Genomics

Dissecting the cis-regulatory syntax of transcription initiation with deep learning
Kelly Cochran, Melody Yin, Anika Mantripragada, Jacob Schreiber, Georgi K. Marinov, Sagar R. Shah, Haiyuan Yu, John T. Lis, Anshul Kundaje

bioRxiv 2024.05.28.596138; doi: https://doi.org/10.1101/2024.05.28.596138 New Results

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A platform for multimodal in vivo pooled genetic screens reveals regulators of liver function
Reuben A. Saunders, William E. Allen, Xingjie Pan, Jaspreet Sandhu, Jiaqi Lu, Thomas K. Lau, Karina Smolyar, Zuri A. Sullivan, Catherine Dulac, Jonathan S. Weissman, Xiaowei Zhuang

bioRxiv 2024.11.18.624217; doi: https://doi.org/10.1101/2024.11.18.624217 New Results

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Expansion of a single Helitron subfamily in Hydractinia symbiolongicarpus suggests a shared mechanism of cnidarian chromosomal extension
Tetsuo Kon, Koto Kon-Nanjo, Oleg Simakov

bioRxiv 2024.11.21.624632; doi: https://doi.org/10.1101/2024.11.21.624632 New Results

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Green Elegance T2T: An upgraded telomere-to-telomere genome assembly and annotation of looseleaf lettuce (Lactuca sativa var. crispa)
Bin Zhang, Xue Liu, Haifeng Ding, Yesheng Yang, Jinfu Tang, Dayong Li

bioRxiv 2024.11.20.624396; doi: https://doi.org/10.1101/2024.11.20.624396 New Results

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Transcriptome sample statistics of the responses the sugar beet root maggot, Tetanops myopaeformis has while experiencing susceptible and resistant reactions with sugar beet, Beta vulgaris ssp. vulgaris
Sudha Acharya, Nadim W. Alkharouf, Muhammad Massub Tehseen, Chenggen Chu, Vincent P. Klink

bioRxiv 2024.11.19.624160; doi: https://doi.org/10.1101/2024.11.19.624160 New Results

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Exploring the Hypothetical Role of Bacteroides Species in Depression Progression: Insights from Metagenomic Analysis
Zihua Li, Jingxi Sun, Jinlong Yang, Panpan Han, Liping Min, Yongkang Cheng, Yuanqiang Zou, Zhuhua Liu

bioRxiv 2024.11.20.624524; doi: https://doi.org/10.1101/2024.11.20.624524 New Results

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ERGA-BGE Reference Genome of the Northern chamois (Rupicapra rupicapra): Europe’s most abundant mountain ungulate
Elena Buzan, Aja Bončina, Boštjan Pokorny, Nuria Escudero, Rosa Fernández, Astrid Böhne, Rita Monteiro, Marta Gut, Francisco Câmara Ferreira, Fernando Cruz, Jèssica Gómez-Garrido, Tyler S. Alioto, Leanne Haggerty, Fergal Martin, Diego De Panis

bioRxiv 2024.11.20.624344; doi: https://doi.org/10.1101/2024.11.20.624344 New Results

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A phased chromosome-level genome of the annelid tubeworm Galeolaria caespitosa
Monique van Dorssen, Emily K. Belcher, Cristóbal Gallegos, Kathryn A. Hodgins, Keyne Monro

bioRxiv 2024.11.18.624032; doi: https://doi.org/10.1101/2024.11.18.624032 New Results

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Efficient differential expression analysis of large-scale single cell transcriptomics data using dreamlet
Gabriel E. Hoffman, Donghoon Lee, Jaroslav Bendl, N.M. Prashant, Aram Hong, Clara Casey, Marcela Alvia, Zhiping Shao, Stathis Argyriou, Karen Therrien, Sanan Venkatesh, Georgios Voloudakis, Vahram Haroutunian, John F. Fullard, Panos Roussos

bioRxiv 2023.03.17.533005; doi: https://doi.org/10.1101/2023.03.17.533005 New Results

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Within-host genetic diversity of SARS-CoV-2 across animal species
Sana Naderi, Selena M. Sagan, B. Jesse Shapiro

bioRxiv 2024.04.03.587973; doi: https://doi.org/10.1101/2024.04.03.587973 New Results

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Genomics

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