Searching journal content for articles similar to Beskow et al. 20 (6): 705.

Displaying results 1-10 of 3391

For checked items

view abstracts
download to citation manager

Select this article
Perspective: Challenges in identifying mRNA transcript starts and ends from long-read sequencing data
- Ezequiel Calvo-Roitberg,
- Rachel F. Daniels,
- and Athma A. Pai
Genome Res. November 2024 34: 1719-1734; doi:10.1101/gr.279559.124
...to revolutionize scientific discoveries in RNA biology through the comprehensive identification and quantification of full-length mRNA isoforms. Despite great promise, challenges remain in the widespread implementation of LRS technologies for RNA-based applications, including concerns about low coverage, high...
OPEN ACCESS ARTICLE
Select this article
Perspective: Challenges and considerations for reproducibility of STARR-seq assays
- Maitreya Das,
- Ayaan Hossain,
- Deepro Banerjee,
- Craig Alan Praul,
- and Santhosh Girirajan
Genome Res. April 2023 33: 479-495; Published in Advance May 2, 2023, doi:10.1101/gr.277204.122
..., and improve the reproducibility of results.Enhancers are cis-acting DNA elements that regulate gene expression (Banerji et al. 1981). The ability of enhancers to recruit transcription factors through specific binding motifs to regulate the expression of target genes in a cell, tissue, and developmental stage...
Select this article
Research: Histone deacetylases maintain expression of the pluripotent gene network via recruitment of RNA polymerase II to coding and noncoding loci
- Richard D.W. Kelly,
- Kristy R. Stengel,
- Aditya Chandru,
- Lyndsey C. Johnson,
- Scott W. Hiebert,
- and Shaun M. Cowley
Genome Res. January 2024 34: 34-46; Published in Advance January 30, 2024, doi:10.1101/gr.278050.123
...and elongating polymerase, suggesting an overall reduction in polymerase recruitment. Using enhancer RNA (eRNA) expression to measure enhancer activity, we find that LBH589-sensitive eRNAs are preferentially associated with superenhancers and PSN binding sites. These findings suggest that HDAC activity...
OPEN ACCESS ARTICLE
Select this article
Perspective: Notable challenges posed by long-read sequencing for the study of transcriptional diversity and genome annotation
- Carolina Monzó,
- Adam Frankish,
- and Ana Conesa
Genome Res. April 2025 35: 583-592; Published in Advance March 3, 2025, doi:10.1101/gr.279865.124
...Notable challenges posed by long-read sequencing for the study of transcriptional diversity and annotation Carolina Monzó1, Adam Frankish2 and Ana Conesa1 1Institute for Integrative Systems Biology (I2SysBio), Spanish National Research Council (CSIC), Paterna 46980, Spain; 2European Molecular...
OPEN ACCESS ARTICLE
Select this article
Research: TET2 binding to enhancers facilitates transcription factor recruitment in hematopoietic cells
- Kasper D. Rasmussen,
- Ivan Berest,
- Sandra Keβler,
- Koutarou Nishimura,
- Lucía Simón-Carrasco,
- George S. Vassiliou,
- Marianne T. Pedersen,
- Jesper Christensen,
- Judith B. Zaugg,
- and Kristian Helin
Genome Res. April 2019 29: 564-575; Published in Advance February 22, 2019, doi:10.1101/gr.239277.118
...methylation, whereas 5fC and 5caC can be excised by thymine DNA glycosylase (TDG) and be replaced by unmodified cytosine via the base-excision repair (BER) pathway. Although targeting of TET1 to chromatin has been investigated (Williams et al. 2011; Wu et al. 2011), the mechanisms of TET2 recruitment...
Select this article
Insight/Outlook: Ethical and practical challenges of sharing data from genome-wide association studies: The eMERGE Consortium experience
- Amy L. McGuire,
- Melissa Basford,
- Lynn G. Dressler,
- Stephanie M. Fullerton,
- Barbara A. Koenig,
- Rongling Li,
- Cathy A. McCarty,
- Erin Ramos,
- Maureen E. Smith,
- Carol P. Somkin,
- Carol Waudby,
- Wendy A. Wolf,
- and Ellen Wright Clayton
Genome Res. July 2011 21: 1001-1007; Published in Advance June 1, 2011, doi:10.1101/gr.120329.111
...Ethical and practical challenges of sharing data from genome-wide association studies: The eMERGE Consortium experience Amy L. McGuire 1 , 11 , Melissa Basford 2 , Lynn G. Dressler 3 , Stephanie M. Fullerton 4 , Barbara A. Koenig 5...
Select this article
