Neural Distance Embeddings for Biological Sequences
Gabriele Corso, Rex Ying, Michal Pándy, Petar Veličković, Jure Leskovec, Pietro Liò
abs: https://arxiv.org/abs/2109.09740
github: https://github.com/gcorso/NeuroSE
https://arxiv.org/pdf/2109.09740.pdf
https://proceedings.neurips.cc/paper/2021/file/9a1de01f893e0d2551ecbb7ce4dc963e-Paper.pdf
Liked the extensive scATAC-seq analysis. We discussed this in a journal club.
https://www.nature.com/articles/s41586-021-03209-8
Single-cell epigenomics reveals mechanisms of human cortical development
Ryan S. Ziffra, Chang N. Kim, Jayden M. Ross, Amy Wilfert, Tychele N. Turner, Maximilian Haeussler, Alex M. Casella, Pawel F. Przytycki, Kathleen C. Keough, David Shin, Derek Bogdanoff, Anat Kreimer, Katherine S. Pollard, Seth A. Ament, Evan E. Eichler, Nadav Ahituv & Tomasz J. Nowakowski
Nature volume 598, pages 205–213 (2021)
eQTLs paper is out in Nature Genetics:
Zeng, B., Bendl, J., Kosoy, R. et al. [Panos R] Multi-ancestry eQTL meta-analysis of human brain identifies candidate causal variants for brain-related traits. Nat Genet (2022).
https://doi.org/10.1038/s41588-021-00987-9
https://www.nature.com/articles/s41586-021-04064-3
some focus on its main method
MR-MEGA
https://academic.oup.com/hmg/article/26/18/3639/3976569
Published: 05 January 2022
Decoding gene regulation in the fly brain
Jasper Janssens, Sara Aibar, Ibrahim Ihsan Taskiran, Joy N. Ismail, Alicia Estacio Gomez, Gabriel Aughey, Katina I. Spanier, Florian V. De Rop, Carmen Bravo González-Blas, Marc Dionne, Krista Grimes, Xiao Jiang Quan, Dafni Papasokrati, Gert Hulselmans, Samira Makhzami, Maxime De Waegeneer, Valerie Christiaens, Tony Southall & Stein Aerts Nature (2022)
Nature paper today on Fly brain GRNs, https://doi.org/10.1038/s41586-021-04262-z
Some integrative analyses might be useful…
