Institution · Insilicos (United States)
Most cited papers from Insilicos (United States)
What are the most cited papers from Insilicos (United States)?
The most cited paper from Insilicos (United States) is "A cross-platform toolkit for mass spectrometry and proteomics" (Matthew Chambers et al., 2012), with 4,457 citations. Next come "mzML—a Community Standard for Mass Spectrometry Data" (804) and "A guided tour of the Trans‐Proteomic Pipeline" (793).
Showing 50 of 58 papers. Every paper with more than 22 citations is listed.
| # | Paper | ||
|---|---|---|---|
| 1 | A cross-platform toolkit for mass spectrometry and proteomics Matthew Chambers et al. · Nature Biotechnology | Oct 2012 | 4,457 |
| 2 | mzML—a Community Standard for Mass Spectrometry Data Lennart Martens, Matthew Chambers, Marc Sturm et al. · Molecular & Cellular Proteomics | 17 Aug 2010 | 804 |
| 3 | A guided tour of the Trans‐Proteomic Pipeline Eric W. Deutsch, Luis Mendoza, David D. Shteynberg et al. · PROTEOMICS | 25 Jan 2010 | 793 |
| 4 | Reinforced Adversarial Neural Computer for de Novo Molecular Design Eugene Lane, Arip Asadulaev, Yan A. Ivanenkov et al. · Journal of Chemical Information and Modeling | 15 May 2018 | 397 |
| 5 | A small-molecule TNIK inhibitor targets fibrosis in preclinical and clinical models Feng Ren et al. · Nature Biotechnology | 8 Mar 2024 | 327 |
| 6 | Entangled Conditional Adversarial Autoencoder for de Novo Drug Discovery Daniil A. Polykovskiy, Alexander Zhebrak, Dmitry Vetrov et al. · Molecular Pharmaceutics | 4 Sep 2018 | 289 |
| 7 | Artificial intelligence for aging and longevity research: Recent advances and perspectives Alex A. Zhavoronkov, Polina Mamoshina, Quentin Vanhaelen et al. · Ageing Research Reviews | 22 Nov 2018 | 252 |
| 8 | Machine Learning on Human Muscle Transcriptomic Data for Biomarker Discovery and Tissue-Specific Drug Target Identification Polina Mamoshina, Marina Volosnikova, Ivan V. Ozerov et al. · Frontiers in Genetics | 12 Jul 2018 | 229 |
| 9 | Adversarial Threshold Neural Computer for Molecular de Novo Design Eugene Lane, Arip Asadulaev, Quentin Vanhaelen et al. · Molecular Pharmaceutics | 23 Mar 2018 | 226 |
| 10 | Design of efficient computational workflows for in silico drug repurposing Quentin Vanhaelen, Polina Mamoshina, Alexander M. Aliper et al. · Drug Discovery Today | 30 Sep 2016 | 158 |
| 11 | The Advent of Generative Chemistry Quentin Vanhaelen, Yen‐Chu Lin, Alex A. Zhavoronkov · ACS Medicinal Chemistry Letters | 14 Jul 2020 | 156 |
| 12 | A generative AI-discovered TNIK inhibitor for idiopathic pulmonary fibrosis: a randomized phase 2a trial Zuojun Xu et al. · Nature Medicine | 3 Jun 2025 | 155 |
| 13 | Genome-wide depletion of replication initiation events in highly transcribed regions Melvenia M. Martin, Michaël Ryan, Ryang Guk Kim et al. · Genome Research | 3 Aug 2011 | 142 |
| 14 | PhotoAgeClock: deep learning algorithms for development of non-invasive visual biomarkers of aging Eugene Bobrov, Anastasia Georgievskaya, Konstantin Kiselev et al. · Aging | 9 Nov 2018 | 129 |
| 15 | Credible practice of modeling and simulation in healthcare: ten rules from a multidisciplinary perspective Ahmet Erdemir, Lealem Mulugeta, Joy P. Ku et al. · Journal of Translational Medicine | 29 Sep 2020 | 125 |
| 16 | Blood Biochemistry Analysis to Detect Smoking Status and Quantify Accelerated Aging in Smokers Polina Mamoshina, Kirill Kochetov, Franco Cortese et al. · Scientific Reports | 9 Jan 2019 | 124 |
| 17 | 3D Molecular Representations Based on the Wave Transform for Convolutional Neural Networks Denis Kuzminykh, Daniil A. Polykovskiy, Artur Kadurin et al. · Molecular Pharmaceutics | 23 Feb 2018 | 119 |
| 18 | Towards natural mimetics of metformin and rapamycin Alexander M. Aliper, Leslie C. Jellen, Franco Cortese et al. · Aging | 15 Nov 2017 | 118 |
| 19 | Challenges and recommendations for the translation of biomarkers of aging Chiara Maria Stella Herzog et al. · Nature Aging | 16 Sep 2024 | 108 |
| 20 | Potential 2019-nCoV 3C-like Protease Inhibitors Designed Using Generative Deep Learning Approaches Alex A. Zhavoronkov, Vladimir Aladinskiy, Alexander Zhebrak et al. · ChemRxiv | 10 Feb 2020 | 105 |
| 21 | Medical concept normalization in social media posts with recurrent neural networks Elena Viktorovna Tutubalina, Zulfat Miftahutdinov, Sergey Nikolenko et al. · Journal of Biomedical Informatics | 12 Jun 2018 | 102 |
| 22 | Methylation of Histone H3 on Lysine 79 Associates with a Group of Replication Origins and Helps Limit DNA Replication Once per Cell Cycle Haiqing Fu, Alika K. Maunakea, Melvenia M. Martin et al. · PLoS Genetics | 6 Jun 2013 | 101 |
| 23 | Potential COVID-2019 3C-like Protease Inhibitors Designed Using Generative Deep Learning Approaches Alex A. Zhavoronkov, Vladimir Aladinskiy, Alexander Zhebrak et al. · ChemRxiv | 11 Feb 2020 | 98 |
| 24 | Vive la radiorésistance!: converging research in radiobiology and biogerontology to enhance human radioresistance for deep space exploration and colonization Franco Cortese et al. · Oncotarget | 9 Feb 2018 | 83 |
| 25 | HDL in humans with cardiovascular disease exhibits a proteomic signature Tomáš Vaisar, Philip S. Mayer, Erik J. Nilsson et al. · Clinica Chimica Acta | 22 Mar 2010 | 81 |
| 26 | Comprehensive two-dimensional gas chromatography with time-of-flight mass spectrometry detection: analysis of amino acid and organic acid trimethylsilyl derivatives, with application to the analysis of metabolites in rye grass samples Janiece L. Hope, Bryan J. Prazen, Elna J. K. Nilsson et al. · Talanta | 10 Aug 2004 | 80 |
| 27 | Artificial intelligence, drug repurposing and peer review Jeremy M. Levin, Tudor Ionel Oprea, Sagie Davidovich et al. · Nature Biotechnology | 14 Sep 2020 | 78 |
| 28 | Quantum-computing-enhanced algorithm unveils potential KRAS inhibitors Mohammad Ghazi Vakili et al. · Nature Biotechnology | 22 Jan 2025 | 73 |
| 29 | In search for geroprotectors: in silico screening and in vitro validation of signalome-level mimetics of young healthy state Alexander M. Aliper, Aleksey V. Belikov, Andrew Garazha et al. · Aging | 24 Sep 2016 | 71 |
| 30 | Algorithm for locating analytes of interest based on mass spectral similarity in GC × GC–TOF-MS data: analysis of metabolites in human infant urine Amanda E. Sinha, Janiece L. Hope, Bryan J. Prazen et al. · Journal of Chromatography A | Nov 2004 | 68 |
| 31 | Human microbiome aging clocks based on deep learning and tandem of permutation feature importance and accumulated local effects Fedor Galkin, Alexander M. Aliper, Eugene Lane et al. · bioRxiv (Cold Spring Harbor Laboratory) | 28 Dec 2018 | 67 |
| 32 | Algorithm for locating analytes of interest based on mass spectral similarity in GC × GC–TOF-MS data: analysis of metabolites in human infant urine Akhouri Amitanand Sinha, Janiece L. Hope, Bryan J. Prazen et al. · Journal of Chromatography A | 26 Nov 2004 | 65 |
| 33 | Artificial intelligence in longevity medicine Alex A. Zhavoronkov, Evelyne Y. Bischof, Kai-Fu Lee · Nature Aging | 14 Jan 2021 | 64 |
| 34 | Multivariate selectivity as a metric for evaluating comprehensive two-dimensional gas chromatography–time-of-flight mass spectrometry subjected to chemometric peak deconvolution Amanda E. Sinha, Janiece L. Hope, Bryan J. Prazen et al. · Journal of Chromatography A | 18 Aug 2004 | 64 |
| 35 | Disagreement on foundational principles of biological aging Vadim N. Gladyshev et al. · PNAS Nexus | 28 Nov 2024 | 63 |
| 36 | Credibility, Replicability, and Reproducibility in Simulation for Biomedicine and Clinical Applications in Neuroscience Lealem Mulugeta, Andrew Drach, Ahmet Erdemir et al. · Frontiers in Neuroinformatics | 16 Apr 2018 | 62 |
| 37 | Reversibility of irreversible aging Fedor Galkin, Bohan Zhang, Sergey E. Dmitriev et al. · Ageing Research Reviews | Dec 2018 | 52 |
| 38 | HDL-apolipoprotein A-I exchange is independently associated with cholesterol efflux capacity Mark S. Borja, Kit Fai Ng, Angela D. Irwin et al. · Journal of Lipid Research | 8 Aug 2015 | 52 |
| 39 | MR-Tandem: parallel X!Tandem using Hadoop MapReduce on Amazon Web Services Brian S. Pratt, James Jeffry Howbert, Natalie Tasman et al. · Bioinformatics | 8 Nov 2011 | 52 |
| 40 | Pathway activation strength is a novel independent prognostic biomarker for cetuximab sensitivity in colorectal cancer patients Qingsong Zhu, Evgeny Izumchenko, Alexander M. Aliper et al. · Human Genome Variation | 2 Apr 2015 | 51 |
| 41 | Intestinal mucosal barrier repair and immune regulation with an AI-developed gut-restricted PHD inhibitor Yanyun Fu et al. · Nature Biotechnology | 11 Dec 2024 | 48 |
| 42 | MolGrow: A Graph Normalizing Flow for Hierarchical Molecular Generation Maksim Kuznetsov, Daniil A. Polykovskiy · AAAI Publications (The Association for the Advancement of Artificial Intelligence (AAAI)) | 18 May 2021 | 44 |
| 43 | Potential Non-Covalent SARS-CoV-2 3C-like Protease Inhibitors Designed Using Generative Deep Learning Approaches and Reviewed by Human Medicinal Chemist in Virtual Reality Alex A. Zhavoronkov, Bogdan A. Zagribelnyy, Alexander Zhebrak et al. · ChemRxiv | 19 May 2020 | 44 |
| 44 | PepC: proteomics software for identifying differentially expressed proteins based on spectral counting N.L. Heinecke, Brian S. Pratt, Tomáš Vaisar et al. · Bioinformatics | 22 Apr 2010 | 42 |
| 45 | Transcriptome Analysis of Long-lived Drosophila melanogaster E(z) Mutants Sheds Light on the Molecular Mechanisms of Longevity Alexey Moskalev, Mikhail Vyacheslavovich Shaposhnikov, Nadezhda Vladimirovna Zemskaya et al. · Scientific Reports | 24 Jun 2019 | 41 |
| 46 | De-orphaning the marine natural product (±)-marinopyrrole A by computational target prediction and biochemical validation Petra Schneider, Gisbert Schneider · Chemical Communications | 2017 | 40 |
| 47 | Spotting and designing promiscuous ligands for drug discovery Petra Schneider, Matthias Röthlisberger, Daniel Reker et al. · Chemical Communications | 25 Nov 2015 | 39 |
| 48 | Least Angle Regression and LASSO for Large Datasets Chris Fraley, Tim Hesterberg · Statistical Analysis and Data Mining The ASA Data Science Journal | 21 Jan 2009 | 38 |
| 49 | Oral ENPP1 inhibitor designed using generative AI as next generation STING modulator for solid tumors Congying Pu, Hui Fang Cui, Huaxing Yu et al. · Nature Communications | 23 May 2025 | 36 |
| 50 | How can quantum computing be applied in clinical trial design and optimization? Hakan Doğa, Aritra Kumar Bose, M. Emre Sahin et al. · Trends in Pharmacological Sciences | 23 Sep 2024 | 36 |
Citations are OpenAlex's own counts, from its 2026-09-23 snapshot, so the ranking can differ from Google Scholar or Web of Science. A paper is listed for an institution when any of its authors gave it as an affiliation; retracted papers and papers whose citation count cannot be traced to citing works are left out, and a preprint and the article it became are shown once. Release dates are OpenAlex's: where a source gave only a month or a year, that is what is shown. How the lists are chosen.