Research: Analyses of 600+ insect genomes reveal repetitive element dynamics and highlight biodiversity-scale repeat annotation challenges
- John S. Sproul,
- Scott Hotaling,
- Jacqueline Heckenhauer,
- Ashlyn Powell,
- Dez Marshall,
- Amanda M. Larracuente,
- Joanna L. Kelley,
- Steffen U. Pauls,
- and Paul B. Frandsen
Genome Res. October 2023 33: 1708-1717; Published in Advance September 22, 2023, doi:10.1101/gr.277387.122
...Analyses of 600+ insect s reveal repetitive element dynamics and highlight biodiversity-scale repeat annotation challenges John S. Sproul1,2,3,12, Scott Hotaling4,5,12, Jacqueline Heckenhauer6,7,12, Ashlyn Powell8, Dez Marshall2, Amanda M. Larracuente3, Joanna L. Kelley4,9, Steffen U. Pauls6...
OPEN ACCESS ARTICLE
Select this article
Research: Actionable exomic incidental findings in 6503 participants: challenges of variant classification
- Laura M. Amendola,
- Michael O. Dorschner,
- Peggy D. Robertson,
- Joseph S. Salama,
- Ragan Hart,
- Brian H. Shirts,
- Mitzi L. Murray,
- Mari J. Tokita,
- Carlos J. Gallego,
- Daniel Seung Kim,
- James T. Bennett,
- David R. Crosslin,
- Jane Ranchalis,
- Kelly L. Jones,
- Elisabeth A. Rosenthal,
- Ella R. Jarvik,
- Andy Itsara,
- Emily H. Turner,
- Daniel S. Herman,
- Jennifer Schleit,
- Amber Burt,
- Seema M. Jamal,
- Jenica L. Abrudan,
- Andrew D. Johnson,
- Laura K. Conlin,
- Matthew C. Dulik,
- Avni Santani,
- Danielle R. Metterville,
- Melissa Kelly,
- Ann Katherine M. Foreman,
- Kristy Lee,
- Kent D. Taylor,
- Xiuqing Guo,
- Kristy Crooks,
- Lesli A. Kiedrowski,
- Leslie J. Raffel,
- Ora Gordon,
- Kalotina Machini,
- Robert J. Desnick,
- Leslie G. Biesecker,
- Steven A. Lubitz,
- Surabhi Mulchandani,
- Greg M. Cooper,
- Steven Joffe,
- C. Sue Richards,
- Yaoping Yang,
- Jerome I. Rotter,
- Stephen S. Rich,
- Christopher J. O’Donnell,
- Jonathan S. Berg,
- Nancy B. Spinner,
- James P. Evans,
- Stephanie M. Fullerton,
- Kathleen A. Leppig,
- Robin L. Bennett,
- Thomas Bird,
- Virginia P. Sybert,
- William M. Grady,
- Holly K. Tabor,
- Jerry H. Kim,
- Michael J. Bamshad,
- Benjamin Wilfond,
- Arno G. Motulsky,
- C. Ronald Scott,
- Colin C. Pritchard,
- Tom D. Walsh,
- Wylie Burke,
- Wendy H. Raskind,
- Peter Byers,
- Fuki M. Hisama,
- Heidi Rehm,
- Debbie A. Nickerson,
- and Gail P. Jarvik
Genome Res. March 2015 25: 305-315; Published in Advance January 30, 2015, doi:10.1101/gr.183483.114
...Actionable exomic incidental findings in 6503 participants: challenges of variant classification Laura M. Amendola 1 , Michael O. Dorschner 2 , 3 , 4 , Peggy D. Robertson 2 , Joseph S. Salama 1 , Ragan Hart 1 , Brian H...
OPEN ACCESS ARTICLE
Select this article
Research: The logic of transcriptional regulator recruitment architecture at cis-regulatory modules controlling liver functions
- Julie Dubois-Chevalier,
- Vanessa Dubois,
- Hélène Dehondt,
- Parisa Mazrooei,
- Claire Mazuy,
- Aurélien A. Sérandour,
- Céline Gheeraert,
- Penderia Guillaume,
- Eric Baugé,
- Bruno Derudas,
- Nathalie Hennuyer,
- Réjane Paumelle,
- Guillemette Marot,
- Jason S. Carroll,
- Mathieu Lupien,
- Bart Staels,
- Philippe Lefebvre,
- and Jérôme Eeckhoute
Genome Res. June 2017 27: 985-996; Published in Advance April 11, 2017, doi:10.1101/gr.217075.116
..., how recruitment of a myriad of TRs is orchestrated at cis-regulatory modules (CRMs) to account for coregulation of specific biological pathways is only partially understood. Here, we have used mouse liver CRMs involved in regulatory activities of the hepatic TR, NR1H4 (FXR; farnesoid X receptor...
Select this article
Research: Recruitment of histone modifications to assist mRNA dosage maintenance after degeneration of cytosine DNA methylation during animal evolution
- Andrew Ying-Fei Chang and
- Ben-Yang Liao
Genome Res. September 2017 27: 1513-1524; Published in Advance July 18, 2017, doi:10.1101/gr.221739.117
...were found to be largely organism specific. Thus, it appears that many of the histone marks that maintain mRNA dosage were independently recruited during the evolution of worms and flies to compensate for the loss of cytosine DNA methylation machinery from their s. [Supplemental material is available...

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Beskow et al. 20 (6): 705.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: