Publications by authors named "Maxim Imakaev"

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

PLoS Comput Biol· 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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Crumpled polymer with loops recapitulates key features of chromosome organization.
Kirill E Polovnikov, Bogdan Slavov, Sergey Belan, Maxim Imakaev, Hugo B Brandão

Phys Rev X· November 2023

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Pairtools: from sequencing data to chromosome contacts.

bioRxiv· February 2023

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Diverse silent chromatin states modulate genome compartmentalization and loop extrusion barriers.
George Spracklin, Nezar Abdennur, Maxim Imakaev, Neil Chowdhury, Sriharsa Pradhan

Nat Struct Mol Biol· January 2023

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Author Correction: The 4D Nucleome Data Portal as a resource for searching and visualizing curated nucleomics data.
Sarah B Reiff, Andrew J Schroeder, Koray Kırlı, Andrea Cosolo, Clara Bakker, Maxim Imakaev

Nat Commun· November 2022

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Lineage abundance estimation for SARS-CoV-2 in wastewater using transcriptome quantification techniques.
Jasmijn A Baaijens, Alessandro Zulli, Isabel M Ott, Ioanna Nika, Mart J van der Lugt, Maxim Imakaev

Genome Biol· November 2022

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Nationwide Trends in COVID-19 Cases and SARS-CoV-2 RNA Wastewater Concentrations in the United States.
Claire Duvallet, Fuqing Wu, Kyle A McElroy, Maxim Imakaev, Noriko Endo

ACS ES T Water· November 2022

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The 4D Nucleome Data Portal as a resource for searching and visualizing curated nucleomics data.
Sarah B Reiff, Andrew J Schroeder, Koray Kırlı, Andrea Cosolo, Clara Bakker, Maxim Imakaev

Nat Commun· May 2022

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Metrics to relate COVID-19 wastewater data to clinical testing dynamics.
Amy Xiao, Fuqing Wu, Mary Bushman, Jianbo Zhang, Maxim Imakaev

Water Res· April 2022

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Making waves: Defining the lead time of wastewater-based epidemiology for COVID-19.
Scott W Olesen, Maxim Imakaev, Claire Duvallet

Water Res· September 2021

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Variant abundance estimation for SARS-CoV-2 in wastewater using RNA-Seq quantification.
Jasmijn A Baaijens, Alessandro Zulli, Isabel M Ott, Mary E Petrone, Tara Alpert, Maxim Imakaev

medRxiv· September 2021

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Metrics to relate COVID-19 wastewater data to clinical testing dynamics.
Amy Xiao, Fuqing Wu, Mary Bushman, Jianbo Zhang, Maxim Imakaev

medRxiv· June 2021

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Non-parametric Polygenic Risk Prediction via Partitioned GWAS Summary Statistics.
Sung Chun, Maxim Imakaev, Daniel Hui, Nikolaos A Patsopoulos, Benjamin M Neale

Am J Hum Genet· July 2020

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The genome-wide multi-layered architecture of chromosome pairing in early Drosophila embryos.
Jelena Erceg, Jumana AlHaj Abed, Anton Goloborodko, Bryan R Lajoie, Geoffrey Fudenberg, Maxim Imakaev

Nat Commun· October 2019

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Publisher Correction: Heterochromatin drives compartmentalization of inverted and conventional nuclei.
Martin Falk, Yana Feodorova, Natalia Naumova, Maxim Imakaev, Bryan R Lajoie

Nature· August 2019

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Heterochromatin drives compartmentalization of inverted and conventional nuclei.
Martin Falk, Yana Feodorova, Natalia Naumova, Maxim Imakaev, Bryan R Lajoie

Nature· June 2019

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Two major mechanisms of chromosome organization.
Leonid A Mirny, Maxim Imakaev, Nezar Abdennur

Curr Opin Cell Biol· June 2019

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Publisher Correction: Immune genes are primed for robust transcription by proximal long noncoding RNAs located in nuclear compartments.
Stephanie Fanucchi, Ezio T Fok, Emiliano Dalla, Youtaro Shibayama, Kathleen Börner, Maxim Imakaev

Nat Genet· February 2019

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Immune genes are primed for robust transcription by proximal long noncoding RNAs located in nuclear compartments.
Stephanie Fanucchi, Ezio T Fok, Emiliano Dalla, Youtaro Shibayama, Kathleen Börner, Maxim Imakaev

Nat Genet· January 2019

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Higher-Order Organization Principles of Pre-translational mRNPs.
Mihir Metkar, Hakan Ozadam, Bryan R Lajoie, Maxim Imakaev, Leonid A Mirny

Mol Cell· November 2018

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Chromatin organization by an interplay of loop extrusion and compartmental segregation.
Johannes Nuebler, Geoffrey Fudenberg, Maxim Imakaev, Nezar Abdennur, Leonid A Mirny

Proc Natl Acad Sci U S A· July 2018

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Emerging Evidence of Chromosome Folding by Loop Extrusion.
Geoffrey Fudenberg, Nezar Abdennur, Maxim Imakaev, Anton Goloborodko, Leonid A Mirny

Cold Spring Harb Symp Quant Biol· May 2018

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A mechanism of cohesin-dependent loop extrusion organizes zygotic genome architecture.
Johanna Gassler, Hugo B Brandão, Maxim Imakaev, Ilya M Flyamer, Sabrina Ladstätter

EMBO J· December 2017

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