Searching journal content for articles similar to Liu et al. 31 (4): 713.

Displaying results 1-10 of 17

For checked items

view abstracts
download to citation manager

Select this article
Research: Conserved non-AUG uORFs revealed by a novel regression analysis of ribosome profiling data
- Pieter Spealman,
- Armaghan W. Naik,
- Gemma E. May,
- Scott Kuersten,
- Lindsay Freeberg,
- Robert F. Murphy,
- and Joel McManus
Genome Res. February 2018 28: 214-222; Published in Advance December 18, 2017, doi:10.1101/gr.221507.117
...codon/anticodon base pairing during eukaryotic translation initiation. RNA 15: 138–152. ↵Langmead B, Trapnell C, Pop M, Salzberg SL. 2009. Ultrafast and memory-efficient alignment of short DNA sequences to the human . Genome Biol 10: R25. ↵Lareau LF, Green RE, Bhatnagar RS, Brenner SE. 2004...
OPEN ACCESS ARTICLE
Select this article
Research: Dynamic metabolic and molecular changes during seasonal shrinking in Sorex araneus
- William R. Thomas,
- Cecilia Baldoni,
- Yuanyuan Zeng,
- David Carlson,
- Julie Holm-Jacobsen,
- Marion Muturi,
- Dominik von Elverfeldt,
- Tue B. Bennike,
- Dina K.N. Dechmann,
- John Nieland,
- Angelique P. Corthals,
- and Liliana M. Dávalos
Genome Res. January 2026 36: 61-70; Published in Advance November 4, 2025, doi:10.1101/gr.280639.125
...: an ultra-fast...
OPEN ACCESS ARTICLE
Select this article
Method: OMA standalone: orthology inference among public and custom genomes and transcriptomes
- Adrian M. Altenhoff,
- Jeremy Levy,
- Magdalena Zarowiecki,
- Bartłomiej Tomiczek,
- Alex Warwick Vesztrocy,
- Daniel A. Dalquen,
- Steven Müller,
- Maximilian J. Telford,
- Natasha M. Glover,
- David Dylus,
- and Christophe Dessimoz
Genome Res. July 2019 29: 1152-1163; Published in Advance June 24, 2019, doi:10.1101/gr.243212.118
...contain sites in which more than 60% were occupied by amino acids.Species trees were constructed using IQ-TREE, with 1000 ultrafast bootstrap replicates (Hoang et al. 2018). Model selection was determined by ModelFinder, with a gamma rate of heterogeneity, which found the best fitting model for each...
OPEN ACCESS ARTICLE
Select this article
Research: Comparative motif discovery combined with comparative transcriptomics yields accurate targetome and enhancer predictions
- Marina Naval-Sánchez,
- Delphine Potier,
- Lotte Haagen,
- Máximo Sánchez,
- Sebastian Munck,
- Bram Van de Sande,
- Fernando Casares,
- Valerie Christiaens,
- and Stein Aerts
Genome Res. January 2013 23: 74-88; Published in Advance October 15, 2012, doi:10.1101/gr.140426.112
...in terms of their perturbation in the mutant eye, and in terms of PR-specific enhancer-reporters. Discussion Sequencing-based expression profiling using RNA-seq or Tag-seq provides the opportunity to obtain -wide quantitative gene expression levels in any tissue and in any species (McManus et al. 2010...
Select this article
Research: Transposable elements contribute to the evolution of host shift–related genes in cactophilic Drosophila species
- Daniel Siqueira de Oliveira,
- Anaïs Larue,
- William Vilas Boas Nunes,
- Francois Sabot,
- Alejandra Bodelón,
- María Pilar García Guerreiro,
- Cristina Vieira,
- and Claudia Marcia Aparecida Carareto
Genome Res. March 2026 36: 487-505; Published in Advance February 10, 2026, doi:10.1101/gr.280463.125
...-exonized transcript with a LINE/R1 element located in its seventh intron. The depth in exons, including the seventh intron, was assessed with RNA-seq from head tissue.In heads and larvae, ∼49% of the detected chimeric transcript isoforms were not assembled or had a contribution to gene expression <25% (Fig. 4B...
Select this article
