Searching journal content for articles similar to Collora and Ho 33 (6): 891.

Displaying results 1-10 of 4105

For checked items

view abstracts
download to citation manager

Select this article
Research: Mitotic chromosomes harbor cell type– and species-specific structural features within a universal loop array conformation
- Marlies E. Oomen,
- A. Nicole Fox,
- Inma Gonzalez,
- Amandine Molliex,
- Thaleia Papadopoulou,
- Pablo Navarro,
- and Job Dekker
Genome Res. August 2025 35: 1733-1744; Published in Advance June 6, 2025, doi:10.1101/gr.280648.125
..., such as cohesins, which can be blocked by the chromatin binding protein CCCTC-binding factor (CTCF) when bound to its motif (Rao et al. 2014, 2017; de Wit et al. 2015; Sanborn et al. 2015; Dekker and Mirny 2016; Fudenberg et al. 2016; Nora et al. 2017; Nuebler et al. 2018). Although the mechanisms that establish...
OPEN ACCESS ARTICLE
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: The chromatin landscape of the histone-possessing Bacteriovorax bacteria
- Georgi K. Marinov,
- Benjamin Doughty,
- Anshul Kundaje,
- and William J. Greenleaf
Genome Res. January 2025 35: 109-123; Published in Advance November 21, 2024, doi:10.1101/gr.279418.124
...and ssDNA, and 3D conformation in such bacteria, and it allows us to chart some of the broadest trends in chromatin organization across the tree of life (Fig. 7; Supplemental Fig. 3).View larger version: In this window In a new window Figure 7. Comparison of the chromatin landscape across the deep...
Select this article
Research: Genome-wide nucleosome and transcription factor responses to genetic perturbations reveal chromatin-mediated mechanisms of transcriptional regulation
- Kevin Moyung,
- Yulong Li,
- Heather K. MacAlpine,
- Alexander J. Hartemink,
- and David M. MacAlpine
Genome Res. January 2026 36: 115-128; Published in Advance December 9, 2025, doi:10.1101/gr.279637.124
...@cs.duke.eduAbstractEpigenetic mechanisms contribute to gene regulation by altering chromatin accessibility through changes in transcription factor (TF) and nucleosome occupancy across the . Despite numerous studies focusing on changes in gene expression, the intricate chromatin-mediated regulatory code remains largely uncharted...
Select this article
Research: Cell-type- and chromosome-specific chromatin landscapes and DNA replication programs of Drosophila testis tumor stem cell–like cells
- Jennifer A. Urban,
- Daniel Ringwalt,
- John M. Urban,
- Wingel Xue,
- Ryan Gleason,
- Keji Zhao,
- and Xin Chen
Genome Res. January 2026 36: 83-101; Published in Advance December 10, 2025, doi:10.1101/gr.280809.125
...of chromatin regulators in GSC-like cells, revealed by our scRNA-seq analysis, suggests their potential roles in shaping distinct chromatin landscapes to regulate germline functions. This prompted us to investigate cell-type-specific chromatin patterns in GSC-like and CySC-like cells, respectively. To achieve...
OPEN ACCESS ARTICLE
Select this article
Method: Statistically rigorous and computationally efficient chromatin stripe detection with Quagga
- Fan Feng,
- Sean Moran,
- Anders S. Hansen,
- Xiaotian Zhang,
- and Jie Liu
Genome Res. January 2026 36: 159-168; Published in Advance November 12, 2025, doi:10.1101/gr.280132.124
...and convenient tool to help scientists explore the relationships between chromatin architectural stripes and important biological questions.Chromatin conformation capture (3C) techniques, especially proximity ligation–based methods, have revealed that the hierarchical structures of DNA break down into distinct...
OPEN ACCESS ARTICLE
Select this article
Method: Robust chromatin state annotation
- Mehdi Foroozandeh Shahraki,
- Marjan Farahbod,
- and Maxwell W. Libbrecht
Genome Res. March 2024 34: 469-483; Published in Advance March 21, 2024, doi:10.1101/gr.278343.123
..., and shapes represent cell types. (F) Mutual information (left) and naive overlap (right) as a function of the number of chromatin states, for our running example (S1; ChromHMM, GM12878). The horizontal axis indicates the number of states; the default 16-label model is on the far right, and each dot...
OPEN ACCESS ARTICLE
Select this article
Method: Early feature extraction drives model performance in high-resolution chromatin accessibility prediction
- Aayush Grover,
- Till Muser,
- Liine Kasak,
- Lin Zhang,
- Ekaterina Krymova,
- and Valentina Boeva
Genome Res. March 2026 36: 619-629; Published in Advance January 12, 2026, doi:10.1101/gr.281042.125
...performer, better preserving the signal’s shape. Our codebase and benchmarks provide practical tools for high-resolution chromatin modeling.Predicting chromatin accessibility from DNA sequence is one of the central challenges in regulatory genomics, with applications including the interpretation...
OPEN ACCESS ARTICLE
Select this article
Research: Genome-wide chromatin interaction profiling reveals a vital role of super-enhancers and rearrangements in host enhancer contacts during BmNPV infection
- Shudi Zhao,
- Yuedong Li,
- Guanping Chen,
- Xingyang Wang,
- Nan Chen,
- and Xiaofeng Wu
Genome Res. November 2023 33: 1958-1974; Published in Advance October 23, 2023, doi:10.1101/gr.277931.123
...(Weitzman and Fradet-Turcotte 2018). In the process of infection, a number of DNA viruses dominate chromatin epigenetic markers and restructure the host 3D architecture, thus reprogramming gene expression and modulating the infection status, including hepatitis B virus (HBV) (Yang et al. 2020), adenovirus...
Select this article
Method: Tissular chromatin-state cartography based on double-barcoded DNA arrays that capture unloaded PA-Tn5 transposase
- Maria Grazia Mendoza-Ferri,
- Gwendoline Lozachmeur,
- Maximilien Duvina,
- Laetitia Perret,
- Didier Merciris,
- Anne Gigout,
- and Marco Antonio Mendoza-Parra
Genome Res. July 2025 35: 1633-1645; Published in Advance May 13, 2025, doi:10.1101/gr.280305.124
...Figure 4. Inferring chromatin-state transitions across the mouse embryo by integrating consecutive spatial epigenomic landscapes. (A, left) Scan of a DNA array (TRITC filter) hosting a cryosection of a mouse embryo (E11.5) and immunostained with an antibody targeting the histone modification H3K27...
OPEN ACCESS ARTICLE

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Collora and Ho 33 (6): 891.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: