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Research

Cyanophora paradoxa reveals unique repair signature" > Elevated DNA insertion rate in Cyanophora paradoxa reveals unique repair signature

  • Marc Krasovec
  • Anna Lipzen
  • Nigel Grimsley
  • Gilles Mirambeau
  • Kerrie Barry
  • Igor V Grigoriev
  • Gwenael Piganeau
  • First Published June 12, 2026
Research

Evolution of an adaptive, inducible defensive trait in a model crustacean

  • Zhixiong Deng
  • Sen Xu
  • Dengqing Li
  • Guo Yu
  • Swatantra Neupane
  • Li Wang
  • ... [+1 authors] ...,
  • David Blair
  • Wei Hu
  • Adam Petrusek
  • Mingbo Yin
  • First Published June 5, 2026
Research

Genome evolution in parthenogenetic nematodes shaped by chromosome rearrangements and introgression

  • George Chung
  • Lewis Stevens
  • Xiaoguang Dai
  • Scott Hickey
  • Karin Kiontke
  • Priyesh Rughani Manuela R. Kieninger Joanna C. Collins Sissel Juul
  • ... [+4 authors] ...,
  • Fabio Piano
  • David H. A. Fitch
  • Mark Blaxter
  • Kristin C. Gunsalus
  • First Published May 29, 2026
Research

Transposable element small RNAs and large RNAs in aging brains and implications in Huntington's and Parkinson's disease

  • Gargi Dayama
  • Jou-Hsuan Roxie Lee
  • Shruti Gupta
  • Christian Brion
  • Brianne K. Connizzo
  • Adam T. Labadorf
  • Richard H. Myers
  • Nelson C. Lau
  • First Published May 28, 2026
Research

Whole-genome variant detection in long-read sequencing data from ultralow input patient samples

  • Katherine Wang
  • Cera J. Aex
  • Hayan Lee
  • Lucas Finot
  • Kevin Zhu
  • Julianna R. Chang Aaron M. Horning William J. Rowell
  • ... [+3 authors] ...,
  • Philip Li
  • Sarah B. Kingan
  • Michael P. Snyder
  • Graham S. Erwin
  • First Published May 28, 2026
Research

Interplay between purging and admixture shapes genetic load in an invasive guppy population

  • Katarzyna Burda
  • Mary J Janecka
  • Ryan S Mohammed
  • David R Clark
  • Rachael Kramp
  • Jessica F Stephenson
  • Jacek Radwan
  • Mateusz Konczal
  • First Published May 20, 2026
Research

Herbaria provide a valuable resource for obtaining informative mRNA

  • Alexa S. Tyszka
  • Khong-Sam Chia
  • Eric C. Bretz
  • Linda Mansour
  • Drew A. Larson
  • Nathanael Walker-Hale
  • Philip Carella
  • Joseph F. Walker
  • First Published May 19, 2026
Research

N-ethyl-N-nitrosourea" > Evidence for negative selection against somatic mutations induced in normal fibroblasts by N-ethyl-N-nitrosourea

  • Ronald Cutler
  • Johanna Heid
  • Shixiang Sun
  • Moonsook Lee
  • Alex Maslov
  • Lei Zhang
  • Simone Sidoli
  • Xiao Dong
  • Jan Vijg
  • First Published May 15, 2026
Research

Characterizing cytosine methylation of polymorphic transposable element insertions using the human pangenome resources

  • Xiaoyu Zhuo
  • Chad Tomlinson
  • Edward A. Belter
  • Prashant Kumar Kuntala
  • Wesley N. Saintilnord
  • Juan Jiang Tina Lindsay Juan Macias Robert S. Fulton Ting Wang Derek Albracht Ivan A. Alexandrov Jamie Allen Alawi A. Alsheikh-Ali Nicolas Altemose Casey Andrews Dmitry Antipov Lucinda Antonacci-Fulton Mobin Asri Marcelo Ayllon Jennifer R. Balacco Floris P. Barthel Edward A. Belter Halle D. Bender Andrew P. Blair Davide Bolognini Katherine E. Bonini Christina Boucher Guillaume Bourque Silvia Buonaiuto Shuo Cao Andrew Carroll Ann M. Mc Cartney Monika Cechova Mark J.P. Chaisson Pi-Chuan Chang Xian Chang Jitender Cheema Haoyu Cheng Claudio Ciofi Hiram Clawson Sarah Cody Vincenza Colonna Holland C. Conwell Robert Cook-Deegan Mark Diekhans Maria Angela Diroma Daniel Doerr Zheng Dong Danilo Dubocanin Richard Durbin Jana Ebler Evan E. Eichler Jordan M. Eizenga Parsa Eskandar Eddie Ferro Anna-Sophie Fiston-Lavier Sarah M. Ford Willard W. Ford Giulio Formenti Adam Frankish Mallory A. Freeberg Qichen Fu Stephanie M. Fullerton Robert S. Fulton Yan Gao Gage H. Garcia Obed A. Garcia Joshua M.V. Gardner Shilpa Garg Erik Garrison Nanibaa’ A. Garrison John E. Garza Margarita Geleta Mohammadmersad Ghorbani Tina A. Graves-Lindsay Richard E. Green Cristian Groza Bida Gu Andrea Guarracino Melissa Gymrek Maximilian Haeussler Leanne Haggerty Ira M. Hall Nancy F. Hansen Yue Hao Mohammad Amiruddin Hashmi David Haussler Prajna Hebbar Peter Heringer Glenn Hickey Todd L. Hillaker S. Nakib Hossain Neng Huang Sarah E. Hunt Toby Hunt Alexander G. Ioannidis Nafiseh Jafarzadeh Nivesh Jain Erich D. Jarvis Maryam Jehangir Juan Jiang Eimear E. Kenny Juhyun Kim Bonhwang Koo Sergey Koren Milinn Kremitzki Charles H. Langley Ben Langmead Heather A. Lawson Daofeng Li Heng Li Wen-Wei Liao Jiadong Lin Tianjie Liu Glennis A. Logsdon Ryan Lorig-Roach Jonathan LoTempio Hailey Loucks Jane E. Loveland Jianguo Lu Shuangjia Lu Julian K. Lucas Walfred Ma Juan F. Macias-Velasco Kateryna D. Makova Maximillian G. Marin Christopher Markovic Tobias Marschall Franco L. Marsico Fergal J. Martin Mira Mastoras Capucine Mayoud Brandy McNulty Jack A. Medico Julian M. Menendez Karen H. Miga Anna Minkina Matthew W. Mitchell Saswat K. Mohanty Younes Mokrab Jean Monlong Shabir Moosa Avelina Moreno-Ochando Shinichi Morishita Jonathan M. Mudge Katherine M. Munson Njagi Mwaniki Nasna Nassir Chiara Natali Shloka Negi Lingbin Ni Adam M. Novak Pilar N. Ossorio Chie Owa Sadye Paez Benedict Paten Clelia Peano Adam M. Phillippy Brandon D. Pickett Laura Pignata Nadia Pisanti David Porubsky Pjotr Prins Anandi Radhakrishnan T. Rhyker Ranallo-Benavidez Brian J. Raney Mikko Rautiainen Alessandro Raveane Luyao Ren Arang Rhie Fedor Ryabov Samuel Sacco Farnaz Salehi Michael C. Schatz Laura B. Scheinfeldt Aarushi Sehgal William E. Seligmann Mahsa Shabani Kishwar Shafin Shadi Shahatit Ruhollah Shemirani Vikram S. Shivakumar Swati Sinha Jouni Sirén Linnéa Smeds Steven J. Solar Marco Sollitto Nicole Soranzo Andrew B. Stergachis Marie-Marthe Suner Yoshihiko Suzuki Arda Söylev Ahmad Abou Tayoun Jack A.S. Tierney Chad Tomlinson Francesca Floriana Tricomi Mohammed Uddin Matteo Tommaso Ungaro Rahul Varki Flavia Villani Ivo Violich Mitchell R. Vollger Brian P. Walenz Charles Wang Lisa E. Wang Ting Wang Aaron M. Wenger Conor V. Whelan Zilan Xin Zheng Xu Kai Ye DongAhn Yoo
  • ... [+208 authors] ...,
  • Wenjin Zhang
  • Ying Zhou
  • Xiaoyu Zhuo
  • Giulia Zunino
  • First Published May 14, 2026
Research

DNA conformational flexibility descriptors improve transcription factor binding prediction across diverse transcription factor families

  • Upalabdha Dey
  • Venkata Rajesh Yella
  • Aditya Kumar
  • First Published May 14, 2026
Research

Allele-specific splicing modulates protein isoforms and Alzheimer's disease risk

  • Alison J. King
  • Kofi Amoah
  • Laixing Zhang
  • Jae Hoon Bahn
  • Ryan M. Barney
  • Giovanni Quinones-Valdez
  • Xinshu Xiao
  • First Published May 14, 2026
Research

Drosophila" > Structural variants are enriched in deleterious visible phenotypes in Drosophila

  • Alejandra Samano
  • Matthew Musat
  • Mihir Junaghare
  • Asad Ahmad
  • Mehlum Ali
  • Sebastian Alves Sreeram Pasupuleti Jelisha Perera Omar Saada
  • ... [+4 authors] ...,
  • Brady Sabido
  • Trevor Smith
  • Sophie Walz
  • Mahul Chakraborty
  • First Published May 14, 2026
Research

Single-cell transcriptomics reveals rapid divergence of genes guiding meiosis and spermiogenesis in two passerine birds

  • J. Carolina Segami Marzal
  • Marie Semon
  • Catarina Cunha
  • Claudia Bergin
  • Carina Mugal
  • Anna Qvarnstrom
  • First Published May 14, 2026
Research

6A reprogramming unveils vitamin-driven post-transcriptional regulation in mice" > Tissue-specific mRNA m6A reprogramming unveils vitamin-driven post-transcriptional regulation in mice

  • Jia Li
  • Anrui Liu
  • Runzhou Liu
  • Zihe Xu
  • Meng Yang
  • Xiaoqi Zheng Ye Tian Shengjun Wen Kaixin Cao
  • ... [+4 authors] ...,
  • Daoqiang Lu
  • Chen Huang
  • Tong-Meng Yan
  • Xiaoyun Wang
  • First Published May 11, 2026
Research

Dynamic body size evolution during speciation of predatory cichlid fishes in the Lake Malawi superradiation

  • Liandong Yang
  • Holly Scott
  • Benjamin P. Ngatunga
  • Asilatu H. Shechonge
  • George F. Turner
  • Martin J. Genner
  • First Published May 4, 2026
Research

Single-cell template strand sequencing reveals culture-induced chromosomal instability in a gibbon cell line

  • Alessia Daponte
  • Gerardina Chirico
  • Annalisa Paparella
  • Annalaura Montanari
  • Caterina Manzari
  • Martina Macino Oliver Dionisi Dyck Francesco De Leonardis Flavia Angela Maria Maggiolini Alberto L'Abbate Francesco Montinaro Sandra Louzada
  • ... [+7 authors] ...,
  • Mario Ventura
  • Ashley D. Sanders
  • Francesca Antonacci
  • Claudia Rita Catacchio
  • First Published May 4, 2026
Research

R-loops shape the H2A.Z landscape and promote balanced lineage allocation during differentiation

  • Chun-Hao Chao
  • Thomas G. Fazzio
  • First Published May 4, 2026
Research

Age-dependent mutational loads in human tRNA genes are tumor-specific and result in chimeric tRNA sequences that could disrupt the genetic code

  • Marina Murillo
  • Marina Salvadores
  • Aina Vaquer Picó
  • Lina Tsapanou
  • Adrian Gabriel Torres
  • Fran Supek
  • Lluis Ribas de Pouplana
  • First Published April 15, 2026
Research

Drosophila innate immune response" > A genome-wide survey reveals that a diverse array of enhancers coordinates the Drosophila innate immune response

  • Lianne B. Cohen
  • Tamara Hadzic
  • Caitlin Sauer
  • Julia R. Gibbs
  • Zeba Wunderlich
  • First Published April 15, 2026
Research

Epigenetic characterization of pseudogenes across human tissues

  • Yunzhe Jiang
  • Beatrice Borsari
  • Mark Gerstein
  • First Published April 15, 2026
Research

Dynamics and consequences of differential RNA isoform production during cardiomyocyte fate determination and early-stage maturation

  • Joanna Delimata-Raczek
  • Natalia Koralewska
  • Bart Krist
  • Magdalena Rakoczy
  • Marek Figlerowicz
  • Ireneusz Stolarek
  • First Published April 3, 2026
Research

Centromeric instability and chromoanasynthesis observed in nine supernumerary marker chromosomes resolved with long-read genome sequencing

  • Kristine Bilgrav Saether
  • Angelo Salazar Mantero
  • Marlene Ek
  • Maria Pettersson
  • Elisabeth Syk Lundberg
  • Christopher M. Grochowski
  • Claudia M.B. Carvalho
  • Jesper Eisfeldt
  • Anna Lindstrand
  • First Published March 25, 2026
Research

ACTB methylation regulates SMARCA4 genomic occupancy to promote translation and reduce adhesion in colorectal cancer cells

  • Elina Abaev-Schneiderman
  • Linh Nguyen
  • Raz Shalev
  • Tzofit Elbaz Biton
  • Anand Chopra
  • Giritharan Jagadeesan Daniel Sevilla-Sanchez Nili Tickotsky Moskovitz
  • ... [+3 authors] ...,
  • Liron Levin
  • Michal Feldman
  • Capucine Van Rechem
  • Dan Levy
  • First Published March 25, 2026
Research

Aphelenchus avenae implicates P5CS in nematode desiccation stress response" > Haplotype-resolved telomere-to-telomere genome of Aphelenchus avenae implicates P5CS in nematode desiccation stress response

  • Yali Zhang
  • Yayi Zhou
  • Yangyang Chen
  • Xueyu Wang
  • Boyan Hu
  • Shahid Siddique Romnick A. Latina Veronica I. Casey Dexin Bo Yucheng Liao
  • ... [+5 authors] ...,
  • Min Zhang
  • Ming Sun
  • Fengjuan Zhang
  • Dadong Dai
  • First Published March 23, 2026
Research

cis-antisense RNA duplexes" > A transcriptome-wide systematic search does not detect A-to-I RNA editing in cis-antisense RNA duplexes

  • Zohar Rosenwasser
  • Roni Cohen-Fultheim
  • Ofir Shliefer
  • Erez Y. Levanon
  • Eli Eisenberg
  • First Published March 12, 2026
Research

Confounding factors in assessing the enriched expression of somatic mutant alleles in bulk tumor samples

  • Kohei Hagiwara
  • Andrew Thrasher
  • Nadezhda V. Terekhanova
  • Jinghui Zhang
  • First Published March 4, 2026
Research

cis-regulatory modules acting during vertebrate organogenesis" > Functional genomics analysis of developing zebrafish and human endoderm reveals highly conserved cis-regulatory modules acting during vertebrate organogenesis

  • Daniela M. Riley
  • Randa Elsayed
  • Mark D. Walsh
  • Simaran Johal
  • Ying Lin
  • Harry Walton
  • Till Bretschneider
  • Sascha Ott
  • Andrew C. Nelson
  • First Published March 4, 2026
Research

Dynamic A-to-I RNA editing in response to gut microbiome in honey bees

  • Yuange Duan
  • Min Huang
  • Lin Ye
  • Ling Ma
  • Yashuai Wu
  • Yating Du Jiyao Liu Fan Song Li Tian
  • ... [+4 authors] ...,
  • Wanzhi Cai
  • Hu Li
  • Xin Zhou
  • Shiqi Luo
  • First Published March 4, 2026
Research

Pangenome analysis reveals families of ubiquitin-ligase adaptors as key genomic divergence drivers that lead to hybrid incompatibility

  • Dongying Xie
  • Pohao Ye
  • Yiming Ma
  • Zhongying Zhao
  • First Published February 17, 2026
Research

Assessing the readiness of Oxford Nanopore sequencing for clinical genomics applications

  • Judith Arres
  • Santosh Elavalli
  • Shalini Behl
  • Daniel Matias Sanchez
  • Ayesha Al Ali
  • Abdelrahman Ahmed Yehia Abdelaziz Saad Azza Attia Cyla Minas Sharika Pariyachery Shariq Ahmed Fatmah Aldhuhoori Nitu Thulasidharan Gurunath Katagi Omar Soliman Shilp Purohit Vinay Kusuma Raony Cardenas Thyago Cardoso Luis F. Paulin Philippe Sanio Joseph Mafofo Haiguo Wu Val Zvereff Albarah El-Khani
  • ... [+19 authors] ...,
  • Fahed Al Marzooqi
  • Tiago R. Magalhães
  • Fritz J. Sedlazeck
  • Javier Quilez
  • First Published February 11, 2026
Research

