Search | Genome Research

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Method

CircExor enables interpretable prediction of circRNA localization into extracellular vesicles

Yusa Zhang
Hanbo Lu
Pengfei Bao
Anhao Wang
Xiaohong Lyu
Yidong Zhou
Songjie Shen
Zhi John Lu

First Published September 17, 2026

Research

Ret coding and enhancer loss-of-function alleles cause progressive loss of inhibitory motor neurons in the enteric nervous system" > Combined effects of Ret coding and enhancer loss-of-function alleles cause progressive loss of inhibitory motor neurons in the enteric nervous system

Lauren E Fries
Gabriel Grullon
Lauren Wilkes
Hanna E Berk-Rauch
Aravinda Chakravarti
Sumantra Chatterjee

First Published September 16, 2026

Method

Dual-contrastive learning for spatial domain identification in spatial transcriptomics with STAMGC

Zhuoyue Zhang
Qianmao Wen
Junlin Xu
Yajie Meng
Feifei Cui
Zilong Zhang

First Published September 16, 2026

Method

Unifying multimodal single-cell data with a mixture-of-experts β-variational autoencoder framework

Andrew J. Ashford
Trevor Enright
Julia Somers
Olga Nikolova
Emek Demir

First Published September 16, 2026

Resource

SwinePan for pig graph-based pangenome and multiomics data mining

Meng Lin
Langqing Liu
Gengyuan Cai
Sixiu Huang
Yibin Qiu
Zekai Yao Shaoxiong Deng Shiyuan Wang Yiyi Liu Donglin Ruan Fuchen Zhou Jiajin Wu
... [+7 authors] ...,
Zebin Zhang
Enqin Zheng
Jie Yang
Zhenfang Wu

First Published September 16, 2026

Method

k-mer-based Upstream Preprocessing of long reads for Isoform Discovery" > k-mer-based Upstream Preprocessing of long reads for Isoform Discovery

Molly Borowiak
Yun William Yu

First Published September 14, 2026

Resource

Caenorhabditis nigoni and Caenorhabditis briggsae reveal divergence in satellite DNA abundance" > T2T genomes of Caenorhabditis nigoni and Caenorhabditis briggsae reveal divergence in satellite DNA abundance

Ryan Pellow
Manitejus Kotikalapudi
Ofer Rog

First Published September 4, 2026

Resource

Genome-wide survey of spliceosomal snRNA transcripts across hundreds of human biosamples reveals abundant transcription but low maturation level of snRNA variants

Xiao-Ou Zhang
Ya Zhang
Zhiping Weng

First Published September 4, 2026

Method

Resolving missing human polymorphic inversions and other complex variants from ultra-long read data

Ricardo Moreira-Pinhal
Konstantinos Karakostis
Illya Yakymenko
Oscar Conchillo
Maria Díaz-Ros
Andrés Santos
... [+1 authors] ...,
Miquel Àngel Senar
Jaime Martínez-Urtaza
Marta Puig
Mario Cáceres

First Published September 1, 2026

Research

Quartet-based species tree methods enable fast and consistent tree of blobs reconstruction under the network multispecies coalescent

Junyan Dai
Yunheng Han
Erin K Molloy

First Published August 28, 2026

Method

Robust annotation and discovery of novel cell types in single-cell ATAC-seq data through cross-modal reference alignment

Lan Cao
Wenhao Zhang
Feng Zhou
Yushuang He
Yongyu Long
Shengquan Chen
Ying Wang

First Published August 28, 2026

Method

Identification of differential topologically associating domains from low sequencing depth and pseudo-bulk chromatin contact maps

Junping Li
Han Xu
Hebing Chen
Jiadong Lin
Yusen Ye
Lin Gao

First Published August 28, 2026

Method

Achieving spatial multiomics diagonal integration from unaligned serial sections with DIME

Pengyu Sun
Tian Mou
Xinlei Huang
Xubin Zheng

First Published August 26, 2026

Research

A network of steroid receptor transcription factors regulates ovarian chromatin remodeling in the transition to ovulation

Doan T. Dinh
Rebecca L. Robker
Darryl L. Russell

First Published August 25, 2026

Method

Accurate reconstruction of spatial cell-type maps and characterization of domain-specific functions based on a gene-aware heterogeneous network

