Ilya E Vorontsov

Affiliations

Department of Computational Systems Biology, Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow 119991, Russia.

Publications (9)

Functional annotation of human long noncoding RNAs via molecular phenotyping.

Genome research

Avec: Jordan A Ramilowski , Chi Wai Yip , Saumya Agrawal , Jen-Chien Chang , Yari Ciani , Ivan V Kulakovskiy , Mickaël Mendez , Jasmine Li Ching Ooi , John F Ouyang , Nick Parkinson , Andreas Petri , Leonie Roos , Jessica Severin , Kayoko Yasuzawa , Imad Abugessaisa , Altuna Akalin , Ivan V Antonov , Erik Arner , Alessandro Bonetti , Hidemasa Bono , Beatrice Borsari , Frank Brombacher , Christopher JF Cameron , Carlo Vittorio Cannistraci , Ryan Cardenas , Melissa Cardon , Howard Chang , Josée Dostie , Luca Ducoli , Alexander Favorov , Alexandre Fort , Diego Garrido , Noa Gil , Juliette Gimenez , Reto Guler , Lusy Handoko , Jayson Harshbarger , Akira Hasegawa , Yuki Hasegawa , Kosuke Hashimoto , Norihito Hayatsu , Peter Heutink , Tetsuro Hirose , Eddie L Imada , Masayoshi Itoh , Bogumil Kaczkowski , Aditi Kanhere , Emily Kawabata , Hideya Kawaji , Tsugumi Kawashima , S Thomas Kelly , Miki Kojima , Naoto Kondo , Haruhiko Koseki , Tsukasa Kouno , Anton Kratz , Mariola Kurowska-Stolarska , Andrew Tae Jun Kwon , Jeffrey Leek , Andreas Lennartsson , Marina Lizio , Fernando López-Redondo , Joachim Luginbühl , Shiori Maeda , Vsevolod J Makeev , Luigi Marchionni , Yulia A Medvedeva , Aki Minoda , Ferenc Müller , Manuel Muñoz-Aguirre , Mitsuyoshi Murata , Hiromi Nishiyori , Kazuhiro R Nitta , Shuhei Noguchi , Yukihiko Noro , Ramil Nurtdinov , Yasushi Okazaki , Valerio Orlando , Denis Paquette , Callum J C Parr , Owen J L Rackham , Patrizia Rizzu , Diego Fernando Sánchez Martinez , Albin Sandelin , Pillay Sanjana , Colin A M Semple , Youtaro Shibayama , Divya M Sivaraman , Takahiro Suzuki , Suzannah C Szumowski , Michihira Tagami , Martin S Taylor , Chikashi Terao , Malte Thodberg , Supat Thongjuea , Vidisha Tripathi , Igor Ulitsky , Roberto Verardo , Ilya E Vorontsov , Chinatsu Yamamoto , Robert S Young , J Kenneth Baillie , Alistair R R Forrest , Roderic Guigó , Michael M Hoffman , Chung Chau Hon , Takeya Kasukawa , Sakari Kauppinen , Juha Kere , Boris Lenhard , Claudio Schneider , Harukazu Suzuki , Ken Yagi , Michiel J L de Hoon , Jay W Shin , Piero Carninci

What Do Neighbors Tell About You: The Local Context of Cis-Regulatory Modules Complicates Prediction of Regulatory Variants.

Frontiers in genetics

Avec: Dmitry D Penzar , Arsenii O Zinkevich , Ilya E Vorontsov , Vasily V Sitnik , Alexander V Favorov , Vsevolod J Makeev , Ivan V Kulakovskiy

Enhanced C/EBP binding to G·T mismatches facilitates fixation of CpG mutations in cancer and adult stem cells.

Cell reports

Avec: Anna S Ershova , Irina A Eliseeva , Oleg S Nikonov , Alla D Fedorova , Ilya E Vorontsov , Dmitry Papatsenko , Ivan V Kulakovskiy

Landscape of allele-specific transcription factor binding in the human genome.

Nature communications

Avec: Sergey Abramov , Alexandr Boytsov , Daria Bykova , Dmitry D Penzar , Ivan Yevshin , Semyon K Kolmykov , Marina V Fridman , Alexander V Favorov , Ilya E Vorontsov , Eugene Baulin , Fedor Kolpakov , Vsevolod J Makeev , Ivan V Kulakovskiy

HOCOMOCO in 2024: a rebuild of the curated collection of binding models for human and mouse transcription factors.

Nucleic acids research

Avec: Ilya E Vorontsov , Irina A Eliseeva , Arsenii Zinkevich , Mikhail Nikonov , Sergey Abramov , Alexandr Boytsov , Vasily Kamenets , Alexandra Kasianova , Semyon Kolmykov , Ivan S Yevshin , Alexander Favorov , Yulia A Medvedeva , Arttu Jolma , Fedor Kolpakov , Vsevolod J Makeev , Ivan V Kulakovskiy

Assessing Ribosome Distribution Along Transcripts with Polarity Scores and Regression Slope Estimates.

Methods in molecular biology (Clifton, N.J.)

Avec: Ilya E Vorontsov , Artyom A Egorov , Aleksandra S Anisimova , Irina A Eliseeva , Vsevolod J Makeev , Vadim N Gladyshev , Sergey E Dmitriev , Ivan V Kulakovskiy

A holistic view of mouse enhancer architectures reveals analogous pleiotropic effects and correlation with human disease.

BMC genomics

Avec: Siddharth Sethi , Ilya E Vorontsov , Ivan V Kulakovskiy , Simon Greenaway , John Williams , Vsevolod J Makeev , Steve D M Brown , Michelle M Simon , Ann-Marie Mallon

ANANASTRA: annotation and enrichment analysis of allele-specific transcription factor binding at SNPs.

Nucleic acids research

Avec: Alexandr Boytsov , Sergey Abramov , Ariuna Z Aiusheeva , Alexandra M Kasianova , Eugene Baulin , Ivan A Kuznetsov , Yurii S Aulchenko , Semyon Kolmykov , Ivan Yevshin , Fedor Kolpakov , Ilya E Vorontsov , Vsevolod J Makeev , Ivan V Kulakovskiy

EpiFactors 2022: expansion and enhancement of a curated database of human epigenetic factors and complexes.

Nucleic acids research

Avec: Daria Marakulina , Ilya E Vorontsov , Ivan V Kulakovskiy , Andreas Lennartsson , Finn Drabløs , Yulia A Medvedeva

