Functional Annotation of Animal Genomes (FAANG): current achievements and roadmap

E Giuffra, CK Tuggle… - Annual review of animal …, 2019 - annualreviews.org
Functional annotation of genomes is a prerequisite for contemporary basic and applied
genomic research, yet farmed animal genomics is deficient in such annotation. To address …

Regulation of human MAPT gene expression

ML Caillet-Boudin, L Buée, N Sergeant… - Molecular …, 2015 - Springer
The number of known pathologies involving deregulated Tau expression/metabolism is
increasing. Indeed, in addition to tauopathies, which comprise approximately 30 diseases …

Single-cell RNAseq for the study of isoforms—how is that possible?

Á Arzalluz-Luque, A Conesa - Genome biology, 2018 - Springer
Single-cell RNAseq and alternative splicing studies have recently become two of the most
prominent applications of RNAseq. However, the combination of both is still challenging …

Comprehensive comparative analysis of 5′-end RNA-sequencing methods

X Adiconis, AL Haber, SK Simmons… - Nature …, 2018 - nature.com
Specialized RNA-seq methods are required to identify the 5′ ends of transcripts, which are
critical for studies of gene regulation, but these methods have not been systematically …

Genome-wide identification of tissue-specific long non-coding RNA in three farm animal species

C Kern, Y Wang, J Chitwood, I Korf, M Delany… - BMC genomics, 2018 - Springer
Background Numerous long non-coding RNAs (lncRNAs) have been identified and their
roles in gene regulation in humans, mice, and other model organisms studied; however, far …

GENCODE 2025: reference gene annotation for human and mouse

JM Mudge, S Carbonell-Sala, M Diekhans… - Nucleic Acids …, 2025 - academic.oup.com
GENCODE produces comprehensive reference gene annotation for human and mouse.
Entering its twentieth year, the project remains highly active as new technologies and …

Genome-wide analysis of polymerase III–transcribed Alu elements suggests cell-type–specific enhancer function

XO Zhang, TR Gingeras, Z Weng - Genome research, 2019 - genome.cshlp.org
Alu elements are one of the most successful families of transposons in the human genome.
A portion of Alu elements is transcribed by RNA Pol III, whereas the remaining ones are part …

The Xa7 resistance gene guards the rice susceptibility gene SWEET14 against exploitation by the bacterial blight pathogen

D Luo, JC Huguet-Tapia, RT Raborn, FF White… - Plant …, 2021 - cell.com
Many plant disease resistance (R) genes function specifically in reaction to the presence of
cognate effectors from a pathogen. Xanthomonas oryzae pathovar oryzae (Xoo) uses …

Plasticity and heterogeneity of thermogenic adipose tissue

W Sun, S Modica, H Dong, C Wolfrum - Nature metabolism, 2021 - nature.com
The perception of adipose tissue, both in the scientific community and in the general
population, has changed dramatically in the past 20 years. While adipose tissue was …

Global 5′-UTR RNA structure regulates translation of a SERPINA1 mRNA

PJ Grayeski, CA Weidmann, J Kumar… - Nucleic Acids …, 2022 - academic.oup.com
SERPINA1 mRNAs encode the protease inhibitor α-1-antitrypsin and are regulated through
post-transcriptional mechanisms. α-1-antitrypsin deficiency leads to chronic obstructive …