User profiles for Sergey Nikolenko

Sergey Nikolenko

Steklov Institute of Mathematics at St. Petersburg, Russia
Verified email at logic.pdmi.ras.ru
Cited by 30409

SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing

…, AS Kulikov, VM Lesin, SI Nikolenko… - Journal of …, 2012 - liebertpub.com
The lion's share of bacteria in various environments cannot be cloned in the laboratory and
thus cannot be sequenced using existing technologies. A major goal of single-cell genomics …

[HTML][HTML] Molecular sets (MOSES): a benchmarking platform for molecular generation models

…, S Johansson, H Chen, S Nikolenko… - Frontiers in …, 2020 - frontiersin.org
Generative models are becoming a tool of choice for exploring the molecular space. These
models learn on a large training dataset and produce novel molecular structures with similar …

[HTML][HTML] BayesHammer: Bayesian clustering for error correction in single-cell sequencing

SI Nikolenko, AI Korobeynikov, MA Alekseyev - BMC genomics, 2013 - Springer
Error correction of sequenced reads remains a difficult task, especially in single-cell
sequencing projects with extremely non-uniform coverage. While existing error correction tools …

[BOOK][B] Synthetic data for deep learning

SI Nikolenko - 2021 - Springer
You are holding in your hands… oh, come on, who holds books like this in their hands
anymore? Anyway, you are reading this, and it means that I have managed to release one of the …

druGAN: an advanced generative adversarial autoencoder model for de novo generation of new molecules with desired molecular properties in silico

A Kadurin, S Nikolenko, K Khrabrov… - Molecular …, 2017 - ACS Publications
Deep generative adversarial networks (GANs) are the emerging technology in drug discovery
and biomarker development. In our recent work, we demonstrated a proof-of-concept of …

Topic modelling for qualitative studies

SI Nikolenko, S Koltcov… - Journal of Information …, 2017 - journals.sagepub.com
Qualitative studies, such as sociological research, opinion analysis and media studies, can
benefit greatly from automated topic mining provided by topic models such as latent Dirichlet …

Tooth detection and numbering in panoramic radiographs using convolutional neural networks

…, MA Kharchenko, SI Nikolenko… - Dentomaxillofacial …, 2019 - birpublications.org
Objectives: Analysis of dental radiographs is an important part of the diagnostic process in
daily clinical practice. Interpretation by an expert includes teeth detection and numbering. In …

FDR-controlled metabolite annotation for high-resolution imaging mass spectrometry

…, D Fay, A Tarasov, V Kovalev, J Fuchser, S Nikolenko… - Nature …, 2017 - nature.com
High-mass-resolution imaging mass spectrometry promises to localize hundreds of metabolites
in tissues, cell cultures, and agar plates with cellular resolution, but it is hampered by the …

Recvae: A new variational autoencoder for top-n recommendations with implicit feedback

…, E Tutubalina, V Malykh, SI Nikolenko - Proceedings of the 13th …, 2020 - dl.acm.org
Recent research has shown the advantages of using autoencoders based on deep neural
networks for collaborative filtering. In particular, the recently proposed Mult-VAE model, which …

Intrinsic dimension estimation for robust detection of ai-generated texts

…, D Cherniavskii, S Nikolenko… - Advances in …, 2024 - proceedings.neurips.cc
Rapidly increasing quality of AI-generated content makes it difficult to distinguish between
human and AI-generated texts, which may lead to undesirable consequences for society. …