Resource: High-quality sika deer omics data and integrative analysis reveal genic and cellular regulation of antler regeneration
- Zihe Li,
- Ziyu Xu,
- Lei Zhu,
- Tao Qin,
- Jinrui Ma,
- Zhanying Feng,
- Huishan Yue,
- Qing Guan,
- Botong Zhou,
- Ge Han,
- Guokun Zhang,
- Chunyi Li,
- Shuaijun Jia,
- Qiang Qiu,
- Dingjun Hao,
- Yong Wang,
- and Wen Wang
Genome Res. January 2025 35: 188-201; Published in Advance November 14, 2024, doi:10.1101/gr.279448.124
...that these TFs played important roles in the corresponding organs of model organisms, such as HNF4A in the liver (Radi et al. 2023) and MEF2s in the muscle (Taylor and Hughes 2017). The regulatory pattern of PP tissues was similar to that of skin and rumen, contrasting with the results of ATAC-seq and RNA-seq...
OPEN ACCESS ARTICLE
Select this article
Resource: Streamlined spatial and environmental expression signatures characterize the minimalist duckweed Wolffia australiana
- Tom Denyer,
- Pin-Jou Wu,
- Kelly Colt,
- Bradley W. Abramson,
- Zhili Pang,
- Pavel Solansky,
- Allen Mamerto,
- Tatsuya Nobori,
- Joseph R. Ecker,
- Eric Lam,
- Todd P. Michael,
- and Marja C.P. Timmermans
Genome Res. July 2024 34: 1106-1120; Published in Advance July 1, 2024, doi:10.1101/gr.279091.124
...sequencing (scRNA-seq) have opened the possibilities for systems approaches to query cellular specialization during development and their specific responses to environmental cues, allowing for transcriptomic profiling at high spatiotemporal resolution (Seyfferth et al. 2021; Denyer and Timmermans 2022...
OPEN ACCESS ARTICLE
Select this article
Resource: High-quality assembly of the Chinese white truffle genome and recalibrated divergence time estimate provide insight into the evolutionary dynamics of Tuberaceae
- Jacopo Martelossi,
- Jacopo Vujovic,
- Yue Huang,
- Alessia Tatti,
- Kaiwei Xu,
- Federico Puliga,
- Yuanxue Chen,
- Omar Rota Stabelli,
- Fabrizio Ghiselli,
- Xiaoping Zhang,
- and Alessandra Zambonelli
Genome Res. November 2025 35: 2601-2616; Published in Advance August 21, 2025, doi:10.1101/gr.280368.124
...of Panzhihua, China). The fruiting body was isolated and taxonomically identified based on morphology and molecular characteristics and sent to Personalbio for whole- sequencing (WGS). WGS was performed both on a PacBio Sequel II obtaining 38+ Gb of HiFi reads and on an Illumina NovaSeq 6000 platform. RNA-seq...
Select this article
Method: Accurate assembly of circular RNAs with TERRACE
- Tasfia Zahin,
- Qian Shi,
- Xiaofei Carl Zang,
- and Mingfu Shao
Genome Res. September 2024 34: 1365-1370; Published in Advance July 26, 2024, doi:10.1101/gr.279106.124
....1007/978-1-4939-3578-9_5 ↵Dobin A, Davis C, Schlesinger F, Drenkow J, Zaleski C, Jha S, Batut P, Chaisson M, Gingeras T. 2013. STAR: ultrafast universal RNA-seq aligner. Bioinformatics 29: 15–21. doi:10.1093/bioinformatics/bts635 ↵The ENCODE Project Consortium. 2012. An integrated encyclopedia of DNA elements in the human...
Select this article
Research: Birth of protein-coding exons by ancient domestication of LINE-1 retrotransposon
- Koichi Kitao,
- Kenji Ichiyanagi,
- and So Nakagawa
Genome Res. June 2025 35: 1287-1300; Published in Advance May 8, 2025, doi:10.1101/gr.280007.124
...version: In this window In a new window Figure 2. Identification of Lyosin in the assemblies of Tetrapoda. (A) Maximum likelihood-based phylogenetic tree of the Lyosin proteins obtained by NCBI BLASTP search. Open circles in internal nodes indicate >95% ultrafast bootstrap support (1000 replicates). (B...

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Liu et al. 31 (4): 713.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: