Works by Tolstorukov, Michael

Results: 26

Impact of chromatin structure on sequence variability in the human genome.

Published in:

Nature Structural & Molecular Biology, 2011, v. 18, n. 4, p. 510, doi. 10.1038/nsmb.2012

By:

Tolstorukov, Michael Y.;
Volfovsky, Natalia;
Stephens, Robert M.;
Park, Peter J.

Publication type:

Article

nuScore: a web-interface for nucleosome positioning predictions.

Published in:

Bioinformatics, 2008, v. 24, n. 12, p. 1456

By:

Michael Y. Tolstorukov;
Vidhu Choudhary;
Wilma K. Olson;
Victor B. Zhurkin;
Peter J. Park

Publication type:

Article

nuScore: a web-interface for nucleosome positioning predictions.

Published in:

Bioinformatics, 2008, v. 24, n. 12, p. 1456

By:

Michael Y. Tolstorukov;
Vidhu Choudhary;
Wilma K. Olson;
Victor B. Zhurkin;
Peter J. Park

Publication type:

Article

First-in-human evaluation of memory-like NK cells with an IL-15 super-agonist and CTLA-4 blockade in advanced head and neck cancer.

Published in:

Journal of Hematology & Oncology, 2025, v. 18, n. 1, p. 1, doi. 10.1186/s13045-025-01669-3

By:

Shapiro, Roman M.;
Sheffer, Michal;
Booker, Matthew A.;
Tolstorukov, Michael Y.;
Birch, Grace C.;
Sade-Feldman, Moshe;
Fang, Jacy;
Li, Shuqiang;
Lu, Wesley;
Ansuinelli, Michela;
Dulery, Remy;
Tarannum, Mubin;
Baginska, Joanna;
Dwivedi, Nishant;
Kothari, Ashish;
Penter, Livius;
Abdulhamid, Yasmin Z.;
Kaplan, Isabel E.;
Khanhlinh, Dinh;
Uppaluri, Ravindra

Publication type:

Article

Loss of the tumor suppressor Snf5 leads to aberrant activation of the Hedgehog-Gli pathway.

Published in:

Nature Medicine, 2010, v. 16, n. 12, p. 1429, doi. 10.1038/nm.2251

By:

Jagani, Zainab;
Mora-Blanco, E. Lorena;
Sansam, Courtney G.;
McKenna, Elizabeth S.;
Wilson, Boris;
Chen, Dongshu;
Klekota, Justin;
Tamayo, Pablo;
Nguyen, Phuong T. L.;
Tolstorukov, Michael;
Park, Peter J.;
Yoon-Jae Cho;
Hsiao, Kathy;
Buonamici, Silvia;
Pomeroy, Scott L.;
Mesirov, Jill P.;
Ruffner, Heinz;
Bouwmeester, Tewis;
Luchansky, Sarah J.;
Murtie, Joshua

Publication type:

Article

Regulation of neuroendocrine plasticity by the RNA-binding protein ZFP36L1.

Published in:

Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-31998-7

By:

Chen, Hsiao-Yun;
Durmaz, Yavuz T.;
Li, Yixiang;
Sabet, Amin H.;
Vajdi, Amir;
Denize, Thomas;
Walton, Emily;
Laimon, Yasmin Nabil;
Doench, John G.;
Mahadevan, Navin R.;
Losman, Julie-Aurore;
Barbie, David A.;
Tolstorukov, Michael Y.;
Rudin, Charles M.;
Sen, Triparna;
Signoretti, Sabina;
Oser, Matthew G.

Publication type:

Article

Expansion of GA Dinucleotide Repeats Increases the Density of CLAMP Binding Sites on the X-Chromosome to Promote Drosophila Dosage Compensation.

Published in:

PLoS Genetics, 2016, v. 12, n. 7, p. 1, doi. 10.1371/journal.pgen.1006120

By:

Kuzu, Guray;
Kaye, Emily G.;
Chery, Jessica;
Siggers, Trevor;
Yang, Lin;
Dobson, Jason R.;
Boor, Sonia;
Bliss, Jacob;
Liu, Wei;
Jogl, Gerwald;
Rohs, Remo;
Singh, Nadia D.;
Bulyk, Martha L.;
Tolstorukov, Michael Y.;
Larschan, Erica

Publication type:

Article

Disruption of polyhomeotic polymerization decreases nucleosome occupancy and alters genome accessibility.

Published in:

Life Science Alliance, 2023, v. 6, n. 5, p. 1, doi. 10.26508/lsa.202201768

By:

Amin, Adfar;
Kadam, Sangram;
Mieczkowski, Jakub;
Ahmed, Ikhlak;
Bhat, Younus A.;
Shah, Fouziya;
Tolstorukov, Michael Y.;
Kingston, Robert E.;
Padinhateeri, Ranjith;
Wani, Ajazul H.

Publication type:

Article

Enhanced chromatin accessibility of the dosage compensated Drosophila male X-chromosome requires the CLAMP zinc finger protein.

Published in:

PLoS ONE, 2017, v. 12, n. 10, p. 1, doi. 10.1371/journal.pone.0186855

By:

Urban, Jennifer;
Kuzu, Guray;
Bowman, Sarah;
Scruggs, Benjamin;
Henriques, Telmo;
Kingston, Robert;
Adelman, Karen;
Tolstorukov, Michael;
Larschan, Erica

Publication type:

Article

Design and analysis of ChIP-seq experiments for DNA-binding proteins.

Published in:

Nature Biotechnology, 2008, v. 26, n. 12, p. 1351, doi. 10.1038/nbt.1508

By:

Kharchenko, Peter V;
Tolstorukov, Michael Y;
Park, Peter J

Publication type:

Article

Multiplexed Illumina sequencing libraries from picogram quantities of DNA.

Published in:

BMC Genomics, 2013, v. 14, n. 1, p. 1, doi. 10.1186/1471-2164-14-466

By:

Bowman, Sarah K.;
Simon, Matthew D.;
Deaton, Aimee M.;
Tolstorukov, Michael;
Borowsky, Mark L.;
Kingston, Robert E.

Publication type:

Article

Lineage-specific canonical and non-canonical activity of EZH2 in advanced prostate cancer subtypes.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-51156-5

By:

Venkadakrishnan, Varadha Balaji;
Presser, Adam G.;
Singh, Richa;
Booker, Matthew A.;
Traphagen, Nicole A.;
Weng, Kenny;
Voss, Nathaniel C. E.;
Mahadevan, Navin R.;
Mizuno, Kei;
Puca, Loredana;
Idahor, Osasenaga;
Ku, Sheng-Yu;
Bakht, Martin K.;
Borah, Ashir A.;
Herbert, Zachary T.;
Tolstorukov, Michael Y.;
Barbie, David A.;
Rickman, David S.;
Brown, Myles;
Beltran, Himisha

Publication type:

Article

Organization of DNA in a bacterial nucleoid.

Published in:

BMC Microbiology, 2016, v. 16, p. 1, doi. 10.1186/s12866-016-0637-3

By:

Tolstorukov, Michael Y.;
Virnik, Konstantin;
Zhurkin, Victor B.;
Adhya, Sankar

Publication type:

Article

MNase titration reveals differences between nucleosome occupancy and chromatin accessibility.

Published in:

Nature Communications, 2016, v. 7, n. 5, p. 11485, doi. 10.1038/ncomms11485

By:

Mieczkowski, Jakub;
Cook, April;
Bowman, Sarah K.;
Mueller, Britta;
Alver, Burak H.;
Kundu, Sharmistha;
Deaton, Aimee M.;
Urban, Jennifer A.;
Larschan, Erica;
Park, Peter J.;
Kingston, Robert E.;
Tolstorukov, Michael Y.