Réseau de co-auteurs

Ivan V Kulakovskiy 9 collaborations

Vsevolod J Makeev 7 collaborations

Yulia A Medvedeva 3 collaborations

Irina A Eliseeva 3 collaborations

Sergey Abramov 3 collaborations

Alexandr Boytsov 3 collaborations

Fedor Kolpakov 3 collaborations

Alexander Favorov 2 collaborations

Andreas Lennartsson 2 collaborations

Dmitry D Penzar 2 collaborations

Alexander V Favorov 2 collaborations

Ivan Yevshin 2 collaborations

Eugene Baulin 2 collaborations

Semyon Kolmykov 2 collaborations

Jordan A Ramilowski 1 collaboration

Chi Wai Yip 1 collaboration

Saumya Agrawal 1 collaboration

Jen-Chien Chang 1 collaboration

Yari Ciani 1 collaboration

Mickaël Mendez 1 collaboration

Jasmine Li Ching Ooi 1 collaboration

John F Ouyang 1 collaboration

Nick Parkinson 1 collaboration

Andreas Petri 1 collaboration

Leonie Roos 1 collaboration

Jessica Severin 1 collaboration

Kayoko Yasuzawa 1 collaboration

Imad Abugessaisa 1 collaboration

Altuna Akalin 1 collaboration

Ivan V Antonov 1 collaboration

Erik Arner 1 collaboration

Alessandro Bonetti 1 collaboration

Hidemasa Bono 1 collaboration

Beatrice Borsari 1 collaboration

Frank Brombacher 1 collaboration

Christopher JF Cameron 1 collaboration

Carlo Vittorio Cannistraci 1 collaboration

Ryan Cardenas 1 collaboration

Melissa Cardon 1 collaboration

Howard Chang 1 collaboration

Josée Dostie 1 collaboration

Luca Ducoli 1 collaboration

Alexandre Fort 1 collaboration

Diego Garrido 1 collaboration

Noa Gil 1 collaboration

Juliette Gimenez 1 collaboration

Reto Guler 1 collaboration

Lusy Handoko 1 collaboration

Jayson Harshbarger 1 collaboration

Akira Hasegawa 1 collaboration

Yuki Hasegawa 1 collaboration

Kosuke Hashimoto 1 collaboration

Norihito Hayatsu 1 collaboration

Peter Heutink 1 collaboration

Tetsuro Hirose 1 collaboration

Eddie L Imada 1 collaboration

Masayoshi Itoh 1 collaboration

Bogumil Kaczkowski 1 collaboration

Aditi Kanhere 1 collaboration

Emily Kawabata 1 collaboration

Hideya Kawaji 1 collaboration

Tsugumi Kawashima 1 collaboration

S Thomas Kelly 1 collaboration

Miki Kojima 1 collaboration

Naoto Kondo 1 collaboration

Haruhiko Koseki 1 collaboration

Tsukasa Kouno 1 collaboration

Anton Kratz 1 collaboration

Mariola Kurowska-Stolarska 1 collaboration

Andrew Tae Jun Kwon 1 collaboration

Jeffrey Leek 1 collaboration

Marina Lizio 1 collaboration

Fernando López-Redondo 1 collaboration

Joachim Luginbühl 1 collaboration

Shiori Maeda 1 collaboration

Luigi Marchionni 1 collaboration

Aki Minoda 1 collaboration

Ferenc Müller 1 collaboration

Manuel Muñoz-Aguirre 1 collaboration

Mitsuyoshi Murata 1 collaboration

Hiromi Nishiyori 1 collaboration

Kazuhiro R Nitta 1 collaboration

Shuhei Noguchi 1 collaboration

Yukihiko Noro 1 collaboration

Ramil Nurtdinov 1 collaboration

Yasushi Okazaki 1 collaboration

Valerio Orlando 1 collaboration

Denis Paquette 1 collaboration

Callum J C Parr 1 collaboration

Owen J L Rackham 1 collaboration

Patrizia Rizzu 1 collaboration

Diego Fernando Sánchez Martinez 1 collaboration

Albin Sandelin 1 collaboration

Pillay Sanjana 1 collaboration

Colin A M Semple 1 collaboration

Youtaro Shibayama 1 collaboration

Divya M Sivaraman 1 collaboration

Takahiro Suzuki 1 collaboration

Suzannah C Szumowski 1 collaboration

Michihira Tagami 1 collaboration

Martin S Taylor 1 collaboration

Chikashi Terao 1 collaboration

Malte Thodberg 1 collaboration

Supat Thongjuea 1 collaboration

Vidisha Tripathi 1 collaboration

Igor Ulitsky 1 collaboration

Roberto Verardo 1 collaboration

Chinatsu Yamamoto 1 collaboration

Robert S Young 1 collaboration

J Kenneth Baillie 1 collaboration

Alistair R R Forrest 1 collaboration

Roderic Guigó 1 collaboration

Michael M Hoffman 1 collaboration

Chung Chau Hon 1 collaboration

Takeya Kasukawa 1 collaboration

Sakari Kauppinen 1 collaboration

Juha Kere 1 collaboration

Boris Lenhard 1 collaboration

Claudio Schneider 1 collaboration

Harukazu Suzuki 1 collaboration

Ken Yagi 1 collaboration

Michiel J L de Hoon 1 collaboration

Jay W Shin 1 collaboration

Piero Carninci 1 collaboration

Arsenii O Zinkevich 1 collaboration

Vasily V Sitnik 1 collaboration

Anna S Ershova 1 collaboration

Oleg S Nikonov 1 collaboration

Alla D Fedorova 1 collaboration

Dmitry Papatsenko 1 collaboration

Daria Bykova 1 collaboration

Semyon K Kolmykov 1 collaboration

Marina V Fridman 1 collaboration

Arsenii Zinkevich 1 collaboration

Mikhail Nikonov 1 collaboration

Vasily Kamenets 1 collaboration

Alexandra Kasianova 1 collaboration

Ivan S Yevshin 1 collaboration

Arttu Jolma 1 collaboration

Artyom A Egorov 1 collaboration

Aleksandra S Anisimova 1 collaboration

Vadim N Gladyshev 1 collaboration

Sergey E Dmitriev 1 collaboration

Siddharth Sethi 1 collaboration

Simon Greenaway 1 collaboration

John Williams 1 collaboration

Steve D M Brown 1 collaboration

Michelle M Simon 1 collaboration

Ann-Marie Mallon 1 collaboration

Ariuna Z Aiusheeva 1 collaboration

Alexandra M Kasianova 1 collaboration

Ivan A Kuznetsov 1 collaboration

Yurii S Aulchenko 1 collaboration

Daria Marakulina 1 collaboration

Finn Drabløs 1 collaboration