Searching journal content for articles similar to Sano et al. 11 (11): 1833.

Displaying results 1-10 of 97
For checked items
  1. Research: Dynamic reversal of random X-Chromosome inactivation during iPSC reprogramming
    • Adrian Janiszewski,
    • Irene Talon,
    • Joel Chappell,
    • Samuel Collombet,
    • Juan Song,
    • Natalie De Geest,
    • San Kit To,
    • Greet Bervoets,
    • Oskar Marin-Bejar,
    • Caterina Provenzano,
    • Lotte Vanheer,
    • Jean-Christophe Marine,
    • Florian Rambow,
    • and Vincent Pasque
    Genome Res. October 2019 29: 1659-1672; Published in Advance September 12, 2019, doi:10.1101/gr.249706.119
    ...). In early mouse embryos, imprinted XCI (iXCI), which always inactivates the paternal X Chromosome, takes place at the four-cell stage. It is followed by XCR, in the inner cell mass (ICM) of the blastocyst (Mak et al. 2004; Okamoto et al. 2004; Borensztein et al. 2017a, b). Then, random XCI (rXCI) of one...
    OPEN ACCESS ARTICLE
  2. Method: SIDR: simultaneous isolation and parallel sequencing of genomic DNA and total RNA from single cells
    • Kyung Yeon Han,
    • Kyu-Tae Kim,
    • Je-Gun Joung,
    • Dae-Soon Son,
    • Yeon Jeong Kim,
    • Areum Jo,
    • Hyo-Jeong Jeon,
    • Hui-Sung Moon,
    • Chang Eun Yoo,
    • Woosung Chung,
    • Hye Hyeon Eum,
    • Sangmin Kim,
    • Hong Kwan Kim,
    • Jeong Eon Lee,
    • Myung-Ju Ahn,
    • Hae-Ock Lee,
    • Donghyun Park,
    • and Woong-Yang Park
    Genome Res. January 2018 28: 75-87; Published in Advance December 5, 2017, doi:10.1101/gr.223263.117
    ...degree of coverage in each sample. (D) Principal component analysis (PCA) of HCC827, MCF7, and SKBR3 single-cell transcriptomes. Genes used in PCA are identified in Supplemental Figure S11A. RNA-seq data of both WRs and FRs single cells from each cell line clustered together. (E) Genomic snapshots of cDNA...
    OPEN ACCESS ARTICLE
  3. Research: Kinetics of Xist-induced gene silencing can be predicted from combinations of epigenetic and genomic features
    • Lisa Barros de Andrade e Sousa,
    • Iris Jonkers,
    • Laurène Syx,
    • Ilona Dunkel,
    • Julie Chaumeil,
    • Christel Picard,
    • Benjamin Foret,
    • Chong-Jian Chen,
    • John T. Lis,
    • Edith Heard,
    • Edda G. Schulz,
    • and Annalisa Marsico
    Genome Res. July 2019 29: 1087-1099; Published in Advance June 7, 2019, doi:10.1101/gr.245027.118
    ...). We then trained two Random Forest machine-learning models to predict from 77 genomic and epigenetic features (1) whether a gene is subject to XCI, and (2) whether it will be silenced with fast or slow kinetics. Through forest-guided gene clustering, we identified feature sets that determine...
    OPEN ACCESS ARTICLE
  4. Research: Parent-of-origin-dependent nucleosome organization correlates with genomic imprinting in maize
    • Xiaomei Dong,
    • Jian Chen,
    • Tong Li,
    • En Li,
    • Xiangbo Zhang,
    • Mei Zhang,
    • Weibin Song,
    • Haiming Zhao,
    • and Jinsheng Lai
    Genome Res. July 2018 28: 1020-1028; Published in Advance June 14, 2018, doi:10.1101/gr.230201.117
    ..., clustered parental imprinting of protein-coding and noncoding RNAs in developing maize endosperm. Proc Natl Acad Sci 108: 20042–20047. ↵Zhang M, Xie S, Dong X, Zhao X, Zeng B, Chen J, Li H, Yang W, Zhao H, Wang G, et al. 2014. Genome-wide high resolution parental-specific DNA and histone methylation maps...
    OPEN ACCESS ARTICLE
  5. Research: Transcriptional alterations in glioma result primarily from DNA methylation–independent mechanisms
    • Franck Court,
    • Elisa Le Boiteux,
    • Anne Fogli,
    • Mélanie Müller-Barthélémy,
    • Catherine Vaurs-Barrière,
    • Emmanuel Chautard,
    • Bruno Pereira,
    • Julian Biau,
    • Jean-Louis Kemeny,
    • Toufic Khalil,
    • Lucie Karayan-Tapon,
    • Pierre Verrelle,
    • and Philippe Arnaud
    Genome Res. October 2019 29: 1605-1621; Published in Advance September 18, 2019, doi:10.1101/gr.249219.119
    ...hypomethylation, DNA hypermethylation of CpG islands (CGIs) is a well-defined feature of cancer cells and is believed to be the main cause of aberrant gene repression (Baylin and Jones 2016). CGIs are key regulatory genomic regions of a few hundred base pairs in size characterized by high frequency of Cp...
  6. Perspective: Genomic approaches for understanding the genetics of complex disease
    • William L. Lowe, Jr. and
    • Timothy E. Reddy
    Genome Res. October 2015 25: 1432-1441; doi:10.1101/gr.190603.115
    ...system, a random DNA sequence known as amolecular barcode is inserted into the 3′ UTR of the reporter gene, and a library of candidate regulatory elements are placed upstream of the promoter. Each individual candidate regulatory element is physically linked to a unique molecular barcode. Measuring...
    OPEN ACCESS ARTICLE
  7. INSIGHT/OUTLOOK: Monoallelic Gene Expression in Mice: Who? When? How? Why?
    • John Schimenti
    Genome Res. November 1, 2001 11: 1799-1800; doi:10.1101/gr.215601
    ...The Jackson Laboratory, Bar Harbor, Maine 04609, USA In this issue, Sano et al (2001) describe a cluster of three genes in the mouse t complex that exhibit random monoallelic expression, representing a new example of somatic mosaicism. These findings are fascinating from several perspectives, raising...
  8. Research: DNA methylation profiles of human active and inactive X chromosomes
    • Andrew J. Sharp,
    • Elisavet Stathaki,
    • Eugenia Migliavacca,
    • Manisha Brahmachary,
    • Stephen B. Montgomery,
    • Yann Dupre,
    • and Stylianos E. Antonarakis
    Genome Res. October 2011 21: 1592-1600; Published in Advance August 23, 2011, doi:10.1101/gr.112680.110
    ...DNA from each case were labeled by random priming using Cy5 and Cy3-conjugated randomnonamers (TriLink BioTechnologies), and hybridized to tiling oligonucleotide arrays. We used arrays composed of 2.1 million 50-mer to 75-mer oligonucleotides covering chromosomes 20, 21, 22, X, and Y at amedian probe...
  9. Research: A systems-level approach to parental genomic imprinting: the imprinted gene network includes extracellular matrix genes and regulates cell cycle exit and differentiation
    • Hala Al Adhami,
    • Brendan Evano,
    • Anne Le Digarcher,
    • Charlotte Gueydan,
    • Emeric Dubois,
    • Hugues Parrinello,
    • Christelle Dantec,
    • Tristan Bouschet,
    • Annie Varrault,
    • and Laurent Journot
    Genome Res. March 2015 25: 353-367; Published in Advance January 22, 2015, doi:10.1101/gr.175919.114
    ...) (Meg3 and H19), we showed that Igf2r, Meg3, and H19 were monoallelically expressed irrespective of the proliferation status of the cells (Fig. 3E). We then tested whether the proliferation status of MEFs influenced the DNA methylation pattern at imprinted loci. We treated genomicDNA fromproliferating...
    OPEN ACCESS ARTICLE
  10. Method: Genome-wide mapping of nucleosome positioning and DNA methylation within individual DNA molecules
    • Theresa K. Kelly,
    • Yaping Liu,
    • Fides D. Lay,
    • Gangning Liang,
    • Benjamin P. Berman,
    • and Peter A. Jones
    Genome Res. December 2012 22: 2497-2506; Published in Advance September 7, 2012, doi:10.1101/gr.143008.112
    ...with the probability determined by the random trials. (F) DCA genes were compared to 1000 randomized gene sets for the number within 50 kb of known imprinted genes. Kelly et al . 2502 Genome Research www..org Discussion Using a novel approach to examine nucleosome occupancy and endogenous DNA methylation -wide, we...
For checked items

Search Results

Next 10 » New Search

Modify Results

Citation format:
Results / page:
Results order:

This search

  • Alert me when new articles matching this search are published
  • Download all citations on this page to my citation manager

Preprint Server



Current Issue

  1. March 2026, 36 (3)
  1. Current Issue
  1. Alert me to new issues of Genome Research