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Showing 1–13 of 13 results
Advanced filters: Author: Mayank N. K. Choudhary Clear advanced filters

  • Here the authors show transposable elements, formerly considered junk DNA, are a source of CTCF binding sites that contribute to species-specific 3D-genome structure, and may impact gene regulation during the course of mammalian evolution.

    • Mayank N. K. Choudhary
    • Kara Quaid
    • Ting Wang
    ResearchOpen Access
    Nature Communications
    Volume: 14, P: 1-12

  • The Ly49 gene family mainly encodes inhibitory or activating surface receptors on natural killer cells. Here the authors show that in mice, inhibitory and activating Ly49 genes are regulated by two distinct sets of cis-regulatory elements, and that different Ly49 genes can be cross-regulated.

    • Changxu Fan
    • Xiaoyun Xing
    • Ting Wang
    ResearchOpen Access
    Nature Communications
    Volume: 15, P: 1-19

  • Although most are silenced, certain transposable elements (TEs) have been co-opted by the host. Here, the authors quantify the epigenomic status of TEs using data from the Roadmap Epigenomics Project, provide a systematic profile of TE activity across normal human tissues and development, finding that TEs encompass a quarter of the human regulatory epigenome, with 47% of TEs in regulatory states.

    • Erica C. Pehrsson
    • Mayank N. K. Choudhary
    • Ting Wang
    ResearchOpen Access
    Nature Communications
    Volume: 10, P: 1-16

  • Analysis of cis-regulatory chromatin interactions, open chromatin and transcriptomes for different cell types isolated from mid-gestational human cortex samples provides insights into gene regulation during development.

    • Michael Song
    • Mark-Phillip Pebworth
    • Yin Shen
    Research
    Nature
    Volume: 587, P: 644-649

  • A comprehensive map of transcriptomes, cis-regulatory elements, heterochromatin structure, the methylome and 3D genome organization in the zebrafish (Danio rerio) enables identification of species-specific and evolutionarily conserved regulatory features, and provides a foundation for modelling studies on human disease and development.

    • Hongbo Yang
    • Yu Luan
    • Feng Yue
    Research
    Nature
    Volume: 588, P: 337-343

  • The gene-battery model posits transposable elements (TEs) may becis-regulatory elements to control gene expression. Here, mouse-specific TEs are shown as binding sites for multiple collaborating transcription factors in embryonic stem cells, and act as cis-regulatory modules in synergistic fashion.

    • Vasavi Sundaram
    • Mayank N. K. Choudhary
    • Ting Wang
    ResearchOpen Access
    Nature Communications
    Volume: 8, P: 1-12

  • Episodic memory and allocentric spatial navigation are interwoven in the activity of hippocampal neuron ensembles via Hebbian plasticity, which allows rats to encode journey-specific episodes.

    • Jason J. Moore
    • Jesse D. Cushman
    • Mayank R. Mehta
    Research
    Nature
    Volume: 599, P: 442-448

  • The WashU Virus Genome Browser is a web-based portal for efficient visualization of viral ‘omics’ data in the context of a variety of annotation tracks and host infection responses. The browser features both a phylogenetic-tree-based view and a genomic-coordinate, track-based view in which users can analyze the sequence features of viral genomes, sequence diversity among viral strains, genomic sites of diagnostic tests, predicted immunogenic epitopes and a continuously updated repository of publicly available genomic datasets.

    • Jennifer A. Flynn
    • Deepak Purushotham
    • Ting Wang
    Comments & Opinion
    Nature Genetics
    Volume: 52, P: 986-991