Publications by authors named "Shantanu Singh"

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Predicting compound activity from phenotypic profiles and chemical structures.
Nikita Moshkov, Tim Becker, