Transcriptome

Transcriptomic landscape of the blastema niche in regenerating adult axolotl limbs at single-cell resolution.

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

FGF21 underlies a hormetic response to metabolic stress in methylmalonic acidemia.

Manoli I, Sysol JR, Epping MW, et al. FGF21 underlies a hormetic response to metabolic stress in methylmalonic acidemia. JCI Insight. 2018;3(23). doi:10.1172/jci.insight.124351

Trisomy of a Down Syndrome Critical Region Globally Amplifies Transcription via HMGN1 Overexpression.

Mowery CT, Reyes JM, Cabal-Hierro L, et al. Trisomy of a Down Syndrome Critical Region Globally Amplifies Transcription via HMGN1 Overexpression. Cell Rep. 2018;25(7):1898-1911.e5. doi:10.1016/j.celrep.2018.10.061

Genetic analysis of isoform usage in the human anti-viral response reveals influenza-specific regulation of transcripts under balancing selection.

Ye CJ, Chen J, Villani AC, 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

Deep learning and alignment of spatially resolved single-cell transcriptomes with Tangram.

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

Convergence of independent DISC1 mutations on impaired neurite growth via decreased UNC5D expression.

Srikanth P, Lagomarsino VN, Pearse RV, et al. Convergence of independent DISC1 mutations on impaired neurite growth via decreased UNC5D expression. Transl Psychiatry. 2018;8(1):245. doi:10.1038/s41398-018-0281-9

Base editing: precision chemistry on the genome and transcriptome of living cells.

Rees HA, Liu DR. Base editing: precision chemistry on the genome and transcriptome of living cells. Nat Rev Genet. 2018;19(12):770-788. doi:10.1038/s41576-018-0059-1

Mixed-effects association of single cells identifies an expanded effector CD4 T cell subset in rheumatoid arthritis.

Fonseka CY, Rao DA, Teslovich NC, et al. Mixed-effects association of single cells identifies an expanded effector CD4 T cell subset in rheumatoid arthritis. Sci Transl Med. 2018;10(463). doi:10.1126/scitranslmed.aaq0305

Large-scale reconstruction of cell lineages using single-cell readout of transcriptomes and CRISPR-Cas9 barcodes by scGESTALT.

Raj B, Gagnon JA, Schier AF. Large-scale reconstruction of cell lineages using single-cell readout of transcriptomes and CRISPR-Cas9 barcodes by scGESTALT. Nat Protoc. 2018;13(11):2685-2713. doi:10.1038/s41596-018-0058-x

Barcoded solid-phase RNA capture for Spatial Transcriptomics profiling in mammalian tissue sections.

Salmén F, Ståhl PL, Mollbrink A, et al. Barcoded solid-phase RNA capture for Spatial Transcriptomics profiling in mammalian tissue sections. Nat Protoc. 2018;13(11):2501-2534. doi:10.1038/s41596-018-0045-2

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