Publications by authors named "Ilya Flyamer"

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Genome-wide absolute quantification of chromatin looping.
James M Jusuf, Simon Grosse-Holz, Michele Gabriele, Pia Mach, Ilya M Flyamer

bioRxiv· January 2025

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Author Correction: Systematic assessment of ISWI subunits shows that NURF creates local accessibility for CTCF.
Mario Iurlaro, Francesca Masoni, Ilya M Flyamer, Christiane Wirbelauer, Murat Iskar

Nat Genet· November 2024

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Systematic assessment of ISWI subunits shows that NURF creates local accessibility for CTCF.
Mario Iurlaro, Francesca Masoni, Ilya M Flyamer, Christiane Wirbelauer, Murat Iskar

Nat Genet· June 2024

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Cooltools: Enabling high-resolution Hi-C analysis in Python.

PLoS Comput Biol· May 2024

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Transcription decouples estrogen-dependent changes in enhancer-promoter contact frequencies and spatial proximity.
Luciana I Gómez Acuña, Ilya Flyamer, Shelagh Boyle, Elias T Friman, Wendy A Bickmore

PLoS Genet· May 2024

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Pairtools: From sequencing data to chromosome contacts.

PLoS Comput Biol· May 2024

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Bioframe: operations on genomic intervals in Pandas dataframes.

Bioinformatics· February 2024

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Trisomies Reorganize Human 3D Genome.
Irina V Zhegalova, Petr A Vasiluev, Ilya M Flyamer, Anastasia S Shtompel, Eugene Glazyrina

Int J Mol Sci· November 2023

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Ultra-long-range interactions between active regulatory elements.
Elias T Friman, Ilya M Flyamer, Davide Marenduzzo, Shelagh Boyle, Wendy A Bickmore

Genome Res· August 2023

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Doxorubicin Changes the Spatial Organization of the Genome around Active Promoters.
Maria E Stefanova, Elizabeth Ing-Simmons, Stefan Stefanov, Ilya Flyamer, Heathcliff Dorado Garcia

Cells· August 2023

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Pairtools: from sequencing data to chromosome contacts.

bioRxiv· February 2023

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Cohesin is required for long-range enhancer action at the Shh locus.
Lauren Kane, Iain Williamson, Ilya M Flyamer, Yatendra Kumar, Robert E Hill

Nat Struct Mol Biol· September 2022

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MCM complexes are barriers that restrict cohesin-mediated loop extrusion.
Bart J H Dequeker, Matthias J Scherr, Hugo B Brandão, Johanna Gassler, Sean Powell, Ilya M Flyamer

Nature· June 2022

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Nuclear organisation and replication timing are coupled through RIF1-PP1 interaction.
Stefano Gnan, Ilya M Flyamer, Kyle N Klein, Eleonora Castelli, Alexander Rapp

Nat Commun· May 2021

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From bedside to bench: regulation of host factors in SARS-CoV-2 infection.
Samantha Y Q Ong, Ilya M Flyamer, Wendy A Bickmore, Simon C Biddie

Exp Mol Med· April 2021

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Order and stochasticity in the folding of individual Drosophila genomes.
Sergey V Ulianov, Vlada V Zakharova, Aleksandra A Galitsyna, Pavel I Kos, Kirill E Polovnikov, Ilya M Flyamer

Nat Commun· January 2021

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A central role for canonical PRC1 in shaping the 3D nuclear landscape.
Shelagh Boyle, Ilya M Flyamer, Iain Williamson, Dipta Sengupta, Wendy A Bickmore

Genes Dev· July 2020

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Coolpup.py: versatile pile-up analysis of Hi-C data.
Ilya M Flyamer, Robert S Illingworth, Wendy A Bickmore

Bioinformatics· May 2020

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Low Level of Expression of C-Terminally Truncated Human FUS Causes Extensive Changes in the Spinal Cord Transcriptome of Asymptomatic Transgenic Mice.
Ekaterina A Lysikova, Sergei Funikov, Alexander P Rezvykh, Kirill D Chaprov, Michail S Kukharsky, Ilya M Flyamer

Neurochem Res· May 2020

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Bivalent promoter hypermethylation in cancer is linked to the H327me3/H3K4me3 ratio in embryonic stem cells.
Donnchadh S Dunican, Heidi K Mjoseng, Leanne Duthie, Ilya M Flyamer, Wendy A Bickmore

BMC Biol· March 2020

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C-TALE, a new cost-effective method for targeted enrichment of Hi-C/3C-seq libraries.
Arkadiy K Golov, Sergey V Ulianov, Artem V Luzhin, Ekaterina P Kalabusheva, Omar L Kantidze, Ilya M Flyamer

Methods· January 2020

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DNA Methylation Directs Polycomb-Dependent 3D Genome Re-organization in Naive Pluripotency.
Katy McLaughlin, Ilya M Flyamer, John P Thomson, Heidi K Mjoseng, Ruchi Shukla

Cell Rep· November 2019

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Developmentally regulated expression is robust to TAD perturbations.
Iain Williamson, Lauren Kane, Paul S Devenney, Ilya M Flyamer, Eve Anderson

Development· September 2019

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Quantitative differences in TAD border strength underly the TAD hierarchy in Drosophila chromosomes.
Artem V Luzhin, Ilya M Flyamer, Ekaterina E Khrameeva, Sergey V Ulianov, Sergey V Razin

J Cell Biochem· March 2019

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Nuclear lamina integrity is required for proper spatial organization of chromatin in Drosophila.
Sergey V Ulianov, Semen A Doronin, Ekaterina E Khrameeva, Pavel I Kos, Artem V Luzhin, Ilya M Flyamer

Nat Commun· March 2019

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