Volume 33, Issue 5 | May 2023

Research
- - Dynamic modulation of genomic enhancer elements in the suprachiasmatic nucleus, the site of the mammalian circadian clock
    Akanksha Bafna
    Gareth Banks
    Michael H. Hastings
    Patrick M. Nolan
    First Published May 8, 2023
  - A novel quantitative trait locus implicates Msh3 in the propensity for genome-wide short tandem repeat expansions in mice
    Mikhail O. Maksimov
    Cynthia Wu
    David G. Ashbrook
    Flavia Villani
    Vincenza Colonna
    Nima Mousavi Nichole Ma Lu Lu Jonathan K. Pritchard
    ...[+4 authors]...,
    Alon Goren
    Robert W. Williams
    Abraham A. Palmer
    Melissa Gymrek
    First Published May 1, 2023
  - Genomic insights into metabolic flux in hummingbirds
    Ariel Gershman
    Quinn Hauck
    Morag Dick
    Jerrica M. Jamison
    Michael Tassia
    Xabier Agirrezabala Saad Muhammad Raafay Ali Rachael E. Workman
    ...[+4 authors]...,
    Mikel Valle
    G. William Wong
    Kenneth C. Welch
    Winston Timp
    First Published May 8, 2023
  - Plant polymerase IV sensitizes chromatin through histone modifications to preclude spread of silencing into protein-coding domains
    Vivek Hari Sundar G
    Chenna Swetha
    Debjani Basu
    Kannan Pachamuthu
    Steffi Raju
    First Published June 5, 2023
  - Highly complete long-read genomes reveal pangenomic variation underlying yeast phenotypic diversity
    Cory A. Weller
    Ilya Andreev
    Michael J. Chambers
    Morgan Park
    Joshua S. Bloom
    Meru J. Sadhu Beatrice B. Barnabas Sean Black Gerard G. Bouffard Shelise Y. Brooks Juyun Crawford Holly Marfani Lyudmila Dekhtyar Joel Han Shi-Ling Ho Richelle Legaspi Quino L. Maduro Catherine A. Masiello Jennifer C. McDowell Casandra Montemayor James C. Mullikin Morgan Park Nancy L. Riebow Karen Schandler Brian Schmidt Christina Sison Sirintorn Stantripop
    ...[+22 authors]...,
    James W. Thomas
    Pamela J. Thomas
    Meghana Vemulapalli
    Alice C. Young
    First Published May 1, 2023
Methods
- - Multiplexed long-read plasmid validation and analysis using OnRamp
    Camille Mumm
    Melissa L. Drexel
    Torrin L. McDonald
    Adam G. Diehl
    Jessica A. Switzenberg
    First Published May 8, 2023
  - Accurate integration of multiple heterogeneous single-cell RNA-seq data sets by learning contrastive biological variation
    Yang Zhou
    Qiongyu Sheng
    Jing Qi
    Jiao Hua
    Bo Yang
    First Published June 12, 2023
  - Characterizing the targets of transcription regulators by aggregating ChIP-seq and perturbation expression data sets
    Alexander Morin
    Eric Ching-Pan Chu
    Aman Sharma
    Alex Adrian-Hamazaki
    Paul Pavlidis
    First Published June 12, 2023
  - Targeted, programmable, and precise tandem duplication in the mammalian genome
    Yaoge Jiao
    Min Li
    Xingyu He
    Yanhong Wang
    Junwei Song
    Yun Hu Li Li Lifang Zhou Lurong Jiang
    ...[+4 authors]...,
    Junyan Qu
    Lifang Xie
    Qiang Chen
    Shaohua Yao
    First Published June 9, 2023
  - CRISPR-Cas9-based repeat depletion for high-throughput genotyping of complex plant genomes
    Marzia Rossato
    Luca Marcolungo
    Luca De Antoni
    Giulia Lopatriello
    Elisa Bellucci
    Gaia Cortinovis Giulia Frascarelli Laura Nanni Elena Bitocchi Valerio Di Vittori Leonardo Vincenzi Filippo Lucchini Kirstin E. Bett
    ...[+8 authors]...,
    Larissa Ramsay
    David James Konkin
    Massimo Delledonne
    Roberto Papa
    First Published May 1, 2023
Resources
- - Genome-scale targeted mutagenesis in Brassica napus using a pooled CRISPR library
    Jianjie He
    Kai Zhang
    Shuxiang Yan
    Mi Tang
    Weixian Zhou
    First Published June 8, 2023
  - The fine-scale recombination rate variation and associations with genomic features in a butterfly
    Aleix Palahí i Torres
    Lars Höök
    Karin Näsvall
    Daria Shipilina
    Christer Wiklund
    First Published June 12, 2023
  - Comparing genomic and epigenomic features across species using the WashU Comparative Epigenome Browser
    Xiaoyu Zhuo
    Silas Hsu
    Deepak Purushotham
    Prashant Kumar Kuntala
    Jessica K. Harrison
    First Published May 8, 2023
Corrigendum
- - Corrigendum: Chromatin structure influences rate and spectrum of spontaneous mutations in Neurospora crassa
    Mariana Villalba de la Peña
    Pauliina A.M. Summanen
    Martta Liukkonen
    Ilkka Kronholm
    First Published June 16, 2023

Table of Contents

Volume 33, Issue 5 | May 2023

Research

Dynamic modulation of genomic enhancer elements in the suprachiasmatic nucleus, the site of the mammalian circadian clock

A novel quantitative trait locus implicates Msh3 in the propensity for genome-wide short tandem repeat expansions in mice

Genomic insights into metabolic flux in hummingbirds

Plant polymerase IV sensitizes chromatin through histone modifications to preclude spread of silencing into protein-coding domains

Highly complete long-read genomes reveal pangenomic variation underlying yeast phenotypic diversity

Methods

Multiplexed long-read plasmid validation and analysis using OnRamp

Accurate integration of multiple heterogeneous single-cell RNA-seq data sets by learning contrastive biological variation

Characterizing the targets of transcription regulators by aggregating ChIP-seq and perturbation expression data sets

Targeted, programmable, and precise tandem duplication in the mammalian genome

CRISPR-Cas9-based repeat depletion for high-throughput genotyping of complex plant genomes

Resources

Genome-scale targeted mutagenesis in Brassica napus using a pooled CRISPR library

The fine-scale recombination rate variation and associations with genomic features in a butterfly

Comparing genomic and epigenomic features across species using the WashU Comparative Epigenome Browser

Corrigendum

Corrigendum: Chromatin structure influences rate and spectrum of spontaneous mutations in Neurospora crassa

Table of Contents

Volume 33, Issue 5 | May 2023

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Research

Methods

Resources

Corrigendum