GENA-LM: a family of open-source foundational DNA language models for long sequences Veniamin Fishman, Yuri Kuratov, Aleksei Shmelev, Maxim Petrov, Dmitry Penzar, Denis Shepelin, Nikolay Chekanov, Olga Kardymon, Mikhail Burtsev NUCLEIC ACIDS RES, 2025, Volume 53, Issue 2, 27 January 2025, gkae1310
2024
ЦИТОТОКСИЧЕСКОЕ ДЕЙСТВИЕ ОНКОЛИТИЧЕСКОГО ВИРУСА VV-GMCSF-LACTВ ОТНОШЕНИИ 3D-КУЛЬТУР КЛЕТОК ГЛИОБЛАСТОМЫ ЧЕЛОВЕКА U-87 MG Дымова М.А.,
Шнайдер Т.А.,
Чечеткина С.А.,
Петров Г.О.,
Малышева Д.О.,
Дроков Д.В.,
Агеенко А.Б.,
Васильева Н.С.,
Рихтер В.А.,
Кулигина Е.В. Acta Biomedica Scientifica, 2024, Vol. 8, N 6
A germline chimeric KANK1-DMRT1 transcript derived from a complex structural variant is associated with a congenital heart defect segregating across five generations Silvia Souza da Costa, Veniamin Fishman, Mara Pinheiro, Andre Rodrigueiro, Maria Teresa Sanseverino, Paulo Zielinsky, Claudia M. B. Carvalho, Carla Rosenberg, Ana Cristina Victorino Krepischi CHROMOSOME RES, 2024, Mar 19;32(2):6
Structural variants in the Epb41l4a locus: TAD disruption and Nrep gene misregulation as hypothetical drivers of neurodevelopmental outcomes Paul Salnikov, Alexey Korablev, Irina Serova, Polina Belokopytova, Aleksandra Yan, Yana Stepanchuk, Savelii Tikhomirov, Veniamin Fishman SCI REP-UK, 2024, Article number: 5288
Towards Development of the 4C-Based Method Detecting Interactions of Plasmid DNA with Host Genome Alexandra P Yan, Paul A Salnikov, Maria M Gridina, Polina S Belokopytova, Veniamin S Fishman BIOCHEMISTRY-MOSCOW+, 2024
Modification of the Hi-C Technology for Molecular Genetic Analysis of Formalin-Fixed Paraffin-Embedded Sections of Tumor Tissues Maria M Gridina, Yana K Stepanchuk, Miroslav A Nurridinov, Timofey A Lagunov, Nikita Yu Torgunakov, Artem A Shadsky, Anastasia I Ryabova, Nikolay V Vasiliev, Sergey V Vtorushin, Tatyana S Gerashchenko, Evgeny V Denisov, Mikhail A Travin, Maxim A Korolev, Veniamin S Fishman BIOCHEMISTRY-MOSCOW+, 2024
A HGF Mutation in the Familial Case of Primary Lymphedema: A Report Galina Koksharova, Natalia Kokh, Maria Gridina, Rustam Khapaev, Vadim Nimaev, Veniamin Fishman INT J MOL SCI, 2024
(+)-fenchol and (−)-isopinocampheol derivatives targeting the entry process of filoviruses Anastasiya S. Sokolova , Dmitriy S. Baev , Ekaterina D. Mordvinova , Olga I. Yarovaya , Natalia V. Volkova , Dmitriy N. Shcherbakov , Alina A. Okhina , Artem D. Rogachev , Tatiana A. Shnaider , Anastasiya S. Chvileva , Tatiana V. Nikitina , Tatyana G. Tolstikova , Nariman F. Salakhutdinov EUR J MED CHEM, 2024
TAD border deletion at the Kit locus causes tissue-specific ectopic activation of a neighboring gene. Kabirova E, Ryzhkova A, Lukyanchikova V, Khabarova A, Korablev A, Shnaider T, Nuriddinov M, Belokopytova P, Smirnov A, Khotskin NV, Kontsevaya G, Serova I, Battulin N. NAT COMMUN, 2024
Assessing cell lines with inducible depletion of cohesin and condensins components through analysis of metaphase chromosome morphology A. M. Yunusova, A. V. Smirnov, I. E. Pristyazhnuk, T. A. Shnaider, E. K. Maltseva, S. D. Afonnikova, O. A. Gusev, N. R. Battulin Vavilov journal of genetics and breeding, 2024
Design of iPSC-based cell model to study the functions of the UBE2A gene Alexandra Bogomazova, Alisa V Fedorenko, Ekaterina A Khomyakova, Anastasia V Surdina, Elizaveta K Sekretova, Tatiana V Limanskaya, Lilia D Belikova, Egor A Volovikov, Maria M Gridina, Anna A Khabarova, Anna A Kashevarova, Dmitry A Fedotov, Elena A Zerkalenkova, Maria A Lagarkova, Igor N Lebedev Гены и клетки, 2024
Generation of three IPSC Lines from Fibroblasts of a Patient with Cohen Syndrome Pristyazhnyuk I.E., Minina J.M., Voinova V.Y., Safonova M.P., Lagarkova M.A., Davidenko A.V., Volovikov E.A., Menzorov A.G. RUSS J DEV BIOL+, 2024, 55(3):153–160
Characterizing a Lethal CAG-ACE2 Transgenic Mouse Model for SARS-CoV-2 infection with Using Cas9-Enhanced Nanopore Sequencing Smirnov A, Nurislamov A, Galina Koncevaya G, Serova I, Kabirova E, Chuyko E, Maltceva E, Savoskin M, Zadorozhny D, Svyatchenko VA, Protopopova EV, Taranov OS, Legostaev SS, Loktev VB, Serov O, Battulin N TRANSGENIC RES, 2024, 33(5):453-466
EHMT2 as a Candidate Gene for an Autosomal Recessive
Neurodevelopmental Syndrome Laura Machado Lara Carvalho, Jessica Rzasa, Jennifer Kerkhof, Haley McConkey, Veniamin Fishman, Galina Koksharova, Alexander Augusto de Lima Jorge, Elisa Varella Branco, Danyllo Felipe de Oliveira, Beatriz Martinez‑Delgado, Maria J. Barrero, Tjitske Kleefstra, Bekim Sadikovic, Luciana Amaral Haddad, Débora Romeo Bertola, Carla Rosenberg, Ana Cristina Victorino Krepischi MOL NEUROBIOL, 2024
Generation and analysis of mouse embryonic stem cells with knockout of the Mcph1 (microcephalin) gene Юнусова А.М., Смирнов А.В., Шнайдер Т.А., Пристяжнюк И.Е., Кораблева С.Ю., Баттулин Н.Р. Vavilov journal of genetics and breeding, 2024, Sep;28(5):487-494
РОЛЬ МИКРОЦЕФАЛИНА В НЕЙРОГЕНЕЗЕ
И ЭВОЛЮЦИИ ГОЛОВНОГО МОЗГА ЧЕЛОВЕКА Юнусова А.М., Шнайдер Т.А. Цитология, 2024
A family case of a rare autoinflammatory disease associated with mutations in the NLRP3 and TNFRSF1A genes in the practice of a rheumatologist Kurochkina Yu.D., Korolev M.A., Letyagina E.A., Fishman V.S., Gridina M.M.,Valeeva E.S. Бюллетень сибирской медицины, 2023, 22(2):170–175
Annotation of uORFs in the OMIM genes allows to reveal pathogenic variants in 5'UTRs Alexandra Filatova, Ivan Reveguk, Maria Piatkova, Daria Bessonova, Olga Kuziakova, Victoria Demakova, Alexander Romanishin, Veniamin Fishman, Yerzhan Imanmalik, Nikolay Chekanov, Rostislav Skitchenko, Yury Barbitoff, Olga Kardymon, Mikhail Skoblov NUCLEIC ACIDS RES, 2023, gkac1247
Hi-C analysis of genomic contacts revealed karyotype abnormalities in chicken HD3 cell line Maslova A, Plotnikov V, Nuriddinov M, Gridina M, Fishman V, Krasikova BMC GENOMICS, 2023
Cell type–specific interpretation of noncoding variants using deep learning–based methods Maria Sindeeva, Nikolay Chekanov, Manvel Avetisian, Tatiana I Shashkova, Nikita Baranov, Elian Malkin, Alexander Lapin, Olga Kardymon, Veniamin Fishman GigaScience, 2023
Lampbrush chromosome studies in the post-genomic era Alla Krasikova, Veniamin Fishman, Tatiana Kulikova BIOESSAYS, 2023
Influence of human peripheral blood samples preprocessing on the quality of Hi-C libraries M M Gridina, E Vesna, M E Minzhenkova, N V Shilova, O P Ryzhkova, L P Nazarenko, E O Belyaeva, I N Lebedev, V S Fishman Vavilov journal of genetics and breeding, 2023
Function and Evolution of the Loop Extrusion Machinery in Animals Evelyn Kabirova, Artem Nurislamov, Artem Shadskiy, Alexander Smirnov, Andrey Popov, Pavel Salnikov, Nariman Battulin, Veniamin Fishman INT J MOL SCI, 2023
A Cre-LoxP-based approach for combinatorial chromosome rearrangements in human HAP1 cells Anna Khabarova, Galina Koksharova, Pavel Salnikov, Polina Belokopytova, Roman Mungalov, Inna Pristyazhnuk, Artem Nurislamov, Maria Gridina, Veniamin Fishman CHROMOSOME RES, 2023
Ultrastructural Abnormalities in Induced Pluripotent Stem Cell-Derived Neural Stem Cells and Neurons of Two Cohen Syndrome Patients Shnaider TA, Khabarova AA, Morozova KN, Yunusova AM, Yakovleva SA, Chvileva AS, Wolf ER, Kiseleva EV, Grigor’eva EV, Voinova VY, Lagarkova MA, Pomerantseva EA, Musatova EV, Smirnov AV, Smirnova AV, Stoklitskaya DS, Arefieva TI, Larina DA, Nikitina TV, Pristyazhnyuk IE Cells, 2023
Изучение синдрома Коэна на основе пациент-специфичных ИПСК с мутацией в гене СОН1. Т.А. Шнайдер, К.Н. Морозова, А.А. Хабарова, С. Чечеткина, A. Чвилева, A. Юнусова, Е. Вольф, Е.В. Киселева, И.Е. Пристяжнюк. Гены и клетки, 2023, 2023. Том XVIII, Приложение, с. 49-50.