Publication type:

Article

Nucleosomal occupancy changes locally over key regulatory regions during cell differentiation and reprogramming.

Published in:

Nature Communications, 2014, v. 5, n. 8, p. 4719, doi. 10.1038/ncomms5719

By:

West, Jason A.;
Cook, April;
Alver, Burak H.;
Stadtfeld, Matthias;
Deaton, Aimee M.;
Hochedlinger, Konrad;
Park, Peter J.;
Tolstorukov, Michael Y.;
Kingston, Robert E.

Publication type:

Article

Non-neutral evolution of H3.3-encoding genes occurs without alterations in protein sequence.

Published in:

Scientific Reports, 2019, v. 9, n. 1, p. N.PAG, doi. 10.1038/s41598-019-44800-4

By:

Muhire, Brejnev M.;
Booker, Matthew A.;
Tolstorukov, Michael Y.

Publication type:

Article

Cancer-associated fibroblasts are the main contributors to epithelial-to-mesenchymal signatures in the tumor microenvironment.

Published in:

Scientific Reports, 2023, v. 13, n. 1, p. 1, doi. 10.1038/s41598-023-28480-9

By:

Szabo, Peter M.;
Vajdi, Amir;
Kumar, Namit;
Tolstorukov, Michael Y.;
Chen, Benjamin J.;
Edwards, Robin;
Ligon, Keith L.;
Chasalow, Scott D.;
Chow, Kin-Hoe;
Shetty, Aniket;
Bolisetty, Mohan;
Holloway, James L.;
Golhar, Ryan;
Kidd, Brian A.;
Hull, Philip Ansumana;
Houser, Jeff;
Vlach, Logan;
Siemers, Nathan O.;
Saha, Saurabh

Publication type:

Article

Comparative analysis of metazoan chromatin organization.

Published in:

Nature, 2014, v. 512, n. 7515, p. 449, doi. 10.1038/nature13415

By:

Ho, Joshua W. K.;
Jung, Youngsook L.;
Liu, Tao;
Alver, Burak H.;
Lee, Soohyun;
Ikegami, Kohta;
Sohn, Kyung-Ah;
Minoda, Aki;
Tolstorukov, Michael Y.;
Appert, Alex;
Parker, Stephen C. J.;
Gu, Tingting;
Kundaje, Anshul;
Riddle, Nicole C.;
Bishop, Eric;
Egelhofer, Thea A.;
Hu, Sheng'en Shawn;
Alekseyenko, Artyom A.;
Rechtsteiner, Andreas;
Asker, Dalal

Publication type:

Article

Comprehensive analysis of the chromatin landscape in Drosophila melanogaster.

Published in:

Nature, 2011, v. 471, n. 7339, p. 480, doi. 10.1038/nature09725

By:

Kharchenko, Peter V.;
Alekseyenko, Artyom A.;
Schwartz, Yuri B.;
Minoda, Aki;
Riddle, Nicole C.;
Ernst, Jason;
Sabo, Peter J.;
Larschan, Erica;
Gorchakov, Andrey A.;
Gu, Tingting;
Linder-Basso, Daniela;
Plachetka, Annette;
Shanower, Gregory;
Tolstorukov, Michael Y.;
Luquette, Lovelace J.;
Xi, Ruibin;
Jung, Youngsook L.;
Park, Richard W.;
Bishop, Eric P.;
Canfield, Theresa K.

Publication type:

Article

Enhancer regions show high histone H3.3 turnover that changes during differentiation.

Published in:

eLife, 2016, p. 1, doi. 10.7554/eLife.15316

By:

Deaton, Aimee M.;
Go'mez-Rodri'guez, Mariluz;
Mieczkowski, Jakub;
Tolstorukov, Michael Y.;
Kundu, Sharmistha;
Sadreyev, Ruslan I.;
Jansen, Lars E. T.;
Kingston, Robert E.