Drosophila species" > Transposable elements contribute to the evolution of host shift–related genes in cactophilic Drosophila species

  • Daniel Siqueira de Oliveira
  • Anaïs Larue
  • William Vilas Boas Nunes
  • Francois Sabot
  • Alejandra Bodelón
  • María Pilar García Guerreiro
  • Cristina Vieira
  • Claudia Marcia Aparecida Carareto
  • First Published February 10, 2026
Research

Degrees of convergent evolution in rodent adaptations to arid environments

  • Domitille Chalopin
  • Carine Rey
  • Jeremy Ganofsky
  • Juliana Blin
  • Pascale Chevret
  • Marion Mouginot
  • ... [+1 authors] ...,
  • Laurent Guéguen
  • Bastien Boussau
  • Sophie Pantalacci
  • Marie Sémon
  • First Published January 21, 2026
Research

Saccharomyces cerevisiae strains" > Natural diversity of telomere length distributions across 100 Saccharomyces cerevisiae strains

  • Clotilde Garrido
  • Cintia Gómez-Muñoz
  • Etienne Kornobis
  • Nicolas Agier
  • Oana Ilioaia
  • Gilles Fischer
  • Zhou Xu
  • First Published January 16, 2026
Research

Stable genome structures in living fossil fishes

  • Cheng Wang
  • Chase D. Brownstein
  • Wenjun Chen
  • Zufa Ding
  • Dan Yu
  • Yu Deng
  • ... [+1 authors] ...,
  • Chenguang Feng
  • Thomas J. Near
  • Shunping He
  • Liandong Yang
  • First Published January 13, 2026
Research

Landscape of microRNA and target expression variation and covariation in single mouse embryonic stem cells

  • Marcel Tarbier
  • Sebastian D. Mackowiak
  • Vaishnovi Sekar
  • Franziska Bonath
  • Etka Yapar
  • Bastian Fromm
  • Omid R. Faridani
  • Inna Biryukova
  • Marc R. Friedländer
  • First Published January 12, 2026
Research

MHC in newts illuminates the evolutionary dynamics of complex regions in giant genomes

  • Wiesław Babik
  • Katarzyna Dudek
  • Gemma Palomar
  • Marzena Marszałek
  • Grzegorz Dubin
  • Maximina H. Yun
  • Magdalena Migalska
  • First Published January 12, 2026
Research

LTR7-PLAAT4 as a potential oncogene and therapeutic target in pancreatic adenocarcinoma" > Transcriptomic landscape of transposable elements reveals LTR7-PLAAT4 as a potential oncogene and therapeutic target in pancreatic adenocarcinoma

  • Meilong Shi
  • Chuanqi Teng
  • Shan Zhang
  • Xiaobo He
  • Lingyun Xu
  • Fengxian Han Rongqi Wen Ganjun Yu Jingwen Liu Yang Feng
  • ... [+5 authors] ...,
  • Yanfeng Wu
  • Yan Ren
  • Gang Jin
  • Jing Li
  • First Published January 8, 2026
Research

XIST isoform in male peripheral glia" > Transcription and potential functions of a novel XIST isoform in male peripheral glia

  • Kevin S. O'Leary
  • Meng-Yen Li
  • Kevyn Jackson
  • Lijie Shi
  • Elena Ezhkova
  • Bernice E. Morrow
  • Deyou Zheng
  • First Published December 12, 2025
Research

Drosophila testis tumor stem cell–like cells" > Cell-type- and chromosome-specific chromatin landscapes and DNA replication programs of Drosophila testis tumor stem cell–like cells

  • Jennifer A. Urban
  • Daniel Ringwalt
  • John M. Urban
  • Wingel Xue
  • Ryan Gleason
  • Keji Zhao
  • Xin Chen
  • First Published December 10, 2025
Research

Genome-wide nucleosome and transcription factor responses to genetic perturbations reveal chromatin-mediated mechanisms of transcriptional regulation

