Searching journal content for articles similar to Koeuth et al. 5 (4): 408.

Displaying results 1-10 of 5993

For checked items

view abstracts
download to citation manager

Select this article
Method: Long-read reconstruction of many diverse haplotypes with devider
- Jim Shaw,
- Christina Boucher,
- Yun William Yu,
- Noelle Noyes,
- and Heng Li
Genome Res. December 2025 35: 2637-2649; Published in Advance September 23, 2025, doi:10.1101/gr.280510.125
...-read mouse gut meta from CAMI2. Each method was rerun after aligning the pooled data set against the AMR gene references. Error bars indicate standard errors after binning data points along the x-axis. Box plots show the median, the 25th and 75th percentiles, and 1.5× the interquartile range.AMR data set...
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
...Transposable elements contribute to the evolution of host shift–related genes in cactophilic Drosophila species Daniel Siqueira de Oliveira1,2,3, Anaïs Larue2, William Vilas Boas Nunes2, Francois Sabot4, Alejandra Bodelón5, María Pilar García Guerreiro5, Cristina Vieira2 and Claudia Marcia...
Select this article
Research: Genetic variation in recalcitrant repetitive regions of the Drosophila melanogaster genome
- Harsh G. Shukla,
- Mahul Chakraborty,
- and J.J. Emerson
Genome Res. September 2025 35: 2023-2040; Published in Advance July 16, 2025, doi:10.1101/gr.280728.125
...; red boxes occurring in pericentromeric regions of Chromosomes 2 and 3). The median read length (15–20 kb) of HiFi sequences is not sufficient to span many satellites and other repetitive sequences (Porubsky et al. 2023) enriched in the pericentromeric and centromeric heterochromatin (Jagannathan et al...
OPEN ACCESS ARTICLE
Select this article
Research: Complete genomes of Asgard archaea reveal diverse integrated and mobile genetic elements
- Luis E. Valentin-Alvarado,
- Ling-Dong Shi,
- Kathryn E. Appler,
- Alexander Crits-Christoph,
- Valerie De Anda,
- Benjamin A. Adler,
- Michael L. Cui,
- Lynn Ly,
- Pedro Leão,
- Richard J. Roberts,
- Rohan Sachdeva,
- Brett J. Baker,
- David F. Savage,
- and Jillian F. Banfield
Genome Res. October 2024 34: 1595-1609; Published in Advance October 15, 2024, doi:10.1101/gr.279480.124
...3. Integration and excision of Yucahu. (A) For the 60 cm sample, elevated coverage and paired reads indicate that Yucahu-i is integrated into the , excised from some s (blue lines), and coexists in circularized form (yellow lines). The red box indicates elevated coverage from a related gene from...
OPEN ACCESS ARTICLE
Select this article
Research: Transcriptomic landscape of transposable elements reveals LTR7-PLAAT4 as a potential oncogene and therapeutic target in pancreatic adenocarcinoma
- Meilong Shi,
- Chuanqi Teng,
- Shan Zhang,
- Xiaobo He,
- Lingyun Xu,
- Fengxian Han,
- Rongqi Wen,
- Ganjun Yu,
- Jingwen Liu,
- Yang Feng,
- Yanfeng Wu,
- Yan Ren,
- Gang Jin,
- and Jing Li
Genome Res. February 2026 36: 275-290; Published in Advance January 8, 2026, doi:10.1101/gr.280528.125
.... The “Expression” panel displays the expression levels of samples featuring the onco-exaptation candidate, with the candidate represented by red solid circles. Samples without supporting splicing reads or expression levels below 1 TPM are denoted by black hollow circles. Each box represents the median...
OPEN ACCESS ARTICLE
Select this article
Resource: Exploring the epigenome profiles of repetitive elements with the WashU Repeat Browser
- Jiawei Shen,
- Siyuan Cheng,
- Deepak Purushotham,
- Xiaoyu Zhuo,
- Alan Y Du,
- Wenjin Zhang,
- Daofeng Li,
- and Ting Wang
Genome Res. February 21, 2025 gr.279764.124; Published in Advance February 21, 2025, doi:10.1101/gr.279764.124
...Selection v1.0) is provided at the top. (E) Zoomed-in Genome Browser view of one example LTR12C element highlighted in (D) with a red dashed box. Figure 4. Comprehensive visualization of associations between four TFs (CTCF, SMC3, RAD21, EP300) and TEs. (A) A heatmap depicting the RPKM ratios of signal over...
- Abstract
- Full Text (PDF)
OPEN ACCESS ARTICLEACCEPTED MANUSCRIPT
Select this article
Resource: Charting the regulatory landscape of TP53 on transposable elements in cancer
- Xuan Qu,
- Yonghao Liang,
- Colin McCornack,
- Xiaoyun Xing,
- Heather Schmidt,
- Chad Tomlinson,
- Catrina Fronick,
- Edward A. Belter, Jr.,
- Juan F. Macias-Velasco,
- and Ting Wang
Genome Res. June 2025 35: 1456-1471; Published in Advance May 13, 2025, doi:10.1101/gr.279398.124
...). In normal and developed tissues, TEs are often suppressed by epigenetic mechanisms such as DNA methylation, repressive histone marks, and RNA and protein products such as the PIWI-interacting RNAs (piRNA) and the Krüppel-associated box (KRAB)-containing zinc finger protein (KZFP) family proteins (Liang et...
OPEN ACCESS ARTICLE
Select this article
Research: Lake Malawi cichlid pangenome graph reveals extensive structural variation driven by transposable elements
- Fu Xiang Quah,
- Miguel Vasconcelos Almeida,
- Moritz Blumer,
- Chengwei Ulrika Yuan,
- Bettina Fischer,
- Kirsten See,
- Ben Jackson,
- Richard Zatha,
- Bosco Rusuwa,
- George F. Turner,
- M. Emília Santos,
- Hannes Svardal,
- Martin Hemberg,
- Richard Durbin,
- and Eric Miska
Genome Res. May 2025 35: 1094-1107; Published in Advance April 10, 2025, doi:10.1101/gr.279674.124
...of Malawi, P.O. Box 280, Zomba, Malawi; 4School of Environmental and Natural Sciences, Bangor University, Bangor, Gwynedd LL57 2TH, United Kingdom; 5Department of Zoology, University of Cambridge, Cambridge CB2 3EJ, United Kingdom; 6Department of Biology, University of Antwerp, 2610 Wilrijk, Belgium; 7The...
OPEN ACCESS ARTICLE
Select this article
Research: Lambdoid phages with abundant Chi recombination hotspots reflect diverse viral strategies for recombination-dependent growth
- Clarence Zheng,
- Sherwood R. Casjens,
- Alan R. Davidson,
- Susan K. Amundsen,
- and Gerald R. Smith
Genome Res. August 2025 35: 1767-1780; Published in Advance July 10, 2025, doi:10.1101/gr.280248.124
...members (Fig. 5).View larger version: In this window In a new window Figure 5. Lambdoid recombination modules. Genes are indicated by pointed boxes drawn approximately to scale as follows: SSB (green), nuclease (red), SAP (orange), and anti-RecBCD (blue). Different shades of the same color indicate...
OPEN ACCESS ARTICLE
Select this article
Research: Distinct classes of lamina-associated domains are defined by differential patterns of repressive histone methylation
- Caden J. Martin,
- Elizabeth A. Oser,
- Prabakaran Nagarajan,
- Liudmila V. Popova,
- Benjamin D. Sunkel,
- Benjamin Z. Stanton,
- and Mark R. Parthun
Genome Res. September 2025 35: 1959-1974; Published in Advance August 5, 2025, doi:10.1101/gr.280380.124
...signal around LAD borders. Boxes show a 500-kb window centered around the LAD borders (vertical dotted line). For LADs that are shorter than the 250-kb range shown, the excess area beyond the opposite LAD border was not included to ensure only LAD chromatin was plotted in the area denoted as the LAD...
OPEN ACCESS ARTICLE

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Koeuth et al. 5 (4): 408.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: