A. Aliper

发表

Data Aggregation at the Level of Molecular Pathways Improves Stability of Experimental Transcriptomic and Proteomic Data

B. Mishra, Nicolas Borisov, M. Suntsova, 2016, bioRxiv.

Mathematical Justification of Expression-Based Pathway Activation Scoring (PAS).

A. Aliper, A. Zhavoronkov, A. Buzdin, 2017, Methods in molecular biology.

Deep learning enables rapid identification of potent DDR1 kinase inhibitors

Alán Aspuru-Guzik, A. Aliper, A. Zhavoronkov, 2019, Nature Biotechnology.

Pathway activation profiling reveals new insights into Age-related Macular Degeneration and provides avenues for therapeutic interventions

Alexander Aliper, Alex Zhavoronkov, Anton Buzdin, 2014, Aging.

Novel robust biomarkers for human bladder cancer based on activation of intracellular signaling pathways

Nikolay M. Borisov, Sergey A. Roumiantsev, Ksenia Lezhnina, 2014, Oncotarget.

Potential 2019-nCoV 3C-like Protease Inhibitors Designed Using Generative Deep Learning Approaches

A. Aliper, A. Zhavoronkov, Y. Ivanenkov, 2020 .

Human Gut Microbiome Aging Clock Based on Taxonomic Profiling and Deep Learning

A. Aliper, A. Zhavoronkov, V. Gladyshev, 2020, iScience.

In silico Pathway Activation Network Decomposition Analysis (iPANDA) as a method for biomarker development

A. Aliper, Ksenia V Lezhnina, A. Zhavoronkov, 2016, Nature Communications.

A method for predicting target drug efficiency in cancer based on the analysis of signaling pathway activation

Nicolas Borisov, A. Aliper, Ksenia V Lezhnina, 2015, Oncotarget.

Vive la radiorésistance!: converging research in radiobiology and biogerontology to enhance human radioresistance for deep space exploration and colonization

O. Kovalchuk, A. Aliper, A. Zhavoronkov, 2015, Oncotarget.

Pathway activation strength is a novel independent prognostic biomarker for cetuximab sensitivity in colorectal cancer patients

Alexander M Aliper, Evgeny Izumchenko, David Sidransky, 2015, Human Genome Variation.

Biohorology and biomarkers of aging: Current state-of-the-art, challenges and opportunities

Alex Zhavoronkov, Fedor Galkin, Polina Mamoshina, 2020, Ageing Research Reviews.

DNA repair in species with extreme lifespan differences

Zhengdong D. Zhang, A. Aliper, A. Zhavoronkov, 2015, Aging.

AlphaFold Accelerates Artificial Intelligence Powered Drug Discovery: Efficient Discovery of a Novel Cyclin-dependent Kinase 20 (CDK20) Small Molecule Inhibitor

M. Levitt, Alán Aspuru-Guzik, A. Aliper, 2022, ArXiv.

STABILITY OF EXPERIMENTAL TRANSCRIPTOMIC AND PROTEOMIC DATA 2

Vyacheslav, Nicolas Borisov, M. Suntsova, 2016 .

Data Aggregation at the Level of Molecular Pathways Improves Stability of Experimental Transcriptomic and Proteomic Data

B. Mishra, Nicolas Borisov, M. Suntsova, 2016, bioRxiv.

Evaluation of the geroprotective effects of withaferin A in Drosophila melanogaster

A. Aliper, A. Zhavoronkov, A. Moskalev, 2021, Aging.

Exhaustive data mining comparison of the effects of low doses of ionizing radiation, formaldehyde and dioxins

A. Aliper, A. Zhavoronkov, M. Shaposhnikov, 2014, BMC Genomics.

Application of Spiroplasma melliferum proteogenomic profiling for the discovery of virulence factors and pathogenicity mechanisms in host-associated spiroplasmas.

Alexander V. Tyakht, A. Aliper, V. Govorun, 2012, Journal of Proteome Research.