Design, synthesis and antiviral evaluation of novel conjugatesof the 1,7,7‐trimethylbicyclo[2.2.1]heptane scaffold andsaturated N‐heterocycles via 1,2,3‐triazole linker Anastasiya S. Sokolova, Olga I. Yarovaya, Oleg I. Artyushin, Elena V. Sharova, Dmitriy S. Baev, Ekaterina D. Mordvinova, Dmitriy N. Shcherbakov, Tatiana A. Shnaider, Tatiana V. Nikitina, Iana L. Esaulkova, Polina A. Ilyina, Vladimir V. Zarubaev, Valery K. Brel, Tatyana G. Tolstikova, Nariman F. Salakhutdinov ARCH PHARM, 2023
Expanding the list of sequence-agnostic enzymes for chromatin conformation capture assays with S1 nuclease Gridina Maria, Popov Andrey, Shadskiy Artem, Torgunakov Nikita, Kechin Andrey, Khrapov Evgeny, Ryzhkova Oxana, Filipenko Maxim & Fishman Veniamin EPIGENET CHROMATIN, 2023, 16: 48
Generation of Induced Pluripotent Stem Cell Line iTAF15Xsk4 from Fibroblasts of a Patient with Microdeletion at Xq24 I. E. Pristyazhnyuk, N. I. Meshcheryakov, b, T. V. Nikitina, A. A. Kashevarova, D. A. Fedotov, E. N. Tolmacheva, L. I. Minaycheva, L. P. Nazarenko, I. N. Lebedev, and A. G. Menzorov RUSS J DEV BIOL+, 2023, Vol. 54, No. 6, pp. 358–364
2022
Generation of two iPSC lines from healthy donor with a heterozygous mutation in the VPS13B gene S.A.Chechetkina, A.A.Khabarova, A.S.Chvileva, O.M.Kurchenko, A.V.Smirnov, A.M.Yunusova, I.N.Kotov, E.V.Musatova, E.A.Pomerantseva, E.A.Volovikov, M.A.Lagarkova, T.A.Shnaider, I.E.Pristyazhnyuk STEM CELL RES, 2022
Anopheles mosquitoes reveal new principles of 3D genome organization in insects Varvara Lukyanchikova*, Miroslav Nuriddinov*, Polina Belokopytova, Alena Taskina, Jiangtao Liang, Maarten Reijnders, Livio Ruzzante, Romain Feron, Robert Waterhouse, Yang Wu, Chunhong Mao, Zhijian Tu, Igor Sharakhov, and Veniamin Fishman
* authors contributed equally NAT COMMUN, 2022
3DGenBench: a web-server to benchmark computational models for 3D Genomics Belokopytova, Emil Viesná, Mateusz Chiliński, Yifeng Qi, Hossein Salari, Marco Di Stefano, Andrea Esposito, Mattia Conte, Andrea M. Chiariello, Vladimir B. Teif, Dariusz Plewczynski, Bin Zhang, Daniel Jost, Veniamin Fishman NUCLEIC ACIDS RES, 2022
Establishment of the Primary Avian Gonadal Somatic Cell Lines for Cytogenetic Studies. Animals 2022, . https://doi.org/ Pristyazhnyuk, I.E.
Malinovskaya, L.P.
Borodin, P.M. Animals, 2022, v. 22, p. 1724
Germline-Restricted Chromosomes and Autosomal Variants Revealed by Pachytene Karyotyping of 17 Avian Species Malinovskaya L.P.
Slobodchikova A.Y.
Grishko E.O.
Pristyazhnyuk I.E.
Torgasheva A.A.
Borodin P.M. CYTOGENET GENOME RES, 2022
The human EF1a promoter does not provide expression of the transgene in mice Nariman Battulin, Alexey Korablev, Anastasia Ryzhkova, Alexander Smirnov, Evelyn Kabirova, Anna Khabarova, Timofey Lagunov, Irina Serova, Oleg Serov TRANSGENIC RES, 2022
Method for the Isolation of “RNA-seq-Quality” RNA from Human Intervertebral Discs after Mortar And Pestle Homogenization Artemii A. Ivanov, Olga N. Leonova, Daniil S. Wiebe, Alexsandr V. Krutko, Mariya M. Gridina, Veniamin S. Fishman, Yurii S. Aulchenko, Yakov A. Tsepilov, Tatiana S. Golubeva Cells, 2022
HARs: History, Functions, and Role in the Evolution and Pathogenesis of Human Diseases A. S. Ryzhkova, A. A. Khabarova, A. S. Chvileva, T. A. Shnaider Cell and Tissue Biology, 2022
FastContext: A tool for identification of adapters and other sequence patterns in next generation sequencing (NGS) data Е. Viesná, V. Fishman Vavilov journal of genetics and breeding, 2022, 26(8):806-809
The role of high-order chromatin organization in gene regulation Veniamin Fishman, Alexey V Pindyurin Frontiers in Genetics, 2022
Single-Cell DNA Methylation Analysis of Chicken Lampbrush Chromosomes Artem Nurislamov, Timofey Lagunov, Maria Gridina, Alla Krasikova, Veniamin Fishman INT J MOL SCI, 2022, 23(20):12601
Comparison and critical assessment of single-cell Hi-C protocols M Gridina, A Taskina, T Lagunov, A Nurislamov, T Kulikova, A Krasikova, V Fishman Heliyon, 2022, 8(10):e11023
Комплексные геномные перестройки в этиологии «хромосомного фенотипа» М. Е. Миньженкова, Ж. Г. Маркова, Д. А. Юрченко, А. А. Тарлычева, Т. В. Маркова, Н. А. Семенова, А. Ф. Муртазина, В. В. Кадышев, М. М. Гридина, Э. . Весна, В. С. Фишман, Н. В. Шилова Медицинская генетика, 2022, 21(11):44-47
Multilevel view on chromatin architecture alterations in cancer Maria Gridina, Veniamin Fishman Frontiers in Genetics, 2022
ADAMTS1 Is Differentially Expressed in Human Lymphocytes with Various Frequencies of Endogenous γH2AX Foci and Radiation-Induced Micronuclei S. A. Vasilyev, R. R. Savchenko, A. A. Belenko, N. A. Skryabin, A. A. Sleptsov, V. S. Fishman, A. A. Murashkina, O. V. Gribova, Z. A. Startseva, E. S. Sukhikh, A. V. Vertinskiy, L. G. Sukhikh, O. L. Serov, I. N. Lebedev RUSS J GENET+, 2022
Generation of iPS cell line (ICGi040-A) from skin fibroblasts of a patient with ring small supernumerary marker chromosome 4 M.M.Gridina, A.R.Nurislamov, J.M.Minina, M.E.Lopatkina, G.V.Drozdov, S.A.Vasilyev, L.I.Minaycheva, E.O.Belyaeva, T.V.Nikitina, A.A.Kashevarova, I.N.Lebedev, T.V.Karamysheva, N.B.Rubtsov, O.L.Serov STEM CELL RES, 2022, 61, 102740
2021
Differential DNA Methylation of the IMMP2L Gene in
Families with Maternally Inherited 7q31.1 Microdeletions
is Associated with Intellectual Disability and
Developmental Delay Vasilyev Stanislav A., Skryabin Nikolay, A. Kashevarova
Anna A., Tolmacheva Ekaterina N., Savchenko Renata R.,
Vasilyeva Oksana Yu., Lopatkina Maria E., Zarubin Alexei
A., Fishman Veniamin S., Belyaeva Elena O., Filippova
Miroslava O., Shorina Asia R., Maslennikov Arkadiy B.,
Shestovskikh Olga L., Gayner Tatyana A., Culic Vida, Vulic
Robert, Nazarenko Lyudmila P., Lebedev Igor N. CYTOGENET GENOME RES, 2021
The Mutation Spectrum of Maturity Onset Diabetes
of the Young (MODY)-Associated Genes amongWestern Siberia Patients Dinara E. Ivanoshchuk, Elena V. Shakhtshneider, Oksana D. Rymar, Alla K. Ovsyannikova, Svetlana V. Mikhailova, Veniamin S. Fishman, Emil S. Valeev, Pavel S. Orlov and Mikhail I. Voevoda J. Pers. Med, 2021, 11, 57-71
Predicting Genome Architecture: Challenges and Solutions P. Belokopytova, V. Fishman Frontiers in Genetics, 2021, 11:617202