Zilin Li
Zhaoyang Huang
Yan Li
Chenguang Zhao
Liang Yu

First Published August 25, 2026

Method

Bayesian inference of lineage trees by joint analysis of single-cell multimodal lineage-tracing data with BiLinT

Ziwei Chen
Bingwei Zhang
Linrui Tang
Fuzhou Gong
Lin Wan
Liang Ma

First Published August 21, 2026

Research

Nuclear mitochondrial sequences in great ape telomere-to-telomere genomes

Edmundo Torres-González
Marzia A. Cremona
Jessica M. Storer
Mario Ventura
Rachel J. O'Neill
Kateryna D. Makova

First Published August 18, 2026

Method

A biobank-scale method for learning modulators of gene-environment interaction underlying human complex traits from multiple environmental exposures

Zhengtong Liu
Arush Ramteke
Aakarsh Anand
Aditya Gorla
Moonseong Jeong
Sriram Sankararaman

First Published August 18, 2026

Research

Characterizing intra- and intertumor heterogeneity in ovarian high-grade serous carcinoma subtypes using single-cell and spatial transcriptomics

Weishan Li
Laurie Grieshober
Jason Gertz
Adriana Ivich
Jennifer A. Doherty
Casey S. Greene
Stephanie C. Hicks

First Published August 17, 2026

Research

Massively parallel characterization of adolescent idiopathic scoliosis risk variants

Darius Ramkhalawan
Justin Koesterich
Fahim Rejanur Tasin
Carlos Cuna
Anat Kreimer
Nadja Makki

First Published August 17, 2026

Research

Private information leakage from polygenic risk scores

Kirill Nikitin
Gamze Gursoy

First Published August 17, 2026

Resource

A pangenome framework uncovers the role of deletions in repeated evolution of cave-derived traits

Emma Y. Roback
Maggs X
Edward S. Ricemeyer
Adam Warlen
Rachel A. Carroll
Christine G. Elsik
... [+1 authors] ...,
Alex C. Keene
Nicolas Rohner
Suzanne E. McGaugh
Wesley C. Warren

First Published August 13, 2026

Method

Detecting somatic mutations in rare clones using single-cell multiomics

Rhys Gillman
Sonam Dukda
Jerome Sadir
Raymond H Y Louie
Chris Goodnow
Fabio Luciani
Mandeep Singh
Matt A Field

First Published August 13, 2026

Method

A SNP panel for coanalysis of capture and shotgun ancient DNA data

Romain Fournier
Alice Pearson Fulton
Daniel Tabin
David Reich

First Published August 12, 2026

Method

Pattern-Filter structural validation of single-cell RNA-seq reads reduces artifactual barcodes and improves biological resolution

Qiang Su
Xiaoming Zhou
Yi Long
Fuyu Duan
Qizhou Lian

First Published August 12, 2026

Resource

Uniform processing and analysis of IGVF massively parallel reporter assay data with MPRAsnakeflow

Jonathan D. Rosen
Arjun Devadas Vasanthakumari
Kilian Salomon
Nikola de Lange
Pyaree Mohan Dash
Pia Keukeleire Ali Hassan Alejandro Barrera Beniamin Krupkin
... [+4 authors] ...,
Grace Oualline
Martin Kircher
Michael I. Love
Max Schubach

First Published August 11, 2026

Research

Fetal signatures in the 3D genome of iPSC-derived neurons and their implications for disease modeling

Diana R. Zagirova
Anna D. Kononkova
Kirill V. Morozov
Maria N. Molodova
Nikita S. Vaulin
Anastasiia V. Dudkovskaia Polina I. Dozorova Olga I. Efimova Anna V. Tvorogova Kirill A. Ulianov Philipp E. Khaitovich
... [+6 authors] ...,
Sergey V. Razin
Maria A. Lagarkova
Sergey V. Ulianov
Ekaterina E. Khrameeva

First Published August 3, 2026

Research

Moderated designs can balance between batch-effect mitigation and cell loss due to hashtag-assisted pooling in single-cell experiments

Budha Chatterjee
Katrina Gorga
Carly Blair
Yuko Ohta
Michelle Radov
Elizabeth M. Hill
Christopher T. Boughter
Martin Meier-Schellersheim
Nevil J. Singh

