Volume 32, Issue 6 | June 2022

Research
- - Frequent somatic gene conversion as a mechanism for loss of heterozygosity in tumor suppressor genes
    Kazuki K. Takahashi
    Hideki Innan
    First Published May 26, 2022
  - TP53-inducible putative long noncoding RNAs encode functional polypeptides that suppress cell proliferation
    Wenli Xu
    Chang Liu
    Bing Deng
    Penghui Lin
    Zhenghua Sun
    Anrui Liu Jiajia Xuan Yuying Li Keren Zhou Xiaoqin Zhang Qiaojuan Huang Hui Zhou
    ...[+7 authors]...,
    Qingyu He
    Bin Li
    Lianghu Qu
    Jianhua Yang
    First Published May 24, 2022
  - Genetic, epigenetic, and environmental mechanisms govern allele-specific gene expression
    Celine L. St. Pierre
    Juan F. Macias-Velasco
    Jessica P. Wayhart
    Li Yin
    Clay F. Semenkovich
    First Published May 2, 2022
  - Snake venom gene expression is coordinated by novel regulatory architecture and the integration of multiple co-opted vertebrate pathways
    Blair W. Perry
    Siddharth S. Gopalan
    Giulia I.M. Pasquesi
    Drew R. Schield
    Aundrea K. Westfall
    Cara F. Smith Ivan Koludarov Paul T. Chippindale
    ...[+3 authors]...,
    Mark W. Pellegrino
    Edward B. Chuong
    Stephen P. Mackessy
    Todd A. Castoe
    First Published June 1, 2022
  - Transposable element accumulation drives size differences among polymorphic Y Chromosomes in Drosophila
    Alison H. Nguyen
    Weixiang Wang
    Emily Chong
    Kamalakar Chatla
    Doris Bachtrog
    First Published May 2, 2022
  - Rtt109 promotes nucleosome replacement ahead of the replication fork
    Felix Jonas
    Gilad Yaakov
    Naama Barkai
    First Published May 24, 2022
  - Evolution of transcription factor binding through sequence variations and turnover of binding sites
    Gat Krieger
    Offir Lupo
    Patricia Wittkopp
    Naama Barkai
    First Published May 26, 2022
  - Diurnal and eating-associated microbial patterns revealed via high-frequency saliva sampling
    Yichen Hu
    Amnon Amir
    Xiaochang Huang
    Yan Li
    Shi Huang
    First Published June 10, 2022
  - Rapid evolution and strain turnover in the infant gut microbiome
    Daisy W. Chen
    Nandita R. Garud
    First Published May 11, 2022
Methods
- - Automated annotation of human centromeres with HORmon
    Olga Kunyavskaya
    Tatiana Dvorkina
    Andrey V. Bzikadze
    Ivan A. Alexandrov
    Pavel A. Pevzner
    First Published May 11, 2022
  - Gene prediction in the immunoglobulin loci
    Vikram Sirupurapu
    Yana Safonova
    Pavel A. Pevzner
    First Published May 11, 2022
  - Polishing copy number variant calls on exome sequencing data via deep learning
    Furkan Özden
    Can Alkan
    A. Ercüment Çiçek
    First Published June 13, 2022
  - Profiling the quantitative occupancy of myriad transcription factors across conditions by modeling chromatin accessibility data
    Kaixuan Luo
    Jianling Zhong
    Alexias Safi
    Linda K. Hong
    Alok K. Tewari
    Lingyun Song
    ...[+1 authors]...,
    Timothy E. Reddy
    Li Ma
    Gregory E. Crawford
    Alexander J. Hartemink
    First Published May 24, 2022
Resources
- - Precision environmental health monitoring by longitudinal exposome and multi-omics profiling
    Peng Gao
    Xiaotao Shen
    Xinyue Zhang
    Chao Jiang
    Sai Zhang
    First Published June 6, 2022
  - Native RNA sequencing in fission yeast reveals frequent alternative splicing isoforms
    José Carlos Montañés
    Marta Huertas
    Simone G. Moro
    William R. Blevins
    Mercè Carmona
    First Published May 26, 2022
Corrigenda
- - Corrigendum: An association test of the spatial distribution of rare missense variants within protein structures identifies Alzheimer's disease–related patterns
    Bowen Jin
    John A. Capra
    Penelope Benchek
    Nicholas Wheeler
    Adam C. Naj
    Kara L. Hamilton-Nelson John J. Farrell Yuk Yee Leung Brian Kunkle Badri Vadarajan Gerard D. Schellenberg Richard Mayeux Li-San Wang Lindsay A. Farrer Margaret A. Pericak-Vance
    ...[+10 authors]...,
    Eden R. Martin
    Jonathan L. Haines
    Dana C. Crawford
    William S. Bush
    First Published June 24, 2022
  - Corrigendum: Enhancer–silencer transitions in the human genome
    Di Huang
    Ivan Ovcharenko
    First Published June 24, 2022
  - Corrigendum: Precise genotyping of circular mobile elements from metagenomic data uncovers human-associated plasmids with recent common ancestors
    Nitan Shalon
    David A. Relman
    Eitan Yaffe
    First Published June 24, 2022
  - Corrigendum: NicE-C efficiently reveals open chromatin–associated chromosome interactions at high resolution
    Zhengyu Luo
    Ran Zhang
    Tengfei Hu
    Yuting Zhu
    Yueming Wu
    Wenfei Li
    ...[+1 authors]...,
    Zhi Zhang
    Xuebiao Yao
    Haiyi Liang
    Xiaoyuan Song
    First Published June 24, 2022

Table of Contents

Volume 32, Issue 6 | June 2022

Research

Frequent somatic gene conversion as a mechanism for loss of heterozygosity in tumor suppressor genes

TP53-inducible putative long noncoding RNAs encode functional polypeptides that suppress cell proliferation

Genetic, epigenetic, and environmental mechanisms govern allele-specific gene expression

Snake venom gene expression is coordinated by novel regulatory architecture and the integration of multiple co-opted vertebrate pathways

Transposable element accumulation drives size differences among polymorphic Y Chromosomes in Drosophila

Rtt109 promotes nucleosome replacement ahead of the replication fork

Evolution of transcription factor binding through sequence variations and turnover of binding sites

Diurnal and eating-associated microbial patterns revealed via high-frequency saliva sampling

Rapid evolution and strain turnover in the infant gut microbiome

Methods

Automated annotation of human centromeres with HORmon

Gene prediction in the immunoglobulin loci

Polishing copy number variant calls on exome sequencing data via deep learning

Profiling the quantitative occupancy of myriad transcription factors across conditions by modeling chromatin accessibility data

Resources

Precision environmental health monitoring by longitudinal exposome and multi-omics profiling

Native RNA sequencing in fission yeast reveals frequent alternative splicing isoforms

Corrigenda

Corrigendum: An association test of the spatial distribution of rare missense variants within protein structures identifies Alzheimer's disease–related patterns

Corrigendum: Enhancer–silencer transitions in the human genome

Corrigendum: Precise genotyping of circular mobile elements from metagenomic data uncovers human-associated plasmids with recent common ancestors

Corrigendum: NicE-C efficiently reveals open chromatin–associated chromosome interactions at high resolution

Table of Contents

Volume 32, Issue 6 | June 2022

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Research

Methods

Resources

Corrigenda