Searching journal content for articles similar to Gregory et al. 7 (12): 1162.

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Method: Integration of hyperspectral imaging and transcriptomics from individual cells with SpectralSeq
- Yike Xie,
- Abbas Habibalahi,
- Ayad G. Anwer,
- Kanu Wahi,
- Jacqueline Bailey,
- Francis Lin,
- Catherine Gatt,
- Emma M.V. Johansson,
- Tatyana Chtanova,
- Jeff Holst,
- Ewa Goldys,
- and Fabio Zanini
Genome Res. August 2025 35: 1809-1820; Published in Advance July 8, 2025, doi:10.1101/gr.280014.124
...Unit, Mark Wainwright Analytical Centre, UNSW Sydney, Sydney, New South Wales 2033, Australia; 6UNSW Cellular Genomics Futures Institute, UNSW Sydney, Sydney, New South Wales 2052, Australia; 7Evolution and Ecology Research Centre, School of Biological, Earth and Environmental Sciences, UNSW Sydney...
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Mini-Review: Evolution of genome-wide methylation profiling technologies
- Carolina Montano and
- Winston Timp
Genome Res. April 2025 35: 572-582; doi:10.1101/gr.278407.123
....Cytosine methylation plays a critical role in genomic imprinting, gene regulation, X-Chromosome inactivation (XCI), cellular differentiation, aging, and tumorigenesis. Cells have an extensive system of proteins that establish these methylation patterns through de novo methylation or demethylation, copy methylation...
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Review: Advancements in prospective single-cell lineage barcoding and their applications in research
- Xiaoli Zhang,
- Yirui Huang,
- Yajing Yang,
- Qi-En Wang,
- and Lang Li
Genome Res. December 2024 34: 2147-2162; Published in Advance November 21, 2024, doi:10.1101/gr.278944.124
...the required cell numbers, cells are split for drug treatment or challenges, with one portion saved as a parental control. Single-cell RNA sequencing (10x Genomics): 10x Genomics is employed for scRNA-seq, where CellTag sequence can be captured from the 3′ UTR of fluorescence gene similar to other genes...
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Research: De novo transcriptome assembly of mouse male germ cells reveals novel genes, stage-specific bidirectional promoter activity, and noncoding RNA expression
- Mark E. Gill,
- Alexia Rohmer,
- Serap Erkek-Ozhan,
- Ching-Yeu Liang,
- Sunwoo Chun,
- Evgeniy A. Ozonov,
- and Antoine H.F.M. Peters
Genome Res. December 2023 33: 2060-2078; Published in Advance December 21, 2023, doi:10.1101/gr.278060.123
...addresses: 3Reproductive Medicine and Gynecological Endocrinology, University Hospital Basel, 4031 Basel, Switzerland; 4Izmir Biomedicine and Genome Center, 35340 Izmir, Turkey; 5Department of Biomedicine, University Hospital Basel and University of Basel, 4031 Basel, Switzerland Corresponding author...
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Resource: A single-cell transcriptome atlas of the maturing zebrafish telencephalon
- Shristi Pandey,
- Anna J. Moyer,
- and Summer B. Thyme
Genome Res. April 2023 33: 658-671; Published in Advance April 18, 2023, doi:10.1101/gr.277278.122
...of the adult forebrains. Libraries were prepared on the 10x Genomics scRNA-seq platform according to the manufacturer's instructions (single-cell 3′ v2 kit). Single-cell transcriptome libraries were sequenced using Nextera 75 cycle kits at the Bauer Core Facility (Harvard).Fluorescent RNA in situ hybridizationFluorescent...
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Research: Ligand-induced native G-quadruplex stabilization impairs transcription initiation
- Conghui Li,
- Honghong Wang,
- Zhinang Yin,
- Pingping Fang,
- Ruijing Xiao,
- Ying Xiang,
- Wen Wang,
- Qiuzi Li,
- Beili Huang,
- Jian Huang,
- and Kaiwei Liang
Genome Res. September 2021 31: 1546-1560; Published in Advance August 16, 2021, doi:10.1101/gr.275431.121
...et al. 2018; Marsico et al. 2019). In mammals, the genomic distribution of G4s is not random but rather peculiar to specific genomic regions, such as telomeres, gene promoters, transcription factor binding sites, and sites with DNA double-strand breaks (Biffi et al. 2013; Varshney et al. 2020; Zheng...
