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    1. Cancer Biology
    2. Computational and Systems Biology

    Quantifying chromosomal instability from intratumoral karyotype diversity using agent-based modeling and Bayesian inference

    Andrew R Lynch, Nicholas L Arp ... Mark E Burkard
    Chromosomal instability of cancer can be quantitatively measured by phylogenetic analysis of 200 tumor cells while using evolutionary principles to account for cellular selection.
    1. Genetics and Genomics
    2. Microbiology and Infectious Disease

    Microevolution of Trypanosoma cruzi reveals hybridization and clonal mechanisms driving rapid genome diversification

    Gabriel Machado Matos, Michael D Lewis ... Björn Andersson
    Unique mechanisms of genetic exchange in the important protozoan pathogen Trypanosome cruzi were characterized in detail using genome analyses of hybrid clones at different time points, showing initial tetraploids followed by genome erosion.
    1. Cancer Biology
    2. Genetics and Genomics

    Mismatch repair-signature mutations activate gene enhancers across human colorectal cancer epigenomes

    Stevephen Hung, Alina Saiakhova ... Peter C Scacheri
    Non-coding mutations in microsatellite-instable (MSI) colorectal tumors are prevalent and activate cancer-specific enhancers, thereby disrupting gene expression control.
    1. Cancer Biology

    Proteomic characteristics reveal the signatures and the risks of T1 colorectal cancer metastasis to lymph nodes

    Aojia Zhuang, Aobo Zhuang ... Chen Ding
    Based on the proteomics results, T1 CRC LNM prediction models were built using machine learning, the functional differences and biomarkers between LNM-negative and LNM-positive patients were revealed.
    1. Cancer Biology
    2. Cell Biology

    Human pancreatic cancer cell exosomes, but not human normal cell exosomes, act as an initiator in cell transformation

    Karoliina Stefanius, Kelly Servage ... Kim Orth
    Exosomes secreted from pancreatic cancer cells can function as a classic initiator in the multi-step cellular transformation process.
    1. Biochemistry and Chemical Biology
    2. Cell Biology

    LARP7 suppresses P-TEFb activity to inhibit breast cancer progression and metastasis

    Xiaodan Ji, Huasong Lu ... Kunxin Luo
    Transcription elongation by the elongation factor P-TEFb promotes the epithelial–mesenchymal transition and metastasis of breast cancer cells, implicating inhibition of this factor as a potential treatment for the late stages of this cancer.
    1. Cancer Biology

    FAK loss reduces BRAFV600E-induced ERK phosphorylation to promote intestinal stemness and cecal tumor formation

    Chenxi Gao, Huaibin Ge ... Jing Hu
    Mice studies show that the 'just-right' balance optimal for BRAFV600E-induced cecal tumor formation can be achieved through FAK alteration.
    1. Cell Biology
    2. Cancer Biology

    N6-methyladenosine in DNA promotes genome stability

    Brooke A Conti, Leo Novikov ... Mariano Oppikofer
    Not revised
    Reviewed Preprint v1
    • Important
    • Convincing
    1. Chromosomes and Gene Expression
    2. Genetics and Genomics

    Genome plasticity in Candida albicans is driven by long repeat sequences

    Robert T Todd, Tyler D Wikoff ... Anna Selmecki
    Previously uncharacterized long repeat sequences are associated with significant genome variation that can increase fitness and promote antifungal drug resistance in diverse isolates of Candida albicans.
    1. Epidemiology and Global Health
    2. Genetics and Genomics

    Integrating genomic and epidemiologic data to accelerate progress toward schistosomiasis elimination

    Andrea J Lund, Kristen J Wade ... Elizabeth J Carlton
    Genomic approaches can be integrated with epidemiological and ecological studies to provide high-resolution answers to open questions about schistosomiasis transmission dynamics, offering a level of precision that is actionable, such that schistosomiasis-control programming can be tailored to regional contexts.