First Published July 30, 2026

Research

MEIS1 in conferring sleep abnormalities and impaired cerebellar development" > Cross-species variant-to-function analyses implicate MEIS1 in conferring sleep abnormalities and impaired cerebellar development

Amber J. Zimmerman
Erika Almeraya Del Valle
Matthew C. Pahl
Fusun Doldur-Balli
Brendan T. Keenan
Patrick Z. Liu Zoe Y. Shetty Trisha R. Tsundupalli Justin Palermo Anitra Krishnan James A. Pippin Andrew D. Wells Olivia J. Veatch Alessandra Chesi
... [+9 authors] ...,
Philip R. Gehrman
Alex C. Keene
Allan I. Pack
Struan F.A. Grant

First Published July 30, 2026

Method

Knowledge-driven interpretable neural networks provide mechanistic insight

Yan Ke
Tianwei Yu

First Published July 24, 2026

Method

Fast and memory efficient partial order alignment with minipoa

Haodong Liu
Pinglu Zhang
Yanming Wei
Qinzhong Tian
Yixiao Zhai
Quan Zou
Mengting Niu

First Published July 24, 2026

In memoriam

Jim Watson (1928–2025): a genomics visionary

Aravinda Chakravarti
Evan E. Eichler
Anne C. Ferguson-Smith
Richard A. Gibbs
Eric D. Green
John R. Inglis
Kateryna D. Makova
Richard M. Myers
Hillary E. Sussman

First Published July 23, 2026

Method

Multisource omic alignment and biological feature discovery with Performer encoder and triplet networks

Zihuan Du
Xiaoyu Zhang
Qiang Zhang
Jing Li
Zhijie Cao
Ge Gao
Tao Lin
Dong Wang
Shuai Gao

First Published July 22, 2026

Method

Mosaic integration of spatial multiomic data based on hierarchical graph contrastive learning with SpatialMOSI

Peimeng Zhen
Han Shu
Bingtao Wang
Yongtian Wang
Jialu Hu
Jiajie Peng
Xuequn Shang
Tao Wang
Jing Chen

First Published July 22, 2026

Research

Methylation variability and LINE-1 transcriptional activation in multiple myeloma

Qianhui Wan
Amy Leung
Mahek Vinod Bhandari
Hiroyuki Kato
Joo Y. Song
Dustin E. Schones

First Published July 17, 2026

Research

Identification of genomic features that uniquely impact estrogen receptor alpha binding and its effects on gene expression in endometrial cancer

Alexandra Richey
Noel Kitchen
Craig M. Rush
Jeffery M. Vahrenkamp
Hosiana Abewe
Kyle S. Osbourne
... [+1 authors] ...,
Alex J. Bott
Brian K. Dalley
Jared Rutter
Jason Gertz

First Published July 17, 2026

Method

ComicGTN infers disease-associated rare cell states from single-cell multiomic data using DNA sequence–augmented graph transformer networks

Boran Yang
Jiao Hua
Guanghua Zhou
Yuhui Feng
Jing Qi
Yiyuan Guo
Danshu Sheng
Shuilin Jin

First Published July 17, 2026

Research

Genome-wide crossover analysis in the holocentric pantry moth reveals strong crossover assurance and interference during spermatogenesis

LingSze Lee
Apratim Mitra
Leif Benner
Melania Bruno
Lorielle M. Raab
Rose K. Runyan
Emma Smith
Ryan K. Dale
Leah F. Rosin

First Published July 16, 2026

Method

A sequence-based classifier distinguishes phenotype-associated genes from other gene models in plants

Nikee Shrestha
Zhongjie Ji
Xiuru Dai
Pinghua Li
James C. Schnable

First Published July 14, 2026

Research

The impact of sex, age, and genetic ancestry on DNA methylation across tissues

Winona Oliveros
Jose Miguel Ramirez
Maria Sopena-Rios
Pau Clavell-Revelles
Marta Melé

First Published July 14, 2026

Research

An RNA polymerase III tissue and tumor atlas uncovers context-specific activities linked to 3D epigenome regulatory mechanisms

Simon Lizarazo
Sihang Zhou
Ruiying Cheng
Rajendra K C
Saindhabi Ghosh
Yawei Shen
Qing Liu
Kevin Van Bortle