Complex biology of constitutional ring chromosomes structure and (in)stability revealed by somatic cell reprogramming T V Nikitina, A A Kashevarova, M M Gridina, M E Lopatkina, A A Khabarova, Yu S Yakovleva, A G Menzorov, Yu A Minina, I E Pristyazhnyuk, S A Vasilyev, D A Fedotov, O L Serov, I N Lebedev SCI REP-UK, 2021, 11(1):4325
A cookbook for DNase Hi-C Maria Gridina, Evgeniy Mozheiko, Emil Valeev, Ludmila P. Nazarenko, Maria E. Lopatkina, Zhanna G. Markova, Maria I. Yablonskaya, Viktoria Yu Voinova, Nadezhda V. Shilova, Igor N. Lebedev, Veniamin Fishman EPIGENET CHROMATIN, 2021, No. 14, Article number: 15
Erythrocytes 3D genome organization in vertebrates Anastasia Ryzhkova, Alena Taskina, Anna Khabarova, Veniamin Fishman, Nariman Battulin SCI REP-UK, 2021
Анализ полиморфизма гена f5 у мужчин с коронарным атеросклерозом с использованием метода полноэкзомного секвенирования Е. В. Стрюкова, Е. В. Шахтшнейдер, Д. Е. Иванощук, Ю. И. Рагино, Я. В. Полонская, И. С. Мурашов, А. М. Волков, А. В. Кургузов, А. М. Чернявский, Э. С. Валеев, В. Н. Максимов, Е. В. Каштанова Атеросклероз, 2021, 17(1):29-37
Создание библиотек баркодированных плазмид
с помощью метода клонирования по Гибсону А.В. Смирнов, А.М. Юнусова, А.А. Муравьева, Э.C. Валеев, В.C. Фишман, Н.Р. Баттулин Письма в Вавиловский журнал генетики и селекции, 2021
Evaluation of the OsTIR1 and AtAFB2 AID Systems for Genome Architectural Protein Degradation in Mammalian Cells Anastasia Yunusova*, Alexander Smirnov, Tatiana Shnaider, Varvara Lukyanchikova, Svetlana Afonnikova and Nariman Battulin* Front Mol Biosci, 2021, Front. Mol. Biosci. 2021. 8:757394
Analysis of Rare Variants in Genes Related to Lipid Metabolism in Patients with Familial Hypercholesterolemia in Western Siberia (Russia) Elena Shakhtshneider, Dinara Ivanoshchuk, Olga Timoshchenko, Pavel Orlov, Sergey Semaev, Emil Valeev, Andrew Goonko, Nataliya Ladygina and Mikhail Voevoda J. Pers. Med, 2021, 11, 1232-1245
Высокопроизводительные молекулярно-генетические технологии для поиска новых этиопатогенетических факторов развития атеросклероза Шахтшнейдер Е.В., Иванощук Д.Е., Рагино Ю.И., Валеев Э.С., Полонская Я.В., Каштанова Е.В., Чернявский А.М., Мурашов И.С., Воевода М.И. Атеросклероз, 2021, 17(3):83-84
Here and there: the double-side transgene localization P A Salnikov, A A Khabarova, G S Koksharova, R V Mungalov, P S Belokopytova, I E Pristyazhnuk, A R Nurislamov, P Somatich, M M Gridina, V S Fishman Vavilov journal of genetics and breeding, 2021
Анализ дифференциальной экспрессии генов
липидного обмена в атеросклеротических бляшках
у пациентов с коронарным атеросклерозом Шахтшнейдер Е.В., Иванощук Д.Е., Рагино Ю.И., Фишман В.С., Полонская Я.В., Каштанова Е.В., Чернявский А.М., Мурашов И.С., Воевода М.И. Сибирский журнал клинической и экспериментальной медицины, 2021, 36(4):156–163
CLARITY and Light-Sheet microscopy sample preparation
in application to human cerebral organoids T.A. Shnaider, I.E. Pristyazhnyuk Vavilov journal of genetics and breeding, 2021, 25(8):889-895
Derivation of Ringed Seal ( Phoca hispida) Induced Multipotent Stem Cells Violetta R Beklemisheva, Polina S Belokopytova, Veniamin S Fishman, Aleksei G Menzorov CELL REPROGRAM, 2021, 23(6):326-335
A hypomorphic mutation in the mouse csn1s1 gene generated by CRISPR/Cas9 pronuclear microinjection A V Smirnov, T А Shnaider, A N Korablev, A M Yunusova, I A Serova, N R Battulin Vavilov journal of genetics and breeding, 2021
Derivation of iPS cell line (ICGi032-A) from a patient affected with fragile X syndrome. Gridina MM, Shitik EM, Lemskaya NA, Minina JM, Grishchenko IV, Dolskiy AA, Shorina AR, Maksimova YV, Yudkin DV. STEM CELL RES, 2021, 29, 57, 102615
2020
Quantitative prediction of enhancer-promoter interactions Polina Belokopytova, Miroslav Nuriddinov, Evgeniy Mozheiko, Daniil Fishman, Veniamin Fishman GENOME RES, 2020, 30(1):72-84
DNA barcoding reveals that injected transgenes are predominantly processed by homologous recombination in mouse zygote Alexander Smirnov, Veniamin Fishman, Anastasia Yunusova, Alexey Korablev, Irina Serova, Boris V Skryabin, Timofey S Rozhdestvensky, Nariman Battulin NUCLEIC ACIDS RES, 2020, Volume 48, Issue 2, 24 January 2020, Pages 719–735
Effect of the THBS1 Gene Knockout on the Radiation-Induced Cellular Response in a Model System In Vitro R. R. Savchenko, S. A. Vasilyev, V. S. Fishman, E. S. Sukhikh, L. G. Sukhikh, A. A. Murashkin, I. N. Lebedev RUSS J GENET+, 2020, Vol. 56, No. 5, pp. 618–626
Postsynthetic On-Column 2' Functionalization of RNA by Convenient Versatile Method Olga A Krasheninina, Veniamin S Fishman, Alexander A Lomzov, Alexey V Ustinov, Alya G Venyaminova INT J MOL SCI, 2020
Establishment of an induced pluripotent stem cell line (ICGi025-A) from fibroblasts of a patient with 46,XY,r(8)/45,XY,–8 mosaicism M.M.Gridina, T.V.Nikitina, P.A.Orlova, J.M.Minina, A.A.Kashevarova, Yu.S.Yakovleva, M.E.Lopatkina, S.A.Vasilyev, D.A.Fedotov, L.I.Mikhailik, L.P.Nazarenko, I.N.Lebedev, O.L.Serov STEM CELL RES, 2020, V. 49. December 2020, 102024
Establishment of an induced pluripotent stem cell line (ICGi026-A) from peripheral blood mononuclear cells of a patient with fragile X syndrome M M Gridina, P A Orlova, J M Minina, E M Shitik, N A Lemskaya, I V Grishchenko, A A Dolskiy, A R Shorina, Y V Maksimova, D V Yudkin, O L Serov STEM CELL RES, 2020, Dec;49:102070
Generation of iPSC line ICGi024-A from human skin fibroblasts of a patient with ring chromosome 18 AA Khabarova, IE Pristyazhnyuk, PA Orlova, TV Nikitina, AA Kashevarova, ME Lopatkina, EO Belyaeva, NN Sukhanova, LP Nazarenko, IN Lebedev, OL Serov STEM CELL RES, 2020
2019
Induced pluripotent stem cell line, ICAGi001-A, derived from human skin fibroblasts of a patient with 2p25.3 deletion and 2p25.3-p23.3 inverted duplication KhabarovaA.A, Pristyazhnyuk I.E., NikitinaT.V., GaynerT.A., TorkhovaN.B., SkryabinN.A., KashevarovaA.A., BabushkinaN.P., MarkovaZh.G., MinzhenkovaM.E., NazarenkoL.P., ShilovaN.V., ShorinaA.R., LebedevI.N., SerovO.L. STEM CELL RES, 2019, V.34, 101377
3D organization of chicken genome demonstrates evolutionary conservation of topologically associated domains and highlights unique architecture of erythrocytes' chromatin. Fishman V., Battulin N., Nuriddinov M., Maslova A., Zlotina A., Strunov A., Chervyakova D.,
Korablev A., Serov O., Krasikova A. NUCLEIC ACIDS RES, 2019
Способы повышения эффективности knock-in в геном плюрипотентных клеток человека при помощи системы CRISPR/Cas9 М.М. Гридина Vavilov journal of genetics and breeding, 2019
Реорганизация хроматина в процессе эритроидной дифференцировки А. А. Хабарова, А. С. Рыжкова, Н. Р. Баттулин Vavilov journal of genetics and breeding, 2019, Т.23 , № 1 (2019)
Targeted genomic integration of EGFP under tubulin beta 3 class III promoter and mEos2 under tryptophan hydroxylase 2 promoter does not produce sufficient levels of reporter gene expression Aleksei G. Menzorov
Konstantin E. Orishchenko
Veniamin S. Fishman
Anastasia A. Shevtsova
Roman V. Mungalov
Inna E. Pristyazhnyuk
Elena A. Kizilova
Natalia M. Matveeva
Natalia Alenina
Michael Bader
Nikolai B. Rubtsov
Oleg L. Serov J CELL BIOCHEM, 2019, 120(10):17208-17218
Germline-restricted chromosome (GRC) is widespread among songbirds Torgasheva AA, Malinovskaya LP, Zadesenets KS, Karamysheva TV, Kizilova EA, Akberdina EA, Pristyazhnyuk IE, Shnaider EP, Volodkina VA, Saifitdinova AF,Galkina SA, Larkin DM, Rubtsov NB, Borodin PM. 2019, 116: 11845-11850. P NATL ACAD SCI USA, 2019, 116: 11845-11850.