Publication type:

Article

Impact of sequencing depth in ChIP-seq experiments.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 9, p. 1, doi. 10.1093/nar/gku178

By:

Youngsook L. Jung;
Luquette, Lovelace J.;
Ho, Joshua W. K.;
Ferrari, Francesco;
Tolstorukov, Michael;
Aki Minoda;
Issner, Robbyn;
Epstein, Charles B.;
Karpen, Gary H.;
Kuroda, Mitzi I.;
Park, Peter J.

Publication type:

Article

Impact of sequencing depth in ChIP-seq experiments.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 9, p. e74, doi. 10.1093/nar/gku178

By:

Jung, Youngsook L.;
Luquette, Lovelace J.;
Ho, Joshua W.K.;
Ferrari, Francesco;
Tolstorukov, Michael;
Minoda, Aki;
Issner, Robbyn;
Epstein, Charles B.;
Karpen, Gary H.;
Kuroda, Mitzi I.;
Park, Peter J.

Publication type:

Article

A-tract clusters may facilitate DNA packaging in bacterial nucleoid.

Published in:

Nucleic Acids Research, 2005, v. 33, n. 12, p. 3907, doi. 10.1093/nar/gki699

By:

Tolstorukov, Michael Y.;
Virnik, Konstantin M.;
Adhya, Sankar;
Zhurkin, Victor B.

Publication type:

Article

Single-cell molecular profiling using ex vivo functional readouts fuels precision oncology in glioblastoma.

Published in:

Cellular & Molecular Life Sciences, 2023, v. 80, n. 6, p. 1, doi. 10.1007/s00018-023-04772-1

By:

Panovska, Dena;
Nazari, Pouya;
Cole, Basiel;
Creemers, Pieter-Jan;
Derweduwe, Marleen;
Solie, Lien;
Van Gassen, Sofie;
Claeys, Annelies;
Verbeke, Tatjana;
Cohen, Elizabeth F.;
Tolstorukov, Michael Y.;
Saeys, Yvan;
Van der Planken, David;
Bosisio, Francesca M.;
Put, Eric;
Bamps, Sven;
Clement, Paul M.;
Verfaillie, Michiel;
Sciot, Raf;
Ligon, Keith L.

Publication type:

Article

Enrichment of HP1a on Drosophila Chromosome 4 Genes Creates an Alternate Chromatin Structure Critical for Regulation in this Heterochromatic Domain.

Published in:

PLoS Genetics, 2012, v. 8, n. 9, p. 1, doi. 10.1371/journal.pgen.1002954

By:

Riddle, Nicole C.;
Jung, Youngsook L.;
Gu, Tingting;
Alekseyenko, Artyom A.;
Asker, Dalal;
Hongxing Gui;
Kharchenko, Peter V.;
Minoda, Aki;
Plachetka, Annette;
Schwartz, Yuri B.;
Tolstorukov, Michael Y.;
Kuroda, Mitzi I.;
Pirrotta, Vincenzo;
Karpen, Gary H.;
Park, Peter J.;
Elgin, Sarah C. R.

Publication type:

Article

Sequence-Specific Targeting of Dosage Compensation in Drosophila Favors an Active Chromatin Context.

Published in:

PLoS Genetics, 2012, v. 8, n. 4, p. 1, doi. 10.1371/journal.pgen.1002646

By:

Alekseyenko, Artyom A.;
Ho, Joshua W. K.;
Shouyong Peng;
Gelbart, Marnie;
Tolstorukov, Michael Y.;
Plachetka, Annette;
Kharchenko, Peter V.;
Jung, Youngsook L.;
Gorchakov, Andrey A.;
Larschan, Erica;
Tingting Gu;
Minoda, Aki;
Riddle, Nicole C.;
Schwartz, Yuri B.;
Elgin, Sarah C. R.;
Karpen, Gary H.;
Pirrotta, Vincenzo;
Kuroda, Mitzi I.;
Park, Peter J.

Publication type:

Article