@article{liu2026tissue,
  title   = {Tissue identity is the dominant determinant of cross-species transferability of a porcine developmental programme},
  author  = {Tianyuan Liu and Rujing Lei and Ilyas M. Khan and Peter Theobald},
  journal = {BMC Genomics},
  year    = {2026},
  doi     = {10.1186/s12864-026-13103-0},
}

@article{liu2026tusco,
  title   = {TUSCO: benchmarking transcriptome reconstruction with endogenous single-isoform controls},
  author  = {Tianyuan Liu and Alejandro Paniagua and Fabian Jetzinger and Luis Ferrández-Peral and Adam Frankish and Ana Conesa},
  journal = {Nature Communications},
  year    = {2026},
  volume  = {17},
  pages   = {5654},
  doi     = {10.1038/s41467-026-72089-1},
}

@article{monzó2025transcriptomics,
  title   = {Transcriptomics in the era of long-read sequencing},
  author  = {Carolina Monzó and Tianyuan Liu and Ana Conesa},
  journal = {Nature Reviews Genetics},
  year    = {2025},
  volume  = {26},
  pages   = {681--701},
  doi     = {10.1038/s41576-025-00828-z},
}

@article{liu2025profiling,
  title   = {Profiling the epigenome using long-read sequencing},
  author  = {Tianyuan Liu and Ana Conesa},
  journal = {Nature Genetics},
  year    = {2025},
  volume  = {57},
  pages   = {27--41},
  doi     = {10.1038/s41588-024-02038-5},
}

@article{pardo-palacios2024systematic,
  title   = {Systematic assessment of long-read RNA-seq methods for transcript identification and quantification},
  author  = {Francisco J. Pardo-Palacios and Dingjie Wang and … and Tianyuan Liu and … Ana Conesa and Angela N. Brooks},
  journal = {Nature Methods},
  year    = {2024},
  volume  = {21},
  pages   = {1349--1363},
  doi     = {10.1038/s41592-024-02298-3},
}

@article{pardo-palacios2024sqanti3,
  title   = {SQANTI3: curation of long-read transcriptomes for accurate identification of known and novel isoforms},
  author  = {Francisco J. Pardo-Palacios and Ángeles Arzalluz-Luque and … and Tianyuan Liu and … and Ana Conesa},
  journal = {Nature Methods},
  year    = {2024},
  volume  = {21},
  pages   = {793--797},
  doi     = {10.1038/s41592-024-02229-2},
}

@article{mestre-tomás2023sqantisim,
  title   = {SQANTI-SIM: a simulator of controlled transcript novelty for lrRNA-seq benchmark},
  author  = {Jorge Mestre-Tomás and Tianyuan Liu and Francisco J. Pardo-Palacios and Ana Conesa},
  journal = {Genome Biology},
  year    = {2023},
  volume  = {24},
  pages   = {286},
  doi     = {10.1186/s13059-023-03127-0},
}

@article{liu2022paintomics,
  title   = {PaintOmics 4: new tools for the integrative analysis of multi-omics datasets supported by multiple pathway databases},
  author  = {Tianyuan Liu and Pedro Salguero and Marko Petek and … and Ana Conesa},
  journal = {Nucleic Acids Research},
  year    = {2022},
  volume  = {50},
  pages   = {W551--W559},
  doi     = {10.1093/nar/gkac352},
}

@article{liu2020transcriptional,
  title   = {Transcriptional differences for COVID-19 disease map genes between males and females indicate a different basal immunophenotype relevant to the disease},
  author  = {Tianyuan Liu and Leandro Balzano-Nogueira and Ana Lleo and Ana Conesa},
  journal = {Genes},
  year    = {2020},
  volume  = {11},
  pages   = {1447},
  doi     = {10.3390/genes11121447},
}

@article{ylla2020mircure,
  title   = {MirCure: a tool for quality control, filter and curation of microRNAs of animals and plants},
  author  = {Guillem Ylla and Tianyuan Liu and Ana Conesa},
  journal = {Bioinformatics},
  year    = {2020},
  volume  = {36},
  pages   = {i618--i624},
  doi     = {10.1093/bioinformatics/btaa889},
}