397 Matching Annotations
  1. Aug 2025
  2. www.biorxiv.org www.biorxiv.org
    Gut microbiome remains stable following COVID-19 vaccination in healthy and immuno-compromised individuals
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    biorxiv.org/lookup/doi/10.1101/2023.08.23.554506
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    Chondrodysplasia-inducing COL2A1 p.Gly1170Ser causes an ER storage defect without associated unfolded protein response in a human cartilage model
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    biorxiv.org/lookup/doi/10.1101/2023.10.19.562780
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    Computing hematopoiesis plasticity in response to genetic mutations and environmental stimulations
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    biorxiv.org/lookup/doi/10.1101/2024.08.02.606315
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    The nucleocytoplasmic translocation of HINT1 regulates the maturation of cell density
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    biorxiv.org/lookup/doi/10.1101/2025.01.13.632869
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    In vivo detection of HIV-1 antisense transcripts in untreated and ART-treated individuals
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    biorxiv.org/lookup/doi/10.1101/2024.12.06.627170
  7. Jul 2025
  8. www.biorxiv.org www.biorxiv.org
    Multiple domains of scaffold Tudor protein play non-redundant roles in Drosophila germline
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    biorxiv.org/lookup/doi/10.1101/2025.03.13.643173
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    PSME3 Regulates Migration and Differentiation of Myoblasts
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    biorxiv.org/content/10.1101/2025.01.08.632048v1
  10. Jun 2025
  11. www.biorxiv.org www.biorxiv.org
    Wound closure after brain injury relies on force generation by microglia in zebrafish
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    biorxiv.org/lookup/doi/10.1101/2024.06.04.597300
  12. May 2025
  13. www.biorxiv.org www.biorxiv.org
    AURKA controls oocyte spindle assembly checkpoint and chromosome alignment by HEC1 phosphorylation
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    biorxiv.org/content/10.1101/2024.11.01.621527v1
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    Lipid-driven SRC self-association modulates its transformation capacity
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    biorxiv.org/content/10.1101/2024.11.12.623151v1
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    STAT5B leukemic mutations, altering SH2 tyrosine 665, have opposing impacts on immune gene programs
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    biorxiv.org/content/10.1101/2024.12.20.629685v1
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    Optogenetic control of pheromone gradients reveals functional limits of mating behavior in budding yeast
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    biorxiv.org/content/10.1101/2024.02.06.578657v2
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    DAF-18/PTEN protects LIN-35/Rb from CLP-1/CAPN-mediated cleavage to promote starvation resistance
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    biorxiv.org/content/10.1101/2025.02.17.638677v1
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    Shared requirement for MYC upstream super-enhancer in tissue regeneration and cancer
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    biorxiv.org/content/10.1101/2022.11.04.515076v2
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    Predicting cell cycle stage from 3D single-cell nuclear-stained images
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    biorxiv.org/content/10.1101/2024.08.30.610553v2
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    Matrix-driven jamming dynamics mediates transition of ovarian cancer spheroids to stable morphologies
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    biorxiv.org/content/10.1101/2022.02.09.479678v3
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    Molecular mechanism of bacteriophage tail contraction- structure of an S-layer-penetrating bacteriophage
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    biorxiv.org/content/10.1101/2023.08.04.551987v1
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    Divergent Plasmodium protein kinases drive MTOC, kinetochore and axoneme organisation in male gametogenesis
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    biorxiv.org/content/10.1101/2024.09.22.613647v1
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    The late onset Alzheimer’s disease risk factor iRhom2/RHBDF2 is a modifier of microglial TREM2 proteolysis
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    biorxiv.org/content/10.1101/2024.09.13.612888v1
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    Diversification of Dentate Gyrus Granule Cell Subtypes is Regulated by Neuregulin1 Nuclear Back Signaling.
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    biorxiv.org/content/10.1101/2024.10.15.618334v1
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    Variety in the USP deubiquitinase catalytic mechanism
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    biorxiv.org/content/10.1101/2023.07.24.550302v2
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    Mechanical forces and ligand-binding modulate Pseudomonas aeruginosa PilY1 mechanosensitive protein
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    biorxiv.org/content/10.1101/2023.08.03.551776v3
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    MDC1 mediates Pellino recruitment to sites of DNA double-strand breaks
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    biorxiv.org/content/10.1101/2024.07.20.604390v1
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    Novel determinants of NOTCH1 trafficking and signaling in breast epithelial cells
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    biorxiv.org/content/10.1101/2023.03.05.531156v2
  29. www.biorxiv.org www.biorxiv.org
    DICE: Fast and Accurate Distance-Based Reconstruction of Single-Cell Copy Number Phylogenies
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    biorxiv.org/content/10.1101/2024.06.03.597037v1
  30. www.biorxiv.org www.biorxiv.org
    Canonical and non-canonical PRC1 differentially contribute to the regulation of neural stem cell fate
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    biorxiv.org/content/10.1101/2024.08.07.606990v1
  31. www.biorxiv.org www.biorxiv.org
    Mitochondrial Signatures Shape Phenotype Switching and Apoptosis in Response to PLK1 and RSK Inhibitors in Melanoma
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    biorxiv.org/content/10.1101/2024.06.14.599035v1
  32. www.biorxiv.org www.biorxiv.org
    Transcription Factor EB (TFEB) activity increases resistance of TNBC stem cells to metabolic stress
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    biorxiv.org/content/10.1101/2023.05.30.542913v1
  33. www.biorxiv.org www.biorxiv.org
    Loss-of-function cancer-associated mutations in the EIF4G2 non-canonical translation initiation factor
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    biorxiv.org/content/10.1101/2023.08.22.554280v2
  34. www.biorxiv.org www.biorxiv.org
    Pathogenic LRRK2 mutations cause loss of primary cilia and Neurturin in striatal Parvalbumin interneurons
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    biorxiv.org/content/10.1101/2024.06.17.599289v2
  35. www.biorxiv.org www.biorxiv.org
    FAM172A controls the nuclear import and alternative splicing function of AGO2
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    biorxiv.org/content/10.1101/2022.03.04.482948v2
  36. Jan 2025
  37. www.cambridge.org www.cambridge.org
    Reflexivity as a transformative capacity for sustainability science: introducing a critical systems approach
    1
    1. stopresetgo 17 Jan 2025
      Transdisciplinary sustainability science is increasingly applied to study transformative change. Yet, transdisciplinary research involves diverse actors who hold contrasting and sometimes conflicting perspectives and worldviews. Reflexivity is cited as a crucial capacity for navigating the resulting challenges