  • Kevin Moyung
  • Yulong Li
  • Heather K. MacAlpine
  • Alexander J. Hartemink
  • David M. MacAlpine
  • First Published December 9, 2025
Research

Drosophila intestine" > Polycomb misregulation in enterocytes drives tissue decline in the aging Drosophila intestine

  • Sarah M. Leichter
  • Kami Ahmad
  • Steven Henikoff
  • First Published November 17, 2025
Research

Modest increase in the de novo single-nucleotide mutation rate in house mice born by assisted reproduction

  • Laura Blanco-Berdugo
  • Alexis Garretson
  • Beth L. Dumont
  • First Published November 13, 2025
Research

Sorex araneus" > Dynamic metabolic and molecular changes during seasonal shrinking in Sorex araneus

  • William R. Thomas
  • Cecilia Baldoni
  • Yuanyuan Zeng
  • David Carlson
  • Julie Holm-Jacobsen
  • Marion Muturi Dominik von Elverfeldt Tue B. Bennike
  • ... [+3 authors] ...,
  • Dina K.N. Dechmann
  • John Nieland
  • Angelique P. Corthals
  • Liliana M. Dávalos
  • First Published November 4, 2025
Research

3C sites in poly(A) RNA" > Nanopore direct RNA sequencing reveals METTL2A-mediated m3C sites in poly(A) RNA

  • Shuhei Mitsutomi
  • Anzu Sugawara
  • Masahide Seki
  • Yutaka Suzuki
  • Sotaro Miyao
  • Haozhe Du
  • ... [+1 authors] ...,
  • Kenji Takahashi
  • Yusuke Mizukami
  • Kenzui Taniue
  • Nobuyoshi Akimitsu
  • First Published October 30, 2025
Research

A gene regulatory element modulates myosin expression and controls cardiomyocyte response to stress

  • Taylor Anglen
  • Irene M. Kaplow
  • Baekgyu Choi
  • Enya Dewars
  • Robin M. Perelli
  • Kevin T. Hagy Duc Tran Megan E. Ramaker Svati H. Shah Inkyung Jung
  • ... [+5 authors] ...,
  • Andrew P. Landstrom
  • Ravi Karra
  • Yarui Diao
  • Charles A. Gersbach
  • First Published October 22, 2025
Research

Epigenetic and evolutionary features of ape subterminal heterochromatin

  • DongAhn Yoo
  • Katherine M. Munson
  • Evan E. Eichler
  • First Published October 22, 2025
Research

Genomic regulatory landscape underlying the antiviral response of Atlantic salmon

  • Shahmir Naseer
  • Thomas C Clark
  • Bertrand Collet
  • Pooran Dewari
  • Damir Baranasic
  • Daniel J Macqueen
  • Pierre Boudinot
  • Samuel A.M. Martin
  • First Published October 22, 2025
Research

Autism spectrum disorder risk genes have convergent effects on transcription and neuronal firing patterns in primary neurons

  • Alekh Paranjapye
  • Rili Ahmad
  • Steven Su
  • Abraham J. Waldman
  • Jennifer E. Phillips-Cremins
  • Shuo Zhang
  • Erica Korb
  • First Published October 20, 2025
Research

Synergistic regulation by H3K36 and H3K27 methylation defines the chromatin landscape to control virulence and secondary metabolism in a fungal pathogen

  • Xingmin Han
  • Chenghui Xu
  • Yiyi Ren
  • Meiling Guo
  • Jiayue Yan
  • Xuan Wang Chao Liu
  • ... [+2 authors] ...,
  • Qin Gu
  • Xing-Xing Shen
  • Zhonghua Ma
  • Yun Chen
  • First Published October 14, 2025
Research

Loss of multilevel 3D genome organization during breast cancer progression

  • Roberto Rossini
  • Saleh Oshaghi
  • Maxim Nekrasov
  • Aurélie Bellanger
  • Renae Domaschenz
  • Yasmin Dijkwel Mohamed Abdelhalim Rahul Agrawal Marit Ledsaak
  • ... [+4 authors] ...,
  • Philippe Collas
  • Ragnhild Eskeland
  • David Tremethick
  • Jonas Paulsen
  • First Published October 9, 2025
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