Van Renne N, Wei R, Pochet N, Nauwynck HJ. Dissecting clinical outcome of porcine circovirus type 2 with in vivo derived transcriptomic signatures of host tissue responses. BMC Genomics. 2018;19(1):831. doi:10.1186/s12864-018-5217-5.

Ravikumar V, Nalpas NC, Anselm V, et al. In-depth analysis of Bacillus subtilis proteome identifies new ORFs and traces the evolutionary history of modified proteins. Sci Rep. 2018;8(1):17246. doi:10.1038/s41598-018-35589-9.

Leigh ND, Dunlap GS, Johnson K, et al. Transcriptomic landscape of the blastema niche in regenerating adult axolotl limbs at single-cell resolution. Nat Commun. 2018;9(1):5153. doi:10.1038/s41467-018-07604-0.

Anahtar M, Chan LW, Ko H, et al. Host protease activity classifies pneumonia etiology. Proc Natl Acad Sci U S A. 2022;119(25):e2121778119. doi:10.1073/pnas.2121778119.

Biancalani T, Scalia G, Buffoni L, et al. Deep learning and alignment of spatially resolved single-cell transcriptomes with Tangram. Nat Methods. 2021;18(11):1352-1362. doi:10.1038/s41592-021-01264-7.

Ding J, Regev A. Deep generative model embedding of single-cell RNA-Seq profiles on hyperspheres and hyperbolic spaces. Nat Commun. 2021;12(1):2554. doi:10.1038/s41467-021-22851-4.

Ye CJ, Chen J, Villani A-C, et al. Genetic analysis of isoform usage in the human anti-viral response reveals influenza-specific regulation of transcripts under balancing selection. Genome Res. 2018;28(12):1812-1825. doi:10.1101/gr.240390.118.

Li BB, Qian C, Roberts TM, Zhao JJ. Targeted Profiling of RNA Translation. Curr Protoc Mol Biol. 2019;125(1):e71. doi:10.1002/cpmb.71.

Goods BA, Vahey JM, Steinschneider AF, Askenase MH, Sansing L, Love C. Blood handling and leukocyte isolation methods impact the global transcriptome of immune cells. BMC Immunol. 2018;19(1):30. doi:10.1186/s12865-018-0268-6.

Moffitt JR, Bambah-Mukku D, Eichhorn SW, et al. Molecular, spatial, and functional single-cell profiling of the hypothalamic preoptic region. Science. 2018;362(6416). doi:10.1126/science.aau5324.