First Published July 13, 2026

Method

Biobank-scale genotype similarity search and dynamic patient-matched cohort creation with GenoSiS

Kristen Schneider
Murad Chowdhury
Mariano Tepper
Jawad B. Khan
Jonathan A. Shortt
Chris Gignoux
Ryan M. Layer

First Published July 10, 2026

Method

De novo structural variants in autism spectrum disorder disrupt distal regulatory interactions of neuronal genes

Ketrin Gjoni
Xingjie Ren
Amanda Everitt
Yin Shen
Katherine S. Pollard

First Published July 8, 2026

Resource

Dietary effects on cytosolic and mitochondrial tRNA abundance and modification patterns across mouse tissues

Simeiyun Liu
Andrew D. Holmes
Ruoxia Zhao
Cassandra Herbert
Patrick A. Limbach
Todd M. Lowe
Upasna Sharma

First Published July 8, 2026

Research

Long-read sequencing reveals widespread novel splicing and neojunction-derived neoantigens in nasopharyngeal carcinoma

Yi Shuai
Hualiang Yao
Bo Wang
Grace T.Y. Chung
Xiangeng Wang
Ming Zhong Zhongxu Zhu
... [+2 authors] ...,
Cheuk Shuen Li
Chi Man Tsang
Kwok-Wai Lo
Xin Wang

First Published July 8, 2026

Corrigendum

Corrigendum: 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
... [+1 authors] ...,
Tina Lindsay
Juan F. Macias-Velasco
Robert S. Fulton
Ting Wang

First Published July 7, 2026

Corrigendum

Corrigendum: Evaluation of strategies for evidence-driven genome annotation using long-read RNA-seq

Alejandro Paniagua
Cristina Agustín-García
Francisco J. Pardo-Palacios
Thomas Brown
Maite De Maria
Nancy D. Denslow
Camila J. Mazzoni
Ana Conesa

First Published July 7, 2026

Corrigendum

Corrigendum: Systematic evaluation of the effect of polyadenylation signal variants on the expression of disease-associated genes

Meng Chen
Ran Wei
Gang Wei
Mingqing Xu
Zhixi Su
Chen Zhao
Ting Ni

First Published July 7, 2026

Method

High-accuracy SNV calling for bacterial isolates using deep learning with AccuSNV

Herui Liao
Arolyn Conwill
Ian Light-Maka
Martin Fenk
Alyssa H. Mitchell
Evan B. Qu Paul Torrillo
... [+2 authors] ...,
Jacob S. Baker
Lilly R. Bartsch
Felix M. Key
Tami D. Lieberman

First Published July 6, 2026

Resource

Complete sequencing of medaka genomes reveals the architecture of centromeric satellites, giant mobile elements, and sex chromosomes

Yoshihiko Suzuki
Kazuki Ichikawa
Yusuke Inoue
Chie Owa
Haruka Kobayashi
Kenji Morikami Ryohei Nakamura Takafumi Ikeda Manabu Fujie Mayumi Kawamitsu Nana Arakaki Eugene W. Myers Hiroyuki Aburatani Yusuke Takehana Masaru Matsuda
... [+10 authors] ...,
Kiyoshi Naruse
Shigehiro Kuraku
Hiroyuki Takeda
Shinichi Morishita

First Published July 1, 2026

Research

Convergence and conflict among telomere-specialized transposons across 60 million years of Drosophilid evolution

Jae Hak Son
Matthew A. Lawlor
Mahek Virani
Weihuan Cao
Mia T. Levine
Christopher E. Ellison

First Published July 1, 2026

Research

Resf1 is required for proper placental development and configuration of trophoblast cell–specific heterochromatin" > Resf1 is required for proper placental development and configuration of trophoblast cell–specific heterochromatin

Kei Fukuda
Kimiko Inoue
Chikako Shimura
Moe Kitazawa
Michiko Hirose
Takashi Ishiuchi
Shogo Matoba
Atsuo Ogura
Yoichi Shinkai

First Published June 29, 2026

Method

A unified analysis of cell-type- and trajectory-associated pathways in single-cell data using Phoenix

Yudit Halperin
Daphna Nachmani
Michal Rabani

First Published June 29, 2026

Research

Telomere-driven replicative crisis is driven by large-scale changes in genomic architecture