Identification of Therapeutic Targets for Amyotrophic Lateral Sclerosis Using PandaOmics – An AI-Enabled Biological Target Discovery Platform

A. Aliper, J. Rothstein, M. Cudkowicz, 2022, Frontiers in Aging Neuroscience.

Hair growth stimulation by a Natural Remedy: Animal Studies

A. Aliper, A. Buzdin, A. Kudryavtseva, 2018 .

High-confidence cancer patient stratification through multiomics investigation of DNA repair disorders

A. Aliper, A. Zhavoronkov, M. Scheibye-Knudsen, 2022, Cell Death & Disease.

An analysis of gene expression data involving examination of signaling pathways activation reveals new insights into the mechanism of action of minoxidil topical foam in men with androgenetic alopecia

A. Aliper, A. Zhavoronkov, I. Ozerov, 2017, Cell Cycle.

Molecular aspects of development and regulation of endometriosis

A. Aliper, A. Zhavoronkov, T. Roberts, 2014, Reproductive Biology and Endocrinology.

Deep Learning Applications for Predicting Pharmacological Properties of Drugs and Drug Repurposing Using Transcriptomic Data.

Sergey Plis, Alex Zhavoronkov, Alexander Aliper, 2016, Molecular pharmaceutics.

A role for G-CSF and GM-CSF in nonmyeloid cancers

A. Aliper, A. Zhavoronkov, A. Buzdin, 2014, Cancer medicine.

Design of efficient computational workflows for in silico drug repurposing.

Polina Mamoshina, Quentin Vanhaelen, Alex Zhavoronkov, 2017, Drug discovery today.

Deep biomarkers of human aging: Application of deep neural networks to biomarker development

Evgeny Putin, Alexander Aliper, Polina Mamoshina, 2016, Aging.

Radioprotectors.org: an open database of known and predicted radioprotectors

A. Aliper, A. Zhavoronkov, A. Osipov, 2020, Aging.

druGAN: An Advanced Generative Adversarial Autoencoder Model for de Novo Generation of New Molecules with Desired Molecular Properties in Silico.

Sergey Nikolenko, Alex Aliper, Alex Zhavoronkov, 2017, Molecular pharmaceutics.

Towards natural mimetics of metformin and rapamycin

Alexander Aliper, Alex Zhavoronkov, Artem Artemov, 2017, Aging.

Human-specific endogenous retroviral insert serves as an enhancer for the schizophrenia-linked gene PRODH

M. Suntsova, A. Garazha, A. Aliper, 2013, Proceedings of the National Academy of Sciences.

Signaling pathway activation drift during aging: Hutchinson-Gilford Progeria Syndrome fibroblasts are comparable to normal middle-age and old-age cells

Tomasz Jetka, Alex Zhavoronkov, Anton Buzdin, 2015, Aging.

Genetics and epigenetics of aging and longevity

Alex Zhavoronkov, Alexander M Aliper, Anton Buzdin, 2013, Cell cycle.

Converging blockchain and next-generation artificial intelligence technologies to decentralize and accelerate biomedical research and healthcare

Yury Yanovich, Alexander Zhebrak, Alexander Aliper, 2015, Oncotarget.

Artificial intelligence for aging and longevity research: Recent advances and perspectives

Alex Zhavoronkov, Polina Mamoshina, Alex Aliper, 2019, Ageing Research Reviews.

In search for geroprotectors: in silico screening and in vitro validation of signalome-level mimetics of young healthy state

Evgeny Putin, Alexander Aliper, Polina Mamoshina, 2016, Aging.

Interactome analysis of myeloid-derived suppressor cells in murine models of colon and breast cancer

A. Aliper, A. Zhavoronkov, A. Buzdin, 2014, Oncotarget.

Use of deep neural network ensembles to identify embryonic-fetal transition markers: repression of COX7A1 in embryonic and cancer cells

Andrey Alekseenko, Evgeny Putin, Polina Mamoshina, 2017, Oncotarget.

Replicative and radiation-induced aging: a comparison of gene expression profiles

A. Aliper, A. Zhavoronkov, A. Osipov, 2019, Aging.

Stimulation of cell proliferation by carnosine: Cell and transcriptome approaches

A. Aliper, A. Buzdin, M. Babizhayev, 2014, Molecular Biology.

[Stimulation of proliferation by carnosine: cellular and transcriptome approaches].

E. E. Egorov, A. Aliper, A. Buzdin, 2014, Molekuliarnaia biologiia.

Population Specific Biomarkers of Human Aging: A Big Data Study Using South Korean, Canadian, and Eastern European Patient Populations

Evgeny Putin, Alexander Aliper, Kirill Kochetov, 2018, The journals of gerontology. Series A, Biological sciences and medical sciences.

Integrated deep learned transcriptomic and structure-based predictor of clinical trials outcomes

Evgeny Putin, Alexander Aliper, Alex Zhavoronkov, 2016, bioRxiv.

Large-scale profiling of signalling pathways reveals an asthma specific signature in bronchial smooth muscle cells

L. Milanesi, A. Aliper, A. Zhavoronkov, 2016, Oncotarget.

Hallmarks of aging-based dual-purpose disease and age-associated targets predicted using PandaOmics AI-powered discovery engine

A. Aliper, A. Zhavoronkov, J. de Magalhães, 2022, Aging.

Silencing AML1-ETO gene expression leads to simultaneous activation of both pro-apoptotic and proliferation signaling

A M Aliper, A. Garazha, A. Aliper, 2014, Leukemia.

COVIDomic: A multi-modal cloud-based platform for identification of risk factors associated with COVID-19 severity

Tudor I. Oprea, T. Oprea, A. Aliper, 2021, PLoS Comput. Biol..

Molecular pathway activation features linked with transition from normal skin to primary and metastatic melanomas in human

Bhupinder Bhullar, Alexander Aliper, Anna Vanyushina, 2015, Oncotarget.

Aging and drug discovery

Martijn S. Luijsterburg, Polina Mamoshina, Vadim N. Gladyshev, 2018, Aging.

The cornucopia of meaningful leads: Applying deep adversarial autoencoders for new molecule development in oncology

Andrey Kazennov, Artur Kadurin, Alexander Aliper, 2016, Oncotarget.

Adversarial Threshold Neural Computer for Molecular de Novo Design.

Evgeny Putin, Alex Aliper, Quentin Vanhaelen, 2018, Molecular pharmaceutics.

Mineralization of the connective tissue: a complex molecular process leading to age-related loss of function.

Sveatoslav R Buiucli, A. Aliper, A. Zhavoronkov, 2014, Rejuvenation research.

Geroprotectors.org: a new, structured and curated database of current therapeutic interventions in aging and age-related disease

Polina Mamoshina, Arie Budovsky, Vadim E. Fraifeld, 2015, Aging.

Chemistry42: An AI-Driven Platform for Molecular Design and Optimization

A. Aliper, A. Zhavoronkov, Y. Ivanenkov, 2023, J. Chem. Inf. Model..

A comparative review of computational methods for pathway perturbation analysis: dynamical and topological perspectives.

Q Vanhaelen, A M Aliper, A Zhavoronkov, 2017, Molecular bioSystems.

Exhaustive data mining comparison of the effects of low doses of ionizing radiation, formaldehyde and dioxins

A. Aliper, A. Zhavoronkov, M. Shaposhnikov, 2014, BMC Genomics.

Identification of dual-purpose therapeutic targets implicated in aging and glioblastoma multiforme using PandaOmics - an AI-enabled biological target discovery platform

A. Aliper, A. Zhavoronkov, I. Ozerov, 2023, Aging.

AlphaFold accelerates artificial intelligence powered drug discovery: efficient discovery of a novel CDK20 small molecule inhibitor

Wei Zhu, Alán Aspuru-Guzik, A. Aliper, 2023, Chemical science.

Molecular Generation for Desired Transcriptome Changes With Adversarial Autoencoders

Maksim Kuznetsov, Rim Shayakhmetov, Alexander Zhebrak, 2020, Frontiers in Pharmacology.

Entangled Conditional Adversarial Autoencoder for de Novo Drug Discovery.

Dmitry Vetrov, Alexander Zhebrak, Alexander Aliper, 2018, Molecular pharmaceutics.

Chemistry42: An AI-based platform for de novo molecular design

Evgeny Putin, Alexander Aliper, Daniil Polykovskiy, 2021, ArXiv.

Blood Biochemistry Analysis to Detect Smoking Status and Quantify Accelerated Aging in Smokers

Evgeny Putin, Alexander Aliper, Kirill Kochetov, 2019, Scientific Reports.

Signaling pathways activation profiles make better markers of cancer than expression of individual genes

Nikolay M. Borisov, A. Aliper, Mikhail B. Korzinkin, 2014, Oncotarget.

Quantum computing for near-term applications in generative chemistry and drug discovery.

A. Aliper, A. Zhavoronkov, Daniil Polykovskiy, 2023, Drug discovery today.

Precious1GPT: multimodal transformer-based transfer learning for aging clock development and feature importance analysis for aging and age-related disease target discovery

A. Aliper, A. Zhavoronkov, I. Ozerov, 2023, Aging.

Screening and personalizing nootropic drugs and cognitive modulator regimens in silico

A. Aliper, A. Zhavoronkov, A. Buzdin, 2015, Front. Syst. Neurosci..

Discovery of novel and selective SIK2 inhibitors by the application of AlphaFold structures and generative models.

Wei Zhu, A. Aliper, A. Zhavoronkov, 2023, Bioorganic & medicinal chemistry.

The Hitchhiker’s Guide to Deep Learning Driven Generative Chemistry

A. Aliper, A. Zhavoronkov, B. Zagribelnyy, 2023, ACS medicinal chemistry letters.

Combinatorial high-throughput experimental and bioinformatic approach identifies molecular pathways linked with the sensitivity to anticancer target drugs

Alexander Aliper, Alex Zhavoronkov, Nicolas Borisov, 2015, Oncotarget.

The OncoFinder algorithm for minimizing the errors introduced by the high-throughput methods of transcriptome analysis

Nikolay M. Borisov, Sergey A. Roumiantsev, A. Aliper, 2014, Front. Mol. Biosci..

AlphaFold Accelerates Artificial Intelligence Powered Drug Discovery: Efficient Discovery of a Novel Cyclin-dependent Kinase 20 (CDK20) Small Molecule Inhibitor

Alan Aspuru-Guzik, Vladimir Aladinskiy, Alex Zhavoronkov, 2022 .

Testing for batch effect through age predictors

Evgeny Putin, Kirill Kochetov, Polina Mamoshina, 2019, bioRxiv.

Artificial intelligence for aging and longevity research: Recent advances and perspectives

A. Aliper, A. Zhavoronkov, M. Scheibye-Knudsen, 2019, Ageing Research Reviews.

DNA repair in species with extreme lifespan differences

A. Aliper, A. Zhavoronkov, J. Vijg, 2015, Aging.

Human-specific endogenous retroviral insert serves as an enhancer for the schizophrenia-linked gene PRODH

M. Suntsova, A. Garazha, A. Aliper, 2013, Proceedings of the National Academy of Sciences.

Design of efficient computational workflows for in silico drug repurposing.

A. Aliper, A. Zhavoronkov, I. Labat, 2017, Drug discovery today.

Novel robust biomarkers for human bladder cancer based on activation of intracellular signaling pathways

O. Kovalchuk, A. Aliper, N. Gaifullin, 2014, Oncotarget.