Volume 33, Issue 10 | October 2023

Research
- - Nucleosome repositioning in chronic lymphocytic leukemia
    Kristan V. Piroeva
    Charlotte McDonald
    Charalampos Xanthopoulos
    Chelsea Fox
    Christopher T. Clarkson
    Jan-Philipp Mallm Yevhen Vainshtein Luminita Ruje Lara C. Klett Stephan Stilgenbauer
    ...[+5 authors]...,
    Daniel Mertens
    Efterpi Kostareli
    Karsten Rippe
    Vladimir B. Teif
    First Published September 12, 2023
  - Clustered and diverse transcription factor binding underlies cell type specificity of enhancers for housekeeping genes
    Iris Zhu
    David Landsman
    First Published October 26, 2023
  - GC-biased gene conversion drives accelerated evolution of ultraconserved elements in mammalian and avian genomes
    Anguo Liu
    Nini Wang
    Guoxiang Xie
    Yang Li
    Xixi Yan
    Xinmei Li Zhenliang Zhu Zhuohui Li Jing Yang Fanxin Meng Mingle Dou Weihuang Chen
    ...[+7 authors]...,
    Nange Ma
    Yu Jiang
    Yuanpeng Gao
    Yu Wang
    First Published October 26, 2023
  - Single-cell transcriptome and metagenome profiling reveals the genetic basis of rumen functions and convergent developmental patterns in ruminants
    Juan Deng
    Ya-Jing Liu
    Wen-Tian Wei
    Qi-Xuan Huang
    Li-Ping Zhao
    Ling-Yun Luo Qi Zhu Lin Zhang Yuan Chen Yan-Ling Ren Shan-Gang Jia Yu-Luan Lin Ji Yang Feng-Hua Lv
    ...[+9 authors]...,
    Hong-Ping Zhang
    Feng-E Li
    Li Li
    Meng-Hua Li
    First Published October 26, 2023
  - Analyses of 600+ insect genomes reveal repetitive element dynamics and highlight biodiversity-scale repeat annotation challenges
    John S. Sproul
    Scott Hotaling
    Jacqueline Heckenhauer
    Ashlyn Powell
    Dez Marshall
    First Published September 22, 2023
  - Transposon accumulation at xenobiotic gene family loci in aphids
    Tobias Baril
    Adam Pym
    Chris Bass
    Alex Hayward
    First Published October 18, 2023
Methods
- - Localizing unmapped sequences with families to validate the Telomere-to-Telomere assembly and identify new hotspots for genetic diversity
    Brianna Chrisman
    Chloe He
    Jae-Yoon Jung
    Nate Stockham
    Kelley Paskov
    First Published October 25, 2023
  - Identifying crossovers and shared genetic material in whole genome sequencing data from families
    Kelley Paskov
    Brianna Chrisman
    Nathaniel Stockham
    Peter Yigitcan Washington
    Kaitlyn Dunlap
    First Published October 25, 2023
  - Latent feature extraction with a prior-based self-attention framework for spatial transcriptomics
    Zhen Li
    Xiaoyang Chen
    Xuegong Zhang
    Rui Jiang
    Shengquan Chen
    First Published October 30, 2023
  - Infernape uncovers cell type–specific and spatially resolved alternative polyadenylation in the brain
    Bowei Kang
    Yalan Yang
    Kaining Hu
    Xiangbin Ruan
    Yi-Lin Liu
    First Published October 31, 2023
  - ESICCC as a systematic computational framework for evaluation, selection, and integration of cell-cell communication inference methods
    Jiaxin Luo
    Minghua Deng
    Xuegong Zhang
    Xiaoqiang Sun
    First Published October 12, 2023
Resources
- - Multiscale network modeling reveals the gene regulatory landscape driving cancer prognosis in 32 cancer types
    Peng Xu
    Bin Zhang
    First Published October 31, 2023
  - Single-nucleus transcriptomic mapping uncovers targets for traumatic brain injury
    Qiuyun Yang
    Lingxuan Zhang
    Manrui Li
    Yang Xu
    Xiaogang Chen
    Ruixuan Yuan Xiaofeng Ou Min He Miao Liao Lin Zhang Hao Dai
    ...[+6 authors]...,
    Meili Lv
    Xiaoqi Xie
    Weibo Liang
    Xiameng Chen
    First Published September 20, 2023
  - The pig pangenome provides insights into the roles of coding structural variations in genetic diversity and adaptation
    Zhengcao Li
    Xiaohong Liu
    Chen Wang
    Zhenyang Li
    Bo Jiang
    Ruifeng Zhang Lu Tong Youping Qu Sheng He Haifan Chen Yafei Mao Qingnan Li Torsten Pook Yu Wu Yanjun Zan
    ...[+10 authors]...,
    Hui Zhang
    Lu Li
    Keying Wen
    Yaosheng Chen
    First Published November 1, 2023
  - An organism-wide ATAC-seq peak catalog for the bovine and its use to identify regulatory variants
    Can Yuan
    Lijing Tang
    Thomas Lopdell
    Vyacheslav A. Petrov
    Claire Oget-Ebrad
    Gabriel Costa Monteiro Moreira José Luis Gualdrón Duarte Arnaud Sartelet Zhangrui Cheng Mazdak Salavati D. Claire Wathes Mark A. Crowe Wouter Coppieters Mathew Littlejohn Carole Charlier Tom Druet Michel Georges Haruko Takeda Mark Crowe Niamh McLoughlin Alan Fahey Elizabeth Matthews Andreia Santoro Colin Byrne Pauline Rudd Roisin O'Flaherty Sinead Hallinan Claire Wathes Zhangrui Cheng Ali Fouladi Geoff Pollott Dirk Werling Beatriz Sanz Bernardo Mazdak Salavati Laura Buggiotti Alistair Wylie Matt Bell Conrad Ferris Mieke Vaneetvelde Kristof Hermans Geert Opsomer Sander Moerman Jenne De Koster Hannes Bogaert Jan Vandepitte Leila Vandevelde Bonny Vanranst Johanna Hoglund Susanne Dahl Klaus Ingvartsen Martin Sørensen Leslie Foldager Soren Ostergaard Janne Rothmann Mogens Krogh Else Meyer Charlotte Gaillard Jehan Ettema Tine Rousing Federica Signorelli Francesco Napolitano Bianca Moioli Alessandra Crisa Luca Buttazzoni Jennifer McClure Daragh Matthews Francis Kearney Andrew Cromie Matt McClure Shujun Zhang Xing Chen Huanchun Chen Junlong Zhao Liguo Yang Guohua Hua Chen Tan Guiqiang Wang Michel Bonneau Andrea Pompozzi Armin Pearn Arnold Evertson Linda Kosten Anders Fogh Thomas Andersen Matthew Lucy Chris Elsik Gavin Conant Jerry Taylor Nicolas Gengler Michel Georges Frederic Colinet Marilou Ramos Pamplona Hedi Hammami Catherine Bastin Haruko Takeda Aurelie Laine
    ...[+91 authors]...,
    Lijing Tang
    Martin Schulze
    Cinzia Marchitelli
    Sergio Palma-Vera
    First Published September 26, 2023

Table of Contents

Volume 33, Issue 10 | October 2023

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Research

Methods

Resources