      for - adjacency - reflexivity - tool for transdisciplinary research - indyweb - people-centered interpersonal information architecture - mindplex - concept spaces - perspectival knowing - life situatedness - SRG transdisciplinary complexity mapping tool - SOURCE - paper - Reflexivity as a transformative capacity for sustainability science: introducing a critical systems approach - Lazurko et al. - 2025, Jan 10

      adjacency - between - reflexivity - tool for transdisciplinary research - indyweb - people-centered, interpersonal information architecture - mindplex - concept space - perspectival knowing - life situatedness - SRG transdisciplinary complexity mapping tool - adjacency relationship - This paper is interesting from the perspective of development of the Indyweb because there, - the people-centered, interpersonal information architecture intrinsically explicates perspectival knowing and life-situatedness - Indyweb can embed an affordance that is a meta function applied to an indyvidual's mindplex that - surfaces and aspectualizes the perspective and worldview salient to the research - The granular information that embeds an indyvidual's perspectives and worldviews is already there in the indyvidual's rich mindplex

      adjacency - reflexivity - tool for transdisciplinary research - indyweb - people-centered interpersonal information architecture - mindplex - concept spaces - perspectival knowing - life situatedness - SRG transdisciplinary complexity mapping tool - SOURCE - paper - Reflexivity as a transformative capacity for sustainability science: introducing a critical systems approach - Lazurko et al. - 2025, Jan 10
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    cambridge.org/core/journals/global-sustainability/article/reflexivity-as-a-transformative-capacity-for-sustainability-science-introducing-a-critical-systems-approach/D6978EE9FF6C9B7DBB36212C2BB0B865
  38. Dec 2024
  39. www.biorxiv.org www.biorxiv.org
    N-6-methyladenosine (m6A) Promotes the Nuclear Retention of mRNAs with Intact 5' Splice Site Motifs
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    biorxiv.org/content/10.1101/2023.06.20.545713v4
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    4G cloning: rapid gene assembly for expression of multisubunit protein complexes in diverse hosts
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    biorxiv.org/content/10.1101/2024.06.17.599261v1
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    Morphoregulatory ADD3 underlies glioblastoma growth and formation of tumor-tumor connections
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    biorxiv.org/content/10.1101/2024.03.26.586725v1
  42. www.biorxiv.org www.biorxiv.org
    Vascular dysfunction is at the onset of oxaliplatin-induced peripheral neuropathy symptoms in mice
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    biorxiv.org/content/10.1101/2024.04.09.588709v1
  43. www.biorxiv.org www.biorxiv.org
    A complete digital karyotype of the B-cell leukemia REH cell line resolved by long-read sequencing
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    biorxiv.org/content/10.1101/2023.03.08.531483v1
  44. www.biorxiv.org www.biorxiv.org
    Divergent roles for caspase-8 and MLKL in high-fat diet induced obesity and NAFLD in mice
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    biorxiv.org/content/10.1101/2023.03.14.532682v2
  45. www.biorxiv.org www.biorxiv.org
    Transcriptional regulators ensuring specific gene expression and decision making at high TGFβ doses
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    biorxiv.org/content/10.1101/2024.04.23.590740v1
  46. Nov 2024
  47. www.biorxiv.org www.biorxiv.org
    Mass spectrometry-based proteomic exploration of diverse murine macrophage cellular models
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    biorxiv.org/content/10.1101/2024.04.09.588684v1
  48. www.biorxiv.org www.biorxiv.org
    Structural and biochemical analysis of ligand binding in yeast Niemann-Pick type C1-related protein
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    biorxiv.org/content/10.1101/2024.06.10.598172v2
  49. www.biorxiv.org www.biorxiv.org
    Cell–cell adhesion drives patterning in stratified epithelia
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    biorxiv.org/content/10.1101/2023.11.24.567740v1
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    Deregulation of multiple mechanisms shapes the onset of LAMA2-congenital muscular dystrophy
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    biorxiv.org/content/10.1101/2024.01.20.576409v1