Kate Liddiard
Emmon Coral
Harsh Bhatt
Kez Cleal
Duncan M. Baird

First Published June 29, 2026

Method

Locations of consecutive G•C base pairs direct genomic nucleosome positioning

Hiroaki Kato
Tomohiro Fuse
Shoko Sato
Yohei Kurihara
Wataru Kagawa
Takeshi Urano
Yasuyuki Ohkawa
Hitoshi Kurumizaka
Mitsuhiro Shimizu

First Published June 25, 2026

Method

Spatially informed reference-free cell-type deconvolution for spatial transcriptomics with SpatialCD

Phuong Vo
Yuehua Cui

First Published June 22, 2026

Research

Spatially resolved profiling of steroid nuclear receptors reveals a role for the disordered N-terminal domains in genome targeting and AP-1 interaction

Inbal Zigdon
Achinoam Shoham
Vladimir Mindel
Wajd Manadre
David Jan
Beniamin Krupkin
Dekel Yahav Har-Shai
Yaron Antebi
Naama Barkai

First Published June 22, 2026

Perspective

The Topological Regulatory Logic of noncoding RNA–mediated gene expression

Thomas R. Gingeras

First Published June 17, 2026

Method

Flexible and scalable inference of spatially varying correlation in spatial transcriptomics with spCorr

Chenxin Flora Jiang
Yuxin Yin
Paul Robson
Yuanhao James Li
Jingyi Jessica Li
Dongyuan Song

First Published June 17, 2026

Resource

Tracing genome size dynamics in sharks and rays with inclusive sequence analysis by the Squalomix Consortium

Shigehiro Kuraku
Yawako W. Kawaguchi
Taiki Niwa
Ryo Misawa
Yohey Ogawa
Mitsutaka Kadota Kazuhiro Saito Waichiro Godo Tatsuya Sakamoto
... [+4 authors] ...,
Wataru Takagi
Sachiko Isobe
Kenta Shirasawa
Akane Kawaguchi

First Published June 16, 2026

Research

Covariation of genetic and epigenetic divergence in barn swallows

Sarah A. Mueller
Uthara Srinivasan
Zachary M. Laubach
Drew R. Schield
Jan A.C. von Rönn
Rebecca J. Safran
Jochen B.W. Wolf

First Published June 16, 2026

Method

MAPLE enables ultrasensitive detection of low-frequency cfDNA methylation haplotypes using short capture probes with cost-efficient performance

Nina G. Xie
Yangjunyi Li
Xiaowen He
Liyuan Zhao
Ying Mei
Jingjing Hou Xiaosheng He Shuang Guo Lingjian Yang Xiurui Zhu Congchong Wei Zhihui Xu Yalong Zhang
... [+8 authors] ...,
Min Li
Yonghui Li
Xueguang Sun
Ping Lan

First Published June 16, 2026

Research

cis-regulatory elements on expression divergence in human segmental duplications" > Influence of cis-regulatory elements on expression divergence in human segmental duplications

Colin J. Shew
Gulhan Kaya
Sean P. McGinty
Megan Y. Dennis

First Published June 16, 2026

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

Method

A comparison of ancient DNA yields across ossicles and the petrous bone reveals the best preservation in the stapes and incus

Ekin Sağlıcan
Arda Sevkar
Duygu Deniz Kazancı
Gonzalo Oteo-García
Sevgi Yorulmaz
Kıvılcım Başak Vural Gökhan Çakan Gökçen Adiloğlu Duru Buldak Güneş Duru Aliye Öztan Brenna Hassett Nurcan Kayacan Aslı Erim Özdoğan Anders Götherström
... [+10 authors] ...,
Füsun Özer
Ömür Dilek Erdal
Yılmaz Selim Erdal
Mehmet Somel

First Published June 11, 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

Method

Reference-informed spatial domain detection using weak supervision for spatial transcriptomics

Xin Ma
Weijia Jin
Qing Lu
Ramon C. Sun
Li Chen

First Published June 3, 2026

Method

Transfer learning enhances clinical utility of polygenic scores with small, phenotypically refined cohorts

