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Table of Contents
June 2022; 32 (6)
Research
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Frequent somatic gene conversion as a mechanism for loss of heterozygosity in tumor suppressor genes
Kazuki K. Takahashi
and
Hideki Innan
Genome Res.
June 2022
32
:
1017
-
1025
;
Published in Advance
May 26, 2022
,
doi:
10.1101/gr.276617.122
Abstract
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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
,
Qingyu He
,
Bin Li
,
Lianghu Qu
,
and
Jianhua Yang
Genome Res.
June 2022
32
:
1026
-
1041
;
Published in Advance
May 24, 2022
,
doi:
10.1101/gr.275831.121
Abstract
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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
,
and
Heather A. Lawson
Genome Res.
June 2022
32
:
1042
-
1057
;
Published in Advance
May 2, 2022
,
doi:
10.1101/gr.276193.121
Abstract
Full Text
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OPEN ACCESS ARTICLE
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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
,
Mark W. Pellegrino
,
Edward B. Chuong
,
Stephen P. Mackessy
,
and
Todd A. Castoe
Genome Res.
June 2022
32
:
1058
-
1073
;
Published in Advance
June 1, 2022
,
doi:
10.1101/gr.276251.121
Abstract
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Transposable element accumulation drives size differences among polymorphic Y Chromosomes in
Drosophila
Alison H. Nguyen
,
Weixiang Wang
,
Emily Chong
,
Kamalakar Chatla
,
and
Doris Bachtrog
Genome Res.
June 2022
32
:
1074
-
1088
;
Published in Advance
May 2, 2022
,
doi:
10.1101/gr.275996.121
Abstract
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Rtt109 promotes nucleosome replacement ahead of the replication fork
Felix Jonas
,
Gilad Yaakov
,
and
Naama Barkai
Genome Res.
June 2022
32
:
1089
-
1098
;
Published in Advance
May 24, 2022
,
doi:
10.1101/gr.276674.122
Abstract
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Evolution of transcription factor binding through sequence variations and turnover of binding sites
Gat Krieger
,
Offir Lupo
,
Patricia Wittkopp
,
and
Naama Barkai
Genome Res.
June 2022
32
:
1099
-
1111
;
Published in Advance
May 26, 2022
,
doi:
10.1101/gr.276715.122
Abstract
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Diurnal and eating-associated microbial patterns revealed via high-frequency saliva sampling
Yichen Hu
,
Amnon Amir
,
Xiaochang Huang
,
Yan Li
,
Shi Huang
,
Elaine Wolfe
,
Sophie Weiss
,
Rob Knight
,
and
Zhenjiang Zech Xu
Genome Res.
June 2022
32
:
1112
-
1123
;
Published in Advance
June 10, 2022
,
doi:
10.1101/gr.276482.121
Abstract
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Rapid evolution and strain turnover in the infant gut microbiome
Daisy W. Chen
and
Nandita R. Garud
Genome Res.
June 2022
32
:
1124
-
1136
;
Published in Advance
May 11, 2022
,
doi:
10.1101/gr.276306.121
Abstract
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Methods
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Automated annotation of human centromeres with HORmon
Olga Kunyavskaya
,
Tatiana Dvorkina
,
Andrey V. Bzikadze
,
Ivan A. Alexandrov
,
and
Pavel A. Pevzner
Genome Res.
June 2022
32
:
1137
-
1151
;
Published in Advance
May 11, 2022
,
doi:
10.1101/gr.276362.121
Abstract
Full Text
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Gene prediction in the immunoglobulin loci
Vikram Sirupurapu
,
Yana Safonova
,
and
Pavel A. Pevzner
Genome Res.
June 2022
32
:
1152
-
1169
;
Published in Advance
May 11, 2022
,
doi:
10.1101/gr.276676.122
Abstract
Full Text
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Polishing copy number variant calls on exome sequencing data via deep learning
Furkan Özden
,
Can Alkan
,
and
A. Ercüment Çiçek
Genome Res.
June 2022
32
:
1170
-
1182
;
Published in Advance
June 13, 2022
,
doi:
10.1101/gr.274845.120
Abstract
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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
,
Timothy E. Reddy
,
Li Ma
,
Gregory E. Crawford
,
and
Alexander J. Hartemink
Genome Res.
June 2022
32
:
1183
-
1198
;
Published in Advance
May 24, 2022
,
doi:
10.1101/gr.272203.120
Abstract
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Resources
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Precision environmental health monitoring by longitudinal exposome and multi-omics profiling
Peng Gao
,
Xiaotao Shen
,
Xinyue Zhang
,
Chao Jiang
,
Sai Zhang
,
Xin Zhou
,
Sophia Miryam Schüssler-Fiorenza Rose
,
and
Michael Snyder
Genome Res.
June 2022
32
:
1199
-
1214
;
Published in Advance
June 6, 2022
,
doi:
10.1101/gr.276521.121
Abstract
Full Text
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Native RNA sequencing in fission yeast reveals frequent alternative splicing isoforms
José Carlos Montañés
,
Marta Huertas
,
Simone G. Moro
,
William R. Blevins
,
Mercè Carmona
,
José Ayté
,
Elena Hidalgo
,
and
M. Mar Albà
Genome Res.
June 2022
32
:
1215
-
1227
;
Published in Advance
May 26, 2022
,
doi:
10.1101/gr.276516.121
Abstract
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Corrigenda
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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
,
Eden R. Martin
,
Jonathan L. Haines
,
Dana C. Crawford
,
and
William S. Bush
Genome Res.
June 2022
32
:
1228_1
;
doi:
10.1101/gr.276900.122
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Corrigendum: Enhancer–silencer transitions in the human genome
Di Huang
and
Ivan Ovcharenko
Genome Res.
June 2022
32
:
1228_2
;
doi:
10.1101/gr.276950.122
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Corrigendum: Precise genotyping of circular mobile elements from metagenomic data uncovers human-associated plasmids with recent common ancestors
Nitan Shalon
,
David A. Relman
,
and
Eitan Yaffe
Genome Res.
June 2022
32
:
1229_1
;
doi:
10.1101/gr.276946.122
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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
,
Zhi Zhang
,
Xuebiao Yao
,
Haiyi Liang
,
and
Xiaoyuan Song
Genome Res.
June 2022
32
:
1229_2
;
doi:
10.1101/gr.276968.122
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June 2022;
32
(6)
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