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    CENP-C-Mis12 complex establishes a regulatory loop through Aurora B for chromosome segregation
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    biorxiv.org/content/10.1101/2024.05.29.596395v1
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    The hGID GID4 E3 ubiquitin ligase complex targets ARHGAP11A to regulate cell migration
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    biorxiv.org/content/10.1101/2023.07.20.549906v1
  53. www.biorxiv.org www.biorxiv.org
    Naa80 is required for actin N-terminal acetylation and normal hearing in zebrafish
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    biorxiv.org/content/10.1101/2024.03.17.585386v1
  54. Oct 2024
  55. www.biorxiv.org www.biorxiv.org
    TMX5/TXNDC15, a natural trapping mutant of the PDI family is a client of the proteostatic factor ERp44
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    biorxiv.org/content/10.1101/2024.06.12.598629v1
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    Metabolic resistance of Abeta3pE-42, epitope of the anti-Alzheimer therapeutic antibody, donanemab.
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    biorxiv.org/content/10.1101/2024.01.30.578111v1
  57. www.biorxiv.org www.biorxiv.org
    Dysfunctional β-cell longevity in diabetes relies on energy conservation and positive epistasis
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    biorxiv.org/content/10.1101/2024.03.18.585508v1
  58. www.biorxiv.org www.biorxiv.org
    Non-redundant roles for the human mRNA decapping cofactor paralogs DCP1a and DCP1b
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    biorxiv.org/content/10.1101/2023.10.19.563039v1
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    FAM111A regulates replication origin activation and cell fitness
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    biorxiv.org/content/10.1101/2020.04.22.055574v1
  60. www.biorxiv.org www.biorxiv.org
    Regulation of proteostasis by sleep through autophagy in Drosophila models of Alzheimer's Disease
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    biorxiv.org/content/10.1101/2024.07.01.601554v1
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    Differential Modulation of Polycomb-Associated Histone Marks by cBAF, pBAF, and gBAF Complexes
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    biorxiv.org/content/10.1101/2023.09.23.557848v2
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    A Novel Role for CSA in the Regulation of Nuclear Envelope Integrity: Uncovering a Non-Canonical Function
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    biorxiv.org/content/10.1101/2023.12.14.571633v1
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    Reprogramming of breast tumor-associated macrophages with modulation of arginine metabolism
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    biorxiv.org/content/10.1101/2023.08.22.554238v1
  64. Sep 2024
  65. www.biorxiv.org www.biorxiv.org
    Activation of the Keap1/Nrf2 pathway suppresses mitochondrial dysfunction in C9orf72 ALS/FTD in vivo models and patient iNeurons
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    biorxiv.org/lookup/doi/10.1101/2023.10.02.560439
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    Proteomic analysis reveals microvesicles containing NAMPT as mediators of radiation resistance in glioma
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    biorxiv.org/lookup/doi/10.1101/2022.03.23.485479
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    De-tensioning of collagen fibers optimizes endometrial receptivity and improves the rate of embryo implantation
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    biorxiv.org/lookup/doi/10.1101/2022.01.18.476712
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    A highly scalable approach to topic modelling in single-cell data by approximate pseudobulk projection
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    biorxiv.org/lookup/doi/10.1101/2024.02.21.581497
  69. Aug 2024
  70. www.biorxiv.org www.biorxiv.org
    Passive diffusion accounts for the majority of intracellular vesicle transport
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    biorxiv.org/content/10.1101/2023.05.10.540182v1
  71. www.sciencedaily.com www.sciencedaily.com
    Range-shifting fishes are climate-change losers, according to new research
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    1. stopresetgo 10 Aug 2024

