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Table of Contents
September 2022; 32 (9)
Research
Select this article
Single-cell multi-omics of human preimplantation embryos shows susceptibility to glucocorticoids
Cheng Zhao
,
Savana Biondic
,
Katherine Vandal
,
Åsa K. Björklund
,
Michael Hagemann-Jensen
,
Theresa Maria Sommer
,
Jesica Canizo
,
Stephen Clark
,
Pascal Raymond
,
Daniel R. Zenklusen
,
Nicolas Rivron
,
Wolf Reik
,
and
Sophie Petropoulos
Genome Res.
September 2022
32
:
1627
-
1641
;
Published in Advance
August 10, 2022
,
doi:
10.1101/gr.276665.122
Abstract
Full Text
Full Text (PDF)
Supplemental Material
OPEN ACCESS ARTICLE
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Identification of a transcriptional signature found in multiple models of ASD and related disorders
Samuel Thudium
,
Katherine Palozola
,
Éloïse L'Her
,
and
Erica Korb
Genome Res.
September 2022
32
:
1642
-
1654
;
Published in Advance
September 14, 2022
,
doi:
10.1101/gr.276591.122
Abstract
Full Text
Full Text (PDF)
Supplemental Material
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Widespread association of the Argonaute protein AGO2 with meiotic chromatin suggests a distinct nuclear function in mammalian male reproduction
Kimberly N. Griffin
,
Benjamin William Walters
,
Haixin Li
,
Huafeng Wang
,
Giulia Biancon
,
Toma Tebaldi
,
Carolyn B. Kaya
,
Jean Kanyo
,
TuKiet T. Lam
,
Andy L. Cox
,
Stephanie Halene
,
Jean-Ju Chung
,
and
Bluma J. Lesch
Genome Res.
September 2022
32
:
1655
-
1668
;
Published in Advance
September 15, 2022
,
doi:
10.1101/gr.276578.122
Abstract
Full Text
Full Text (PDF)
Supplemental Material
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Genomic analyses of wild argali, domestic sheep, and their hybrids provide insights into chromosome evolution, phenotypic variation, and germplasm innovation
Xin Li
,
San-Gang He
,
Wen-Rong Li
,
Ling-Yun Luo
,
Ze Yan
,
Dong-Xin Mo
,
Xing Wan
,
Feng-Hua Lv
,
Ji Yang
,
Ya-Xi Xu
,
Juan Deng
,
Qiang-Hui Zhu
,
Xing-Long Xie
,
Song-Song Xu
,
Chen-Xi Liu
,
Xin-Rong Peng
,
Bin Han
,
Zhong-Hui Li
,
Lei Chen
,
Jian-Lin Han
,
Xue-Zhi Ding
,
Renqing Dingkao
,
Yue-Feng Chu
,
Jin-Yan Wu
,
Li-Min Wang
,
Ping Zhou
,
Ming-Jun Liu
,
and
Meng-Hua Li
Genome Res.
September 2022
32
:
1669
-
1684
;
Published in Advance
August 10, 2022
,
doi:
10.1101/gr.276769.122
Abstract
Full Text
Full Text (PDF)
Supplemental Material
OPEN ACCESS ARTICLE
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An atlas of fish genome evolution reveals delayed rediploidization following the teleost whole-genome duplication
Elise Parey
,
Alexandra Louis
,
Jérôme Montfort
,
Yann Guiguen
,
Hugues Roest Crollius
,
and
Camille Berthelot
Genome Res.
September 2022
32
:
1685
-
1697
;
Published in Advance
August 12, 2022
,
doi:
10.1101/gr.276953.122
Abstract
Full Text
Full Text (PDF)
Supplemental Material
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Chromosome-scale assemblies of
Acanthamoeba castellanii
genomes provide insights into
Legionella pneumophila
infection–related chromatin reorganization
Cyril Matthey-Doret
,
Morgan J. Colp
,
Pedro Escoll
,
Agnès Thierry
,
Pierrick Moreau
,
Bruce Curtis
,
Tobias Sahr
,
Matt Sarrasin
,
Michael W. Gray
,
B. Franz Lang
,
John M. Archibald
,
Carmen Buchrieser
,
and
Romain Koszul
Genome Res.
September 2022
32
:
1698
-
1710
;
Published in Advance
September 15, 2022
,
doi:
10.1101/gr.276375.121
Abstract
Full Text
Full Text (PDF)
Supplemental Material
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Listeria monocytogenes
genes supporting growth under standard laboratory cultivation conditions and during macrophage infection
Martin A. Fischer
,
Tim Engelgeh
,
Patricia Rothe
,
Stephan Fuchs
,
Andrea Thürmer
,
and
Sven Halbedel
Genome Res.
September 2022
32
:
1711
-
1726
;
Published in Advance
September 16, 2022
,
doi:
10.1101/gr.276747.122
Abstract
Full Text
Full Text (PDF)
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Methods
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Deep sequencing of short capped RNAs reveals novel families of noncoding RNAs
Michiel de Hoon
,
Alessandro Bonetti
,
Charles Plessy
,
Yoshinari Ando
,
Chung-Chau Hon
,
Yuri Ishizu
,
Masayoshi Itoh
,
Sachi Kato
,
Dongyan Lin
,
Sho Maekawa
,
Mitsuyoshi Murata
,
Hiromi Nishiyori
,
Jay W. Shin
,
Jens Stolte
,
Ana Maria Suzuki
,
Michihira Tagami
,
Hazuki Takahashi
,
Supat Thongjuea
,
Alistair R.R. Forrest
,
Yoshihide Hayashizaki
,
Juha Kere
,
and
Piero Carninci
Genome Res.
September 2022
32
:
1727
-
1735
;
Published in Advance
August 12, 2022
,
doi:
10.1101/gr.276647.122
Abstract
Full Text
Full Text (PDF)
Supplemental Material
OPEN ACCESS ARTICLE
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Scalable and model-free detection of spatial patterns and colocalization
Qi Liu
,
Chih-Yuan Hsu
,
and
Yu Shyr
Genome Res.
September 2022
32
:
1736
-
1745
;
Published in Advance
September 9, 2022
,
doi:
10.1101/gr.276851.122
Abstract
Full Text
Full Text (PDF)
Supplemental Material
OPEN ACCESS ARTICLE
RECOMB 2022 Special/Methods
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Assembler artifacts include misassembly because of unsafe unitigs and underassembly because of bidirected graphs
Amatur Rahman
and
Paul Medvedev
Genome Res.
September 2022
32
:
1746
-
1753
;
Published in Advance
July 27, 2022
,
doi:
10.1101/gr.276601.122
Abstract
Full Text
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Lossless indexing with counting de Bruijn graphs
Mikhail Karasikov
,
Harun Mustafa
,
Gunnar Rätsch
,
and
André Kahles
Genome Res.
September 2022
32
:
1754
-
1764
;
Published in Advance
May 24, 2022
,
doi:
10.1101/gr.276607.122
Abstract
Full Text
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Unsupervised cell functional annotation for single-cell RNA-seq
Dongshunyi Li
,
Jun Ding
,
and
Ziv Bar-Joseph
Genome Res.
September 2022
32
:
1765
-
1775
;
Published in Advance
June 28, 2022
,
doi:
10.1101/gr.276609.122
Abstract
Full Text
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Learning probabilistic protein–DNA recognition codes from DNA-binding specificities using structural mappings
Joshua L. Wetzel
,
Kaiqian Zhang
,
and
Mona Singh
Genome Res.
September 2022
32
:
1776
-
1786
;
Published in Advance
September 19, 2022
,
doi:
10.1101/gr.276606.122
Abstract
Full Text
Full Text (PDF)
Supplemental Material
OPEN ACCESS ARTICLE
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Ultra-high-diversity factorizable libraries for efficient therapeutic discovery
Zheng Dai
,
Sachit D. Saksena
,
Geraldine Horny
,
Christine Banholzer
,
Stefan Ewert
,
and
David K. Gifford
Genome Res.
September 2022
32
:
1787
-
1794
;
Published in Advance
June 23, 2022
,
doi:
10.1101/gr.276593.122
Abstract
Full Text
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September 2022;
32
(9)
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Research
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RECOMB 2022 Special/Methods
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Single-cell gene signature scoring
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Spectral component approach for recent population structure
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