Table of Contents

Mini-Review

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Large-scale genomic analysis of the domestic dog informs biological discovery
- Reuben M. Buckley and
- Elaine A. Ostrander
Genome Res. June 2024 34: 811-821; Published in Advance July 2, 2024, doi:10.1101/gr.278569.123
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Research

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Single-cell discovery of m⁶A RNA modifications in the hippocampus
- Shuangshuang Feng,
- Maitena Tellaetxe-Abete,
- Yujie Zhang,
- Yan Peng,
- Han Zhou,
- Mingjie Dong,
- Erika Larrea,
- Liang Xue,
- Li Zhang,
- and Magdalena J. Koziol
Genome Res. June 2024 34: 822-836; Published in Advance July 15, 2024, doi:10.1101/gr.278424.123
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Single-cell analysis reveals transcriptional dynamics in healthy primary parathyroid tissue
- Aarthi Venkat,
- Maximillian J. Carlino,
- Betty R. Lawton,
- Manju L. Prasad,
- Matthew Amodio,
- Courtney E. Gibson,
- Caroline J. Zeiss,
- Scott E. Youlten,
- Smita Krishnaswamy,
- and Diane S. Krause
Genome Res. June 2024 34: 837-850; Published in Advance July 8, 2024, doi:10.1101/gr.278215.123
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Genome-wide relaxation of selection and the evolution of the island syndrome in Orkney voles
- Xuejing Wang and
- Gerald Heckel
Genome Res. June 2024 34: 851-862; Published in Advance July 2, 2024, doi:10.1101/gr.278487.123
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Causes and consequences of a complex recombinational landscape in the ant Cardiocondyla obscurior
- Mohammed Errbii,
- Jürgen Gadau,
- Kerstin Becker,
- Lukas Schrader,
- and Jan Oettler
Genome Res. June 2024 34: 863-876; Published in Advance June 5, 2024, doi:10.1101/gr.278392.123
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Comparative genomics of Cryptosporidium parvum reveals the emergence of an outbreak-associated population in Europe and its spread to the United States
- Greta Bellinzona,
- Tiago Nardi,
- Michele Castelli,
- Gherard Batisti Biffignandi,
- Karim Adjou,
- Martha Betson,
- Yannick Blanchard,
- Ioana Bujila,
- Rachel Chalmers,
- Rebecca Davidson,
- Nicoletta D'Avino,
- Tuulia Enbom,
- Jacinto Gomes,
- Gregory Karadjian,
- Christian Klotz,
- Emma Östlund,
- Judith Plutzer,
- Ruska Rimhanen-Finne,
- Guy Robinson,
- Anna Rosa Sannella,
- Jacek Sroka,
- Christen Rune Stensvold,
- Karin Troell,
- Paolo Vatta,
- Barbora Zalewska,
- Claudio Bandi,
- Davide Sassera,
- and Simone M. Cacciò
Genome Res. June 2024 34: 877-887; Published in Advance July 8, 2024, doi:10.1101/gr.278830.123
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Large-scale investigation of species-specific orphan genes in the human gut microbiome elucidates their evolutionary origins
- Nikolaos Vakirlis and
- Anne Kupczok
Genome Res. June 2024 34: 888-903; Published in Advance July 8, 2024, doi:10.1101/gr.278977.124

Methods

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Simultaneous assessment of human genome and methylome data in a single experiment using limited deamination of methylated cytosine
- Bo Yan,
- Duan Wang,
- and Laurence Ettwiller
Genome Res. June 2024 34: 904-913; Published in Advance June 10, 2024, doi:10.1101/gr.278294.123
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Fast and space-efficient taxonomic classification of long reads with hierarchical interleaved XOR filters
- Jens-Uwe Ulrich and
- Bernhard Y. Renard
Genome Res. June 2024 34: 914-924; Published in Advance June 17, 2024, doi:10.1101/gr.278623.123
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Accurate estimation of pathway activity in single cells for clustering and differential analysis
- Daniel Davis,
- Avishai Wizel,
- and Yotam Drier
Genome Res. June 2024 34: 925-936; Published in Advance July 9, 2024, doi:10.1101/gr.278431.123
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Accurate allocation of multimapped reads enables regulatory element analysis at repeats
- Alexis Morrissey,
- Jeffrey Shi,
- Daniela Q. James,
- and Shaun Mahony
Genome Res. June 2024 34: 937-951; Published in Advance July 10, 2024, doi:10.1101/gr.278638.123

Resources

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DEAD box RNA helicases are pervasive protein kinase interactors and activators
- Alexander Hirth,
- Edoardo Fatti,
- Eugen Netz,
- Sergio P. Acebron,
- Dimitris Papageorgiou,
- Andrea Švorinić,
- Cristina-Maria Cruciat,
- Emil Karaulanov,
- Alexandr Gopanenko,
- Tianheng Zhu,
- Irmgard Sinning,
- Jeroen Krijgsveld,
- Oliver Kohlbacher,
- and Christof Niehrs
Genome Res. June 2024 34: 952-966; Published in Advance July 10, 2024, doi:10.1101/gr.278264.123
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Global compositional and functional states of the human gut microbiome in health and disease
- Sunjae Lee,
- Theo Portlock,
- Emmanuelle Le Chatelier,
- Fernando Garcia-Guevara,
- Frederick Clasen,
- Florian Plaza Oñate,
- Nicolas Pons,
- Neelu Begum,
- Azadeh Harzandi,
- Ceri Proffitt,
- Dorines Rosario,
- Stefania Vaga,
- Junseok Park,
- Kalle von Feilitzen,
- Fredric Johansson,
- Cheng Zhang,
- Lindsey A. Edwards,
- Vincent Lombard,
- Franck Gauthier,
- Claire J. Steves,
- David Gomez-Cabrero,
- Bernard Henrissat,
- Doheon Lee,
- Lars Engstrand,
- Debbie L. Shawcross,
- Gordon Proctor,
- Mathieu Almeida,
- Jens Nielsen,
- Adil Mardinoglu,
- David L. Moyes,
- Stanislav Dusko Ehrlich,
- Mathias Uhlen,
- and Saeed Shoaie
Genome Res. June 2024 34: 967-978; Published in Advance July 22, 2024, doi:10.1101/gr.278637.123
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Corrigendum

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Corrigendum: Centromere RNA is a key component for the assembly of nucleoproteins at the nucleolus and centromere
- Lee H. Wong,
- Kate H. Brettingham-Moore,
- Lyn Chan,
- Julie M. Quach,
- Melissa A. Anderson,
- Emma L. Northrop,
- Ross Hannan,
- Richard Saffery,
- Margaret L. Shaw,
- Evan Williams,
- and K.H. Andy Choo
Genome Res. June 2024 34: 979-980; doi:10.1101/gr.279693.124
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Mini-Review

Large-scale genomic analysis of the domestic dog informs biological discovery

Research

Single-cell discovery of m⁶A RNA modifications in the hippocampus

Single-cell analysis reveals transcriptional dynamics in healthy primary parathyroid tissue

Genome-wide relaxation of selection and the evolution of the island syndrome in Orkney voles

Causes and consequences of a complex recombinational landscape in the ant Cardiocondyla obscurior

Comparative genomics of Cryptosporidium parvum reveals the emergence of an outbreak-associated population in Europe and its spread to the United States

Large-scale investigation of species-specific orphan genes in the human gut microbiome elucidates their evolutionary origins

Methods

Simultaneous assessment of human genome and methylome data in a single experiment using limited deamination of methylated cytosine

Fast and space-efficient taxonomic classification of long reads with hierarchical interleaved XOR filters

Accurate estimation of pathway activity in single cells for clustering and differential analysis

Accurate allocation of multimapped reads enables regulatory element analysis at repeats

Resources

DEAD box RNA helicases are pervasive protein kinase interactors and activators

Global compositional and functional states of the human gut microbiome in health and disease

Corrigendum

Corrigendum: Centromere RNA is a key component for the assembly of nucleoproteins at the nucleolus and centromere

This Issue

Preprint Server

Current Issue

In This Issue

Table of Contents

Mini-Review

Large-scale genomic analysis of the domestic dog informs biological discovery

Research

Single-cell discovery of m6A RNA modifications in the hippocampus

Single-cell analysis reveals transcriptional dynamics in healthy primary parathyroid tissue

Genome-wide relaxation of selection and the evolution of the island syndrome in Orkney voles

Causes and consequences of a complex recombinational landscape in the ant Cardiocondyla obscurior

Comparative genomics of Cryptosporidium parvum reveals the emergence of an outbreak-associated population in Europe and its spread to the United States

Large-scale investigation of species-specific orphan genes in the human gut microbiome elucidates their evolutionary origins

Methods

Simultaneous assessment of human genome and methylome data in a single experiment using limited deamination of methylated cytosine

Fast and space-efficient taxonomic classification of long reads with hierarchical interleaved XOR filters

Accurate estimation of pathway activity in single cells for clustering and differential analysis

Accurate allocation of multimapped reads enables regulatory element analysis at repeats

Resources

DEAD box RNA helicases are pervasive protein kinase interactors and activators

Global compositional and functional states of the human gut microbiome in health and disease

Corrigendum

Corrigendum: Centromere RNA is a key component for the assembly of nucleoproteins at the nucleolus and centromere

This Issue

Preprint Server

Current Issue

In This Issue

Single-cell discovery of m⁶A RNA modifications in the hippocampus