      for - climate change impacts - marine life - citizen-science - potential project - climate departure - ocean heating impacts - marine life - marine migration - migrating species face collapse - migration to escape warming oceans - population collapse

      main research findings - Study involved 146 species of temperate or subpolar fish and 2,572 time series - Extremely fast moving species (17km/year) showed large declines in population while - fish that did not shift showed negligible decline - Those on the northernmost edge experienced the largest declines - There is speculation that the fastest moving ones are the also the one's with the least evolutionary adaptations for new environments

      climate change impacts - marine life ocean heating impacts - marine life marine migration - migrating species face collapse migration to escape warming ocean - population collapse citizen-science - potential project - climate departure validation
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    sciencedaily.com/releases/2024/03/240312133753.htm
  72. www.biorxiv.org www.biorxiv.org
    RedRibbon: A new rank-rank hypergeometric overlap pipeline to compare gene and transcript expression signatures
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    biorxiv.org/content/10.1101/2022.08.31.505818v1
  73. Jul 2024
  74. www.biorxiv.org www.biorxiv.org
    Global Huntingtin Knockout in Adult Mice Leads to Fatal Neurodegeneration that Spares the Pancreas
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    biorxiv.org/content/10.1101/2024.01.11.575238v1
  75. www.biorxiv.org www.biorxiv.org
    Defective Integrator activity shapes the transcriptome of patients with multiple sclerosis
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    biorxiv.org/content/10.1101/2023.11.24.568591v2
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    A large-scale cancer-specific protein-DNA interaction network
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    biorxiv.org/content/10.1101/2024.01.24.577099v1
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    Structure of the human systemic RNAi defective transmembrane protein 1 (hSIDT1) reveals the conformational flexibility of its lipid binding domain
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    biorxiv.org/content/10.1101/2023.12.21.572875v2
  78. www.youtube.com www.youtube.com
    Using AI to listen to all of Earth's Species
    1
    1. stopresetgo 18 Jul 2024

      26:30 Brings up progress traps of this new technology

      26:48

      question How do we shift our (human being's) relationship with the rest of nature

      27:00

      metaphor - interspecies communications - AI can be compared to a new scientific instrument that extends our ability to see - We may discover that humanity is not the center of the universe

      32:54

      Question - Dr Doolittle question - Will we be able to talk to the animals? - Wittgenstein said no - Human Umwelt is different from others - but it may very well happen

      34:54

      species have culture - Marine mammals enact behavior similar to humans

      • Unknown unknowns will likely move to known unknowns and to some known knowns

      36:29

      citizen science bioacoustic projects - audio moth - sound invisible to humans - ultrasonic sound - intrasonic sound - example - Amazonian river turtles have been found to have hundreds of unique vocalizations to call their baby turtles to safety out in the ocean

      41:56

      ocean habitat for whales - they can communicate across the entire ocean of the earth - They tell of a story of a whale in Bermuda can communicate with a whale in Ireland

      43:00

      progress trap - AI for interspecies communications - examples - examples - poachers or eco tourism can misuse

      44:08

      progress trap - AI for interspecies communications - policy

      45:16

      whale protection technology - Kim Davies - University of New Brunswick - aquatic drones - drones triangulate whales - ships must not get near 1,000 km of whales to avoid collision - Canadian government fines are up to 250,000 dollars for violating

      50:35

      environmental regulation - overhaul for the next century - instead of - treatment, we now have the data tools for - prevention