YuChung Lin
Christoph Patrick Beier
Zuzana Sobiskova
Khalid Hamandi
Tommy Stödberg
Ching Ching Ng Danielle M. Andrade Marte Roa Syvertsen Elena Gardella Alessandro Orsini Choong Yi Fong Jana Zarubova Michaela Kajsová Kheng Seang Lim Kaja Kristine Selmer Emanuele Cerulli Irelli
... [+11 authors] ...,
Guido Rubboli
Pasquale Striano
Deb K. Pal
Lisa J. Strug

First Published June 2, 2026

Method

Augmenting transcriptome annotations through the lens of splicing evolution

Xiaofei Carl Zang
Ke Chen
Irtesam Mahmud Khan
Mingfu Shao

First Published May 29, 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

Resource

A comprehensive single-cell atlas of monoallelic expression across various tissues in zebrafish

Hui Zeng
Zhan Liu
Huimin Xiang
Boliang Liu
Di Zhang
Xionglei He
Shanjun Deng
Li Liu

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

Method

RECOMBINE identifies recurrent composite markers of cell types and states

Xubin Li
Justin Nguyen
Anil Korkut

First Published May 20, 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

Method

Deep learning the TF regulatory code for gene expression

Yuanyuan Li
Xiaohui Huang
Yixuan Qi
Zheng Zhang
Hui Ding
Quan Zou
Li Liu

First Published May 15, 2026

Review

Building genomic data structures from compressed representations using prefix-free parsing

Rahul Varki
Christina Boucher

First Published May 15, 2026

Method

Cultivation-independent high-quality microbial genome reconstruction from environmental samples with midi-metagenomics

John Vollmers
Maximiano Correa Cassal
Anne-Kristin Kaster

First Published May 15, 2026

Research

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

Cutler Ronald
Heid Johanna
Sun Shixiang
Lee Moonsook
Maslov Alex
Zhang Lei
Sidoli Simone
Dong Xiao
Vijg Jan

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 F. Macias-Velasco 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

Method

Tree reconstruction guarantees from CRISPR-Cas9 lineage tracing data using Neighbor-Joining

Kevin An
Sebastian Prillo
Wilson Wu
Ivan Kristanto
Matthew G. Jones
Yun S. Song
Nir Yosef

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

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

J. Carolina Segami
Marie Sémon
Catarina Cunha
Claudia Bergin
Carina F. Mugal
Anna Qvarnström

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

Method

Accurate delineation of cellular niches via integrated spatial transcriptomics and histological imaging with SYMOL

Daoyuan Wang
Fengyi Zhou
Wenlan Chen
Cheng Liang
Fei Guo

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

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

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

Review

Hash functions in nucleotide sequence analysis

Ke Chen
Xiang Li
Qian Shi
Mingfu Shao
Paul Medvedev

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

Method

Using CRISPR barcoding as a molecular clock to capture dynamic processes at single-cell resolution

Yolanda Andres-Lopez
Alice Santambrogio
Ioannis Kafetzopoulos
Christopher D. Todd
Carla El Khouri-Gonzalez
J-Elliot Gonzalez-Alvarez
... [+1 authors] ...,
Celia Alda-Catalinas
Stephen J. Clark
Wolf Reik
Irene Hernando-Herraez

First Published May 1, 2026

Method

Genealogy-based trait association with LOCATER boosts power at loci with allelic heterogeneity

Xinxin Wang
Ryan Christ
Erica Young
Chul Joo Kang
Indraniel Das
Edward A. Belter Markku Laakso
... [+2 authors] ...,
Louis J.M. Aslett
David Steinsaltz
Nathan O. Stitziel
Ira M. Hall

First Published April 16, 2026

Method

Balancing Gene Ontology annotation specificity in protein function prediction based on the protein sequence large graph

Jiangyi Shao
Shutao Chen
Ziwen Wang
Zixu Chen
Bin Liu

First Published April 15, 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

Method

Highly efficient and scarless genome editing via essential-gene-coupled homology-directed repair

Joo Hye Yeo
Hyongbum Henry Kim
Sang Ho Oh
Jinu Lee

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

Method

Dynamics of intronic polyadenylation in the hematopoietic lineage and its regulation by DNA methylation

Richa Rashmi
Abhinaya Muruganandham
Pranita Borkar
Sumana Mallick
Taylor Hubbs
Ari Aviles
Daniel Chung
Irtisha Singh

First Published April 13, 2026

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