Cancer Biology

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    Protocols in Current Issue
    A Highly Sensitive Method to Efficiently Profile the Histone Modifications of FFPE Samples
    Authors:  Linxuan Zhao, Vamsi Krishna Polavarapu, Ram Prakash Yadav, Pengwei Xing and Xingqi Chen, date: 05/20/2022, view: 458, Q&A: 0
    [Abstract]

    The majority of biopsies in both basic research and translational cancer studies are preserved in the format of archived formalin-fixed paraffin-embedded (FFPE) samples. Profiling histone modifications in archived FFPE tissues is critically important to understand gene regulation in human disease. The required input for current genome-wide

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    3D-Structured Illumination Microscopy of Centrosomes in Human Cell Lines
    [Abstract]

    The centrosome is the main microtubule-organizing center of animal cells, and is composed of two barrel-shaped microtubule-based centrioles embedded in protein dense pericentriolar material. Compositional and architectural re-organization of the centrosome drives its duplication, and enables its microtubule-organizing activity and capability to

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    Labeling Endogenous Proteins Using CRISPR-mediated Insertion of Exon (CRISPIE)
    Authors:  Evan A. Wilson, Tianyi Mao and Haining Zhong, date: 03/05/2022, view: 2099, Q&A: 0
    [Abstract]

    The CRISPR/Cas9 technology has transformed our ability to edit eukaryotic genomes. Despite this breakthrough, it remains challenging to precisely knock-in large DNA sequences, such as those encoding a fluorescent protein, for labeling or modifying a target protein in post-mitotic cells. Previous efforts focusing on sequence insertion to the

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    Measurement of Bone Metastatic Tumor Growth by a Tibial Tumorigenesis Assay
    Authors:  Baotong Zhang, Xin Li, Wei-Ping Qian, Daqing Wu and Jin-Tang Dong, date: 11/20/2021, view: 1654, Q&A: 0
    [Abstract]

    Bone metastasis is a frequent and lethal complication of many cancer types (i.e., prostate cancer, breast cancer, and multiple myeloma), and a cure for bone metastasis remains elusive. To recapitulate the process of bone metastasis and understand how cancer cells metastasize to bone, intracardiac injection and intracaudal arterial animal models

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    Measuring Real-time DNA/RNA Nuclease Activity through Fluorescence
    Authors:  Paulina Wyrzykowska, Sally Rogers and Richard Chahwan, date: 11/05/2021, view: 1740, Q&A: 0
    [Abstract]

    DNA and RNA nucleases are wide-ranging enzymes, taking part in broad cellular processes from DNA repair to immune response control. Growing interest in the mechanisms and activities of newly discovered nucleases inspired us to share the detailed protocol of our nuclease assay (Sheppard et al., 2019). This easy and inexpensive method can provide

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    Comprehensive Identification of Translatable Circular RNAs Using Polysome Profiling
    Authors:  Yanwen Ye, Zefeng Wang and Yun Yang, date: 09/20/2021, view: 1661, Q&A: 0
    [Abstract]

    Circular RNAs (circRNAs), a special type of RNAs without 5’- and 3’-ends, are widely present in eukaryotes and known to function as noncoding RNAs to regulate gene expression, including as miRNA sponges. Recent studies showed that many exonic circRNAs, generated by back-splicing of pre-mRNAs, can be translated in a cap-independent

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    A Genetically Engineered Mouse Model of Venous Anomaly and Retinal Angioma-like Vascular Malformation
    Authors:  Xudong Cao, Beibei Xu, Xiao Li, Taotao Li and Yulong He, date: 08/05/2021, view: 1653, Q&A: 0
    [Abstract]

    Characterization of key regulators in vein development will advance our understanding of mechanisms underlying venous anomalies and provide therapeutic targets for the treatment of vascular malformations. Here, we provide a detailed protocol for the generation of genetically engineered mouse models targeting the Tek gene for the analysis of vein

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    Antisense Oligo Pulldown of Circular RNA for Downstream Analysis
    Authors:  Debojyoti Das, Aniruddha Das and Amaresh C. Panda, date: 07/20/2021, view: 1853, Q&A: 0
    [Abstract]

    Circular RNAs (circRNAs) are a large family of noncoding RNA molecules that have emerged as novel regulators of gene expression by sequestering microRNAs (miRNAs) and RNA-binding proteins (RBPs). Several computational tools have been developed to predict circRNA interaction with target miRNAs and RBPs with a view to studying their potential effect

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    Intravenous and Non-invasive Drug Delivery to the Mouse Basal Forebrain Using MRI-guided Focused Ultrasound
    [Abstract]

    Basal forebrain cholinergic neurons (BFCNs) regulate circuit dynamics underlying cognitive processing, including attention, memory, and cognitive flexibility. In Alzheimer’s disease and related neurodegenerative conditions, the degeneration of BFCNs has long been considered a key player in cognitive decline. The cholinergic system thus

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    Surface Engineering and Multimodal Imaging of Multistage Delivery Vectors in Metastatic Breast Cancer
    Authors:  Shreya Goel, Mauro Ferrari and Haifa Shen, date: 05/20/2021, view: 4180, Q&A: 0
    [Abstract]

    The design of effective nanoformulations that target metastatic breast cancers is challenging due to a lack of competent imaging and image analysis protocols that can capture the interactions between the injected nanoparticles and metastatic lesions. Here, we describe the integration of in vivo whole-body PET-CT with high temporal resolution, ex

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