Comparative transcriptomics reveals human-specific cortical features

NL Jorstad, JHT Song, D Exposito-Alonso, H Suresh… - Science, 2023 - science.org
The cognitive abilities of humans are distinctive among primates, but their molecular and
cellular substrates are poorly understood. We used comparative single-nucleus …

Champagne: automated whole-genome phylogenomic character matrix method using large genomic indels for homoplasy-free inference

JK Schull, Y Turakhia, JA Hemker… - Genome Biology and …, 2022 - academic.oup.com
We present Champagne, a whole-genome method for generating character matrices for
phylogenomic analysis using large genomic indel events. By rigorously picking orthologous …

Whole-genome comparisons identify repeated regulatory changes underlying convergent appendage evolution in diverse fish lineages

HI Chen, Y Turakhia, G Bejerano… - Molecular Biology and …, 2023 - academic.oup.com
Fins are major functional appendages of fish that have been repeatedly modified in different
lineages. To search for genomic changes underlying natural fin diversity, we compared the …

Patterns and tempo of PCSK9 pseudogenizations suggest an ancient divergence in mammalian cholesterol homeostasis mechanisms

B Van Asch, LF Teixeira da Costa - Genetica, 2021 - Springer
Proprotein convertase subtilisin/kexin type 9 (PCSK9) plays a central role in cholesterol
homeostasis in humans as a major regulator of LDLR levels. PCSK9 is an intriguing …

Evolution of ion channels in cetaceans: a natural experiment in the tree of life

C Uribe, MF Nery, K Zavala, GA Mardones, G Riadi… - Scientific Reports, 2024 - nature.com
Cetaceans represent a natural experiment within the tree of life in which a lineage changed
from terrestrial to aquatic habitats. This shift involved phenotypic modifications, representing …

Accurate, scalable, and fully automated inference of species trees from raw genome assemblies using ROADIES

A Gupta, S Mirarab, Y Turakhia - bioRxiv, 2024 - biorxiv.org
Inference of species trees plays a crucial role in advancing our understanding of
evolutionary relationships and has immense significance for diverse biological and medical …