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Research: Orc4 spatiotemporally stabilizes centromeric chromatin
- Lakshmi Sreekumar,
- Kiran Kumari,
- Krishnendu Guin,
- Asif Bakshi,
- Neha Varshney,
- Bhagya C. Thimmappa,
- Leelavati Narlikar,
- Ranjith Padinhateeri,
- Rahul Siddharthan,
- and Kaustuv Sanyal
Genome Res. April 2021 31: 607-621; Published in Advance January 29, 2021, doi:10.1101/gr.265900.120
..., University of Colorado Anschutz Medical Campus, Aurora, CO 80045, USA; 9Laboratory of Drosophila Neural Development, Centre for DNA Fingerprinting and Diagnostics, Uppal, Hyderabad 500039, India; 10Ludwig Institute of Cancer Research, San Diego, La Jolla, CA 92093-0670, USA; 11Department of Biochemistry...
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Research: Sequence analysis in Bos taurus reveals pervasiveness of X–Y arms races in mammalian lineages
- Jennifer F. Hughes,
- Helen Skaletsky,
- Tatyana Pyntikova,
- Natalia Koutseva,
- Terje Raudsepp,
- Laura G. Brown,
- Daniel W. Bellott,
- Ting-Jan Cho,
- Shannon Dugan-Rocha,
- Ziad Khan,
- Colin Kremitzki,
- Catrina Fronick,
- Tina A. Graves-Lindsay,
- Lucinda Fulton,
- Wesley C. Warren,
- Richard K. Wilson,
- Elaine Owens,
- James E. Womack,
- William J. Murphy,
- Donna M. Muzny,
- Kim C. Worley,
- Bhanu P. Chowdhary,
- Richard A. Gibbs,
- and David C. Page
Genome Res. December 2020 30: 1716-1726; Published in Advance November 18, 2020, doi:10.1101/gr.269902.120
..., USA; 3College of Veterinary Medicine and Biomedical Sciences, Texas A&M University, College Station, Texas 77843, USA; 4Human Genome Sequencing Center, Baylor College of Medicine, Houston, Texas 77030, USA; 5The McDonnell Genome Institute, Washington University School of Medicine, St. Louis, Missouri...
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Research: Distinctive regulatory architectures of germline-active and somatic genes in C. elegans
- Jacques Serizay,
- Yan Dong,
- Jürgen Jänes,
- Michael Chesney,
- Chiara Cerrato,
- and Julie Ahringer
Genome Res. December 2020 30: 1752-1765; Published in Advance October 22, 2020, doi:10.1101/gr.265934.120
...tissue-specific regulatory grammar, with its small , simple anatomy, and wealth of genomic data (The C. elegans Sequencing Consortium 1998; Gerstein et al. 2010; Ho et al. 2014; Jänes et al. 2018; Kudron et al. 2018). To investigate tissue-specific regulatory grammars, we profiled and compared nuclear...
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Research: Chromatin activation as a unifying principle underlying pathogenic mechanisms in multiple myeloma
- Raquel Ordoñez,
- Marta Kulis,
- Nuria Russiñol,
- Vicente Chapaprieta,
- Arantxa Carrasco-Leon,
- Beatriz García-Torre,
- Stella Charalampopoulou,
- Guillem Clot,
- Renée Beekman,
- Cem Meydan,
- Martí Duran-Ferrer,
- Núria Verdaguer-Dot,
- Roser Vilarrasa-Blasi,
- Paula Soler-Vila,
- Leire Garate,
- Estíbaliz Miranda,
- Edurne San José-Enériz,
- Juan R. Rodriguez-Madoz,
- Teresa Ezponda,
- Rebeca Martínez-Turrilas,
- Amaia Vilas-Zornoza,
- David Lara-Astiaso,
- Daphné Dupéré-Richer,
- Joost H.A. Martens,
- Halima El-Omri,
- Ruba Y. Taha,
- Maria J. Calasanz,
- Bruno Paiva,
- Jesus San Miguel,
- Paul Flicek,
- Ivo Gut,
- Ari Melnick,
- Constantine S. Mitsiades,
- Jonathan D. Licht,
- Elias Campo,
- Hendrik G. Stunnenberg,
- Xabier Agirre,
- Felipe Prosper,
- and Jose I. Martin-Subero
Genome Res. September 2020 30: 1217-1227; Published in Advance August 20, 2020, doi:10.1101/gr.265520.120
..., Florida 32610, USA; 9Radboud Institute for Molecular Life Sciences, 6525 GA Nijmegen, Netherlands; 10Department of Hematology & BMT, Hamad Medical Corporation, NCCCR, Doha, Qatar; 11European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton...
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