dictates Wnt Responsiveness in Epithelial Ovarian Cancer

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Multi-omic analysis reveals VEGFR2, PI3K, and JNK mediate small molecule induction of human iPSC-derived cardiomyocyte proliferation

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The multi-level effect of chlorpyrifos during clownfish metamorphosis

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Anti-EGFR Antibody–Drug Conjugate Carrying an Inhibitor Targeting CDK Restricts Triple-Negative Breast Cancer Growth

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Transcriptomic characterization of dying hair cells in the avian cochlea

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Symmetrical Bispyridinium Compounds Act as Open Channel Blockers of Cation-Selective Ion Channels

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Single-mitochondrion sequencing uncovers distinct mutational patterns and heteroplasmy landscape in mouse astrocytes and neurons

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The V-ATPase/ATG16L1 axis is controlled by the V1H subunit

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Intrinsically disordered sequences can tune fungal growth and the cell cycle for specific temperatures

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The SRC family kinase inhibitor NXP900 demonstrates potent anti-tumor activity in squamous cell carcinomas

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Microglia rescue neurons from aggregate-induced neuronal dysfunction and death through tunneling nanotubes

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Multi-omics profiling to identify early plasma biomarkers in pre-diagnostic pancreatic ductal adenocarcinoma: a nested case-control study

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The annotation of GBA1 has been concealed by its protein-coding pseudogene GBAP1

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Evolutionary Dynamics of Lineage-Specific Class-A GPCR Subsets Reveal Widespread Chemosensory Roles and Adaptations in Lophotrochozoa

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Cerebrospinal fluid cfDNA sequencing for classification of central nervous system glioma

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ALDH1A3-acetaldehyde metabolism potentiates transcriptional heterogeneity in melanoma

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Synaptic plasticity in human thalamocortical assembloids

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PathoGFAIR: a collection of FAIR and adaptable (meta)genomics workflows for (foodborne) pathogens detection and tracking

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PTP4A2 Promotes Glioblastoma Progression and Macrophage Polarization under Microenvironmental Pressure

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Integrating Multisector Molecular Characterization into Personalized Peptide Vaccine Design for Patients with Newly Diagnosed Glioblastoma

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Single-Mitochondrion Sequencing Uncovers Distinct Mutational Patterns and Heteroplasmy Landscape in Mouse Astrocytes and Neurons

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The annotation of GBA1 has been concealed by its protein-coding pseudogene GBAP1

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Teriflunomide/leflunomide synergize with chemotherapeutics by decreasing mitochondrial fragmentation via DRP1 in SCLC

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Abnormally Enhanced Midfrontal Theta-Band Activity During Response Monitoring in Youth with Obsessive-Compulsive Disorder

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Measurement of ctDNA Tumor Fraction Identifies Informative Negative Liquid Biopsy Results and Informs Value of Tissue Confirmation

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Individual longitudinal changes in DNA-methylome identify signatures of early-life adversity and correlate with later outcome.

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Heterochromatic 3D genome organization is directed by HP1a- and H3K9-dependent and independent mechanisms

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RAS/RAF co-mutation and ERBB2 copy number modulates HER2 heterogeneity and responsiveness to HER2-directed therapy in colorectal cancer

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ccr-23-2907-html.html

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Pharmacologic Targeting of Histone H3K27 Acetylation/BRD4-dependent Induction of ALDH1A3 for Early-phase Drug Tolerance of Gastric Cancer

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Factors associated with behavioral euthanasia in pet dogs

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Metabolomics for early pancreatic cancer detection in plasma samples from a Swedish prospective population-based biobank

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Integrative molecular analyses of the MD Anderson prostate cancer patient-derived xenograft (MDA PCa PDX) series

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Oncogenic drivers and therapeutic vulnerabilities in KRAS wild-type pancreatic cancer

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Transcription factor dynamics, oscillation, and functions in human enteroendocrine cell differentiation

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A phosphate transporter in VIPergic neurons of the suprachiasmatic nucleus gates locomotor activity during the light/dark transition in mice

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Neurotransmitter classification from electron microscopy images at synaptic sites in Drosophila melanogaster

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RAD21 deficiency drives corneal to scleral differentiation fate switching via upregulating WNT9B

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VitTCR: A deep learning method for peptide recognition prediction

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Rietz+et+al_2024_Physiol._Meas._10.1088_1361-6579_ad450d-html.html

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Proliferative History Is a Novel Driver of Clinical Outcome in Splenic Marginal Zone Lymphoma

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Variant-to-function analysis of the childhood obesity chr12q13 locus implicates rs7132908 as a causal variant within the 3′ UTR of FAIM2

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Rice bundle sheath cell shape is regulated by the timing of light exposure during leaf development

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Identification of hypoxic macrophages in glioblastoma with therapeutic potential for vasculature normalization

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Neuronal activity promotes glioma progression by inducing proneural-to-mesenchymal transition in glioma stem cells

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Spatial and temporal mapping of breast cancer lung metastases identify TREM2 macrophages as regulators of the metastatic boundary

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Patterns of evidence-based care for the diagnosis, staging, and first-line treatment of breast cancer by race-ethnicity: a SEER-Medicare study

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Spectral Slope and Lempel–Ziv Complexity as Robust Markers of Brain States during Sleep and Wakefulness

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Inflammatory, metabolic and sex-dependent gene-regulatory dynamics of microglia and macrophages in neonatal hippocampus after hypoxia-ischemia

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Single cell transcriptome analysis of the THY-Tau22 mouse model of Alzheimer’s disease reveals sex-dependent dysregulations

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HIV-2 MEDIATED EFFECTS ON TARGET AND BYSTANDER CELLS INDUCE PLASMA PROTEOME REMODELLING

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Systems immunology of transcriptional responses to viral infection identifies conserved antiviral pathways across macaques and humans

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Metabolic and age-associated epigenetic barriers during direct reprogramming of mouse fibroblasts into induced cardiomyocytes

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Combinatorial selective ER-phagy remodels the ER during neurogenesis

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Protocol for EHR laboratory data preprocessing and seasonal adjustment using R and RStudio

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Retinoic acid receptor activation reprograms senescence response and enhances anti-tumor activity of natural killer cells

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Gut microbiota non-convergence and adaptations in sympatric Tibetan and Przewalski's gazelles

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Genomic landscape of liquid biopsy mutations in TP53 and DNA damage genes in cancer patients

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Spatial transcriptomics suggests that alterations occur in the preneoplastic breast microenvironment of BRCA1/2 mutation carriers

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Comparative Genomic Analysis and Clinical Outcomes of BRAF-mutated Advanced Biliary Tract Cancers

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372-html.html

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Within-subject changes in methylome profile identify individual signatures of early-life adversity, with a potential to predict neuropsychiatric outcome

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A Mutation-driven oncofetal regression fuels phenotypic plasticity in colorectal cancer

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Comparative transcriptomic analysis of bovine mesenchymal stromal cells reveals tissue-source and species-specific differences

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A clinically applicable connectivity signature for glioblastoma includes the tumor network driver CHI3L1

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Investigating metabolic dysregulation in serum of triple transgenic Alzheimer’s disease male mice: implications for pathogenesis and potential biomarkers

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Microglia maintain structural integrity during fetal brain morphogenesis

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Development of sexual dimorphism of skeletal muscles through the adrenal cortex, caused by androgen-induced global gene suppression

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MyD88 in myofibroblasts enhances nonalcoholic fatty liver disease-related hepatocarcinogenesis via promoting macrophage M2 polarization

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CRISPR/Cas9-mediated deletion of a GA-repeat in human GPM6B leads to disruption of neural cell differentiation from NT2 cells

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CRISPR/Cas9-mediated deletion of a GA-repeat in human GPM6B leads to disruption of neural cell differentiation from NT2 cells

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Maresin 1 repletion improves muscle regeneration after volumetric muscle loss

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COVID-19 Test-to-Stay Program for K-12 Schools: Opt-In Versus Opt-Out Consent Model

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Establishing a 3D culture system for early organogenesis of monkey embryos ex vivo and single-cell transcriptome analysis of cultured embryos

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PRDM3/16 Regulate Chromatin Accessibility Required for NKX2-1 Mediated Alveolar Epithelial Differentiation and Function

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TRIB3, as a robust prognostic biomarker for HNSC, is associated with poor immune infiltration and cancer cell immune evasion

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Cell-free DNA fragmentomics and second malignant neoplasm risk in patients with PTEN hamartoma tumor syndrome

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  DOI: 10.1016/j.xcrm.2023.101384
  
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A new genomic framework to categorize pediatric acute myeloid leukemia

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  DOI: 10.1038/s41588-023-01640-3
  
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Within-subject changes in methylome profile identify individual signatures of early-life adversity, with a potential to predict neuropsychiatric outcome

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Integrative analysis of neuroblastoma by single-cell RNA sequencing identifies the NECTIN2-TIGIT axis as a target for immunotherapy

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β-catenin-driven differentiation is a tissue-specific epigenetic vulnerability in adrenal cancer

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Neuromodulation of choice-induced preference changes: the tDCS study of cognitive dissonance

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Upregulated LAMA3 modulates proliferation, adhesion, migration and epithelial‑to‑mesenchymal transition of cholangiocarcinoma cells

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An essential signaling cascade for avian auditory hair cell regeneration

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Prospective evaluation of NGS-based sequencing in epilepsy patients: results of seven NASGE-associated diagnostic laboratories

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Nanopore adaptive sampling enriches for antimicrobial resistance genes in microbial communities

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Integrated multi-omics profiling to dissect the spatiotemporal evolution of metastatic hepatocellular carcinoma

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Genome-wide screen reveals Rab12 GTPase as a critical activator of Parkinson’s disease-linked LRRK2 kinase

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From policy to practice: Lessons learned from an open science funding initiative

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cd-23-0299-html.html

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Intratumor APOL3 delineates a distinctive immunogenic ferroptosis subset with prognosis prediction in colorectal cancer

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mcr-23-0489-html.html

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ccr-23-1926-html.html

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Revisiting the usefulness of the short acute octreotide test to predict treatment outcomes in acromegaly

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CRISPR-Cas12a-integrated transgenes in genomic safe harbors retain high expression in human hematopoietic iPSC-derived lineages and primary cells

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