      56:40 - ecological relationship - pollinators and plants have co-evolved

      1:00:26

      AI for interspecies communication - example - human cultural evolution controlling evolution of life on earth

      progress trap - AI applied to interspecies communications question - How do we shift our relationship with the rest of nature? - ESP research objective metaphor - interspecies communication - AI is like a new scientific instrument citizen science bioacoustics - whale communication - span the entire ocean progress trap - AI for interspecies communications - policy progress trap - AI for interspecies communications - examples - poachers - ecotourism whale protection - bioacoustic and drones environmental overhaul - treatment to prevention ecological relationships - pollinators and plants co-evolved interspecies communication - umwelt AI for interspecies communication - example - human cultural evolution controlling evolution of life on earth
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    youtube.com/watch
  79. www.biorxiv.org www.biorxiv.org
    Exploring the molecular composition of the multipass translocon in its native membrane environment
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    biorxiv.org/content/10.1101/2023.11.28.569136v1
  80. www.biorxiv.org www.biorxiv.org
    Congress of multiple dimers is needed for cross-phosphorylation of IRE1α and its RNase activity
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    biorxiv.org/content/10.1101/2023.12.18.572154v1
  81. Jun 2024
  82. www.biorxiv.org www.biorxiv.org
    Translation inhibition efficacy does not determine the Plasmodium berghei liver stage antiplasmodial efficacy of protein synthesis inhibitors
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    biorxiv.org/content/10.1101/2023.12.07.570699v1
  83. www.biorxiv.org www.biorxiv.org
    The type of DNA damage response after Decitabine treatment depends on the level of DNMT activity
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    biorxiv.org/content/10.1101/2023.09.02.556017v2
  84. www.biorxiv.org www.biorxiv.org
    Structural analysis of SALL4 zinc-finger domain reveals a link between AT-rich DNA binding and Okihiro syndrome
    1
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    biorxiv.org/content/10.1101/2022.06.14.495968v1
  85. www.biorxiv.org www.biorxiv.org
    Trim66 paternal deficiency causes intrauterine overgrowth
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    biorxiv.org/content/10.1101/2024.02.12.579976v1
  86. www.biorxiv.org www.biorxiv.org
    The concerted action of SEPT9 and EPLIN modulates the adhesion and migration of human fibroblasts
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    Analysis of context-specific KRAS-effectors (sub)complexes in Caco-2 cells
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  189. Mar 2023
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    An extended DNA-free intranuclear compartment organizes centrosomal microtubules in Plasmodium falciparum
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    Stepwise progression of beta-selection during T cell development as revealed by histone deacetylation inhibition
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    Lack of peroxisomal catalase affects heat shock response in C. elegans
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    Lineage Tracing Reveals Fate Bias and Transcriptional Memory in Human B cells
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    Critical roles of ICOS in controlling Foxp3-expressing T follicular cell subsets during early-stage germinal center reactions
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    The human MRS2 magnesium binding domain is a regulatory feedback switch for channel activity.
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    Activation and inhibition of the C-terminal kinase domain of p90 ribosomal S6 kinases
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    New algorithms for accurate and efficient de-novo genome assembly from long DNA sequencing reads
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  202. Feb 2023
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    Adenylyl cyclase 9 is auto-stimulated by its isoform-specific carboxyl terminal domain and equipped with paradigm-switching mechanisms.
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    SorCS1 inhibits amyloid-β binding to neurexin and rescues amyloid-β-induced synaptic pathology
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    The GET pathway serves to activate Atg32-mediated mitophagy by ER targeting of the Ppg1-Far complex
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    Human RNA Nm-MTase FTSJ1: new tRNA targets and role in the regulation of brain-specific genes.
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    William Whewell - Wikipedia
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    Structural and functional characterization of TraI from pKM101 reveals basis for DNA processing
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    Membrane cholesterol regulates inhibition and substrate transport by the glycine transporter, GlyT2
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    Epigenetic centromere identity is precisely maintained through DNA replication but is uniquely specified among human cells
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    Identifying novel regulators of placental development using time series transcriptomic data and network analyses
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    An isoform-specific function of Cdc42 in regulating mammalian Exo70 during axon formation
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    Comparative analysis of MERFISH spatial transcriptomics with bulk and single-cell RNA sequencing
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    A synergistic activation of RARb and RARg nuclear receptors restores cell-types specialization during stem cells differentiation by hijacking RARa-controlled program
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    Porcine intestinal innate lymphoid cells and lymphocyte spatial context revealed through single-cell RNA sequencing
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  225. Dec 2022
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    Stage-specific gene and transcript dynamics in human male germ cells
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    Genome-wide Profiling of Histone Modifications in Plasmodium falciparum using CUT&RUN.
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    Systematic analysis of ADP-ribose detection reagents and optimisation of sample preparation to detect ADP-ribosylation in vitro and in cells
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