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Method

Viral haplotype reconstruction from long reads with virCHap

  • Yun Gao
  • Bingqiang Liu
  • Guojun Li
  • Ting Yu
  • First Published September 23, 2026
Method

Multilevel ensemble for genome-wide prediction of cell-specific G-quadruplexes utilizing transformed sequences and enhanced chromatin accessibility with G4Beacon2

  • Tiantong Tao
  • Rongxin Zhang
  • Huiling Shu
  • Yuqing Ma
  • Zhuofan Zhang
  • Jing Tu
  • Xiao Sun
  • First Published September 22, 2026
Method

Decoding cell division history and lineage-resolved phenotypic patterns from single-cell barcode and transcriptomic data

  • Xiaochen Yu
  • Zihao Wang
  • Zhenquan Zhang
  • Yuxin Wang
  • Yuting Lin
  • Lijun Hong
  • ... [+1 authors] ...,
  • Xiaoshu Chen
  • Xionglei He
  • Jian-Rong Yang
  • Jiajun Zhang
  • First Published September 21, 2026
Method

Deep genomic models of allele-specific measurements

  • Xinming Tu
  • Alexander Sasse
  • Kaitavjeet Chowdhary
  • Anna Spiro
  • Liang Yang
  • Maria Chikina
  • Christophe Benoist
  • Sara Mostafavi
  • First Published September 21, 2026
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
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
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