Generation of four iPSC lines from two siblings with a microdeletion at the CNTN6 gene and intellectual disability T.A.Shnaider,I.E.Pristyazhnyuk, A.G.Menzorov, N.M.Matveeva, A.AKhabarova, N.A.Skryabin, A.A.Kashevarova, M.E.Lopatkina, L.P.Nazarenko, I.N.Lebedev, O.L.Serov STEM CELL RES, 2019
Time origin and structural analysis of the induced CRISPR/cas9 megabase-sized deletions and duplications involving the Cntn6 gene in mice. Inna E. Pristyazhnyuk, Julia Minina, Alexey Korablev, Irina Serova, Veniamin Fishman, Maria Gridina, Timofey S. Rozhdestvensky, Leonid Gubar, Boris V. Skryabin, and Oleg L. Serov SCI REP-UK, 2019, 9: 14161
Использование тимидинкиназы для отрицательной селекции индуцированных плюрипотентных стволовых клеток Алексей Гавриилович Мензоров, Константин
Евгеньевич Орищенко, Мария Михайловна
Гридина, Вениамин Семенович Фишман,
Олег Леонидович Серов, Анна Александровна
Кашеварова, Татьяна Владимировна
Никитина, Игорь Николаевич Лебедев Гены и клетки, 2019, Том XIV, Приложение, 2019, С. 150-151
ДифференциальнАя стабильность кольцевых хромосом в индуцированных плюрипотентных стволовых клетках Татьяна Владимировна Никитина, Анна Александровна Кашеварова, Алексей Гавриилович Мензоров, Станислав Анатольевич
Васильев, Мария Михайловна Гридина, Анна Александровна Хабарова, Юлия Сергеевна Яковлева, Мария Евгеньевна Лопаткина, Марина Алексеевна Распопова, Дмитрий Александрович Дериглазов, Олег Леонидович Серов, Игорь Николаевич Лебедев Гены и клетки, 2019, Том XIV, Приложение, 2019, С. 166-167
Создание репортерного лентивирусного вектора Lego-REX1-EGFP для отбора индуцированных плюрипотентных стволовых клеток Артем Рустамович Нурисламов, Вениамин Семенович Фишман, Алексей Гавриилович Мензоров Гены и клетки, 2019, Том XIV, Приложение, 2019, С. 170-171
C-InterSecture—a computational tool for interspecies comparison of genome architecture Нуриддинов Мирослав Абдурахимович
Фишман Вениамин Семёнович BIOINFORMATICS, 2019, Volume 35, Issue 23, 1 December 2019, Pages 4912–4921,
Происхождение и судьба масштабных хромосомных перестроек, индуцированных технологией CRISPR/Cas9 у мышей: от зигот до соматических клеток Алексей Николаевич Кораблев, Инна Евгеньевна Пристяжнюк, Юлия Михайловна Минина, Ирина Александровна Серова, Вениамин Семенович Фишман, Мария Михайловна Гридина, Timofey Rozhdestvensky, Leonid Gubar, Boris Skryabin, Олег Леонидович Серов Гены и клетки, 2019
Detection of Point Mutations and Chromosomal Translocations Based on Massive Parallel Sequencing of Enriched 3C Libraries Mozheiko E.A., Fishman V.S. RUSS J GENET+, 2019
2018
Ring chromosomes: from formation to clinical potential Pristyazhnyuk I.E., Menzorov A.G. PROTOPLASMA, 2018, 255(2); 439-449 doi: 10.1007/s00709-017-1165-1
Allele-Specific Biased Expression of the CNTN6 Gene in iPS Cell-Derived Neurons from a Patient with Intellectual Disability and 3p26.3 Microduplication Involving the CNTN6 Gene Maria M. Gridina, Natalia M. Matveeva, Veniamin S. Fishman, Aleksei G. Menzorov, Helen A. Kizilova, Nikolay A. Beregovoy, Igor I. Kovrigin, Inna E. Pristyazhnyuk, Igor P. Oscorbin, Maxim L. Filipenko, Anna A. Kashevarova, Nikolay A. Skryabin, Tatyana V. Nikitina, Elena A. Sazhenova, Ludmila P. Nazarenko, Igor N. Lebedev, Oleg L. Serov MOL NEUROBIOL, 2018, 55:6533-6546
Generation of two iPSC lines (IMGTi001-A and IMGTi001-B) from human skin fibroblasts with ring chromosome 22 Nikitina TV, Menzorov AG, Kashevarova AA, Gridina MM, Khabarova AA, Yakovleva YS, Lopatkina ME, Kizilova EA, Vasilyev SA, Serov OL, Lebedev IN. STEM CELL RES, 2018, 31, 244–248
АНАЛИЗ ДИФФЕРЕНЦИАЛЬНОЙ ЭКСПРЕССИИ МАТРИКСНЫХ МЕТАЛЛОПРОТЕИНАЗ
В СТАБИЛЬНОЙ И НЕСТАБИЛЬНОЙ АТЕРОСКЛЕРОТИЧЕСКИХ БЛЯШКАХ МЕТОДОМ
ПОЛНОГЕНОМНОГО СЕКВЕНИРОВАНИЯ РНК: ПИЛОТНОЕ ИССЛЕДОВАНИЕ Иванощук Д.Е., Рагино Ю. И.
, Шахтшнейдер Е.В., Михайлова С.В.
, Фишман В. С., Полонская Я.В.
, Каштанова Е.В., Чернявский А.М.
, Мурашов И.С., Воевода М.И. Российский Кардиологический Журнал, 2018, №8, С.52-58
Induced pluripotent stem cell line, IMGTi003-A, derived from skin fibroblasts of an intellectually disabled patient with ring chromosome 13 Nikitina T.V., Menzorov A.G., Kashevarova A.A., Gridina M.M., Khabarova A.A., Yakovleva Yu.S., Lopatkina M.E., Pristyazhnyuk I.E., Vasilyev S.A., Serov O.L.,
Lebedev I.N. STEM CELL RES, 2018, 33:260–264
Intragenic Microduplication of LAMA1 and a Constitutional 18p11.32 Microduplication in a Patient with Keratosis Pilaris and Intellectual Disability. Anna A. Kashevarova, Lyudmila P. Nazarenko, Nikolay A. Skryabin, Tatyana V. Nikitina, Stanislav
A. Vasilyev, Ekaterina N. Tolmacheva, Mariya E. Lopatkina, Olga A. Salyukova, Nataliya N.
Chechetkina, Ekaterina A. Vorotelyak, Ekaterina, P. Kalabusheva, Veniamin S. Fishman, Julia
Kzhyshkowska, Claudio Graziano, Pamela Magini, Giovanni Romeo, Igor N. Lebedev AM J MED GENET A, 2018
Interpreting chromosomal rearrangements in the context
of 3-dimentional genome organization: a practical guide for medical genetics V.S. Fishman, P.A. Salnikov, N.R. Battulin BIOCHEMISTRY-MOSCOW+, 2018
Церебральные органоиды – перспективная модель в клеточных технологиях Т. А. Шнайдер Vavilov journal of genetics and breeding, 2018
2017
5’-биспиренильные зонды типа «молекулярный маяк» для детекции РНК. Крашенинина О.А., Фишман В.С., Новопашина Д.С., Веньяминова А.Г. Биоорганическая химия, 2017, №3, Том 43
Rational design and studies of excimer forming novel dual probes to target RNA Krasheninina OA, Lomzov AA, Fishman VS, Novopashina DS, Venyaminova AG. Bioorganic & Medicinal Chemistry, 2017, Apr 1;25(7):2244-2250
Deterministic versus stochastic model of reprogramming: new evidence from cellular barcoding technique Anastasia M. Yunusova, Veniamin S. Fishman, Gennady V. Vasiliev, Nariman R. Battulin. OPEN BIOL, 2017, 7 (4)
Спонтанная хромосомная нестабильность в клетках с кольцевой хромосомой как основа хромосомной терапии Кашеварова А.А., Беляева Е.О., Никонов А.М., Плотникова О.В., Гергерт И.Г., Никитина Т.В., Скрябин Н.А., Мензоров А.Г., Гридина М.М., Васильев С.А., Лопаткина М.Е., Савченко Р.Р., Чурилова А.В., Толмачева Е.Н., Серов О.Л., Назаренко Л.П., Лебедев И.Н. Медицинская генетика, 2017, 12:18-26
Получение индуцированных плюрипотентных стволовых клеток американской норки: протокол Пристяжнюк Инна Евгеньевна, Мензоров Алексей Гаврилович Vavilov journal of genetics and breeding, 2017, 2017;21(6):701-709 DOI 10.18699/VJ17.288
Изучение инактивации Х-хромосом в индуцированных плюрипотентных стволовых клетках американской норки Пристяжнюк И.Е., Мензоров А.Г. Цитология, 2017, 2017;59(11):783
Получение ИПСК с кольцевыми хромосомами и анализ их стабильности в соматических и плюрипотентных клетках Никитина Т.В., Васильев С.А., Мензоров А.Г., Кашеварова А.А., Чурилова А.В., Гридина М.М., Беляева Е.О., Лебедев И.Н. Гены и клетки, 2017, 2017;12(3):177
Нарушение экспрессии аллелей гена CNTN6 в нейронах, полученных из индуцированных плюрипотентных стволовых клеток пациента с 3p26.3 микродупликацией Гридина М.М., Матвеева Н.М., Фишман В.С., Мензоров А.Г., Кизилова Е.А., Ковригин И.И., Пристяжнюк И.Е., Никитина Т.В., Кашеварова А.А., Скрябин Н.А., Назаренко Л.П., Лебедев И.Н., Серов О.Л. Гены и клетки, 2017, 12(3):76-77
Установление границ хромосомных перестроек у пациентов с микроделециями и микродупликациями 3p26.3 Гридина М.М., Шнайдер Т.А., Ковригин И.И., Мензоров А.Г., Фишман В.С. Acta Naturae, 2017, 9(1):84
Identical phenotypes of inherited reciprocal chromosomal microdeletions and microduplications are explained by similar expression levels of genes affected by CNVs Lebedev I.N., Gridina M.M., Menzorov A.G., Matveeva N.M., Pristyazhnyuk I.E., Shnaider T.A., Nazarenko L.P., Skryabin N.A., Nikitina T.V., Sazhenova E.A., Kashevarova A.A., Serov O.L. Mol Cytogen, 2017, 10(Suppl 1):1.P15
2016
Erratum to: comparison of the three-dimensional organization of sperm and fibroblast genomes using the Hi-C approach Nariman Battulin, Veniamin S Fishman, Alexander M Mazur, Mikhail Pomaznoy, Anna A Khabarova, Dmitry A Afonnikov, Egor B Prokhortchouk, Oleg L Serov GENOME BIOL, 2016
2010
Dominance of parental genomes in embryonic stem cell/fibroblast hybrid cells depends on the ploidy of the somatic partner Kruglova A.A., Matveeva N.M., Gridina M.M., Battulin N.R., Karpov A., Kiseleva E.V., Morozova K.N., Serov O.L. CELL TISSUE RES, 2010, V. 340, 437-450.
2005
Видимая и «скрытая» сегрегация родительских хромосом в эмбриональных стволовых гибридных клетках Пристяжнюк И.Е., Темирова С.А., Мензоров А.Г., Круглова А.А., Матвеева Н.М., Серов О.Л. RUSS J DEV BIOL+, 2005, Онтогенез. 2005. Т. 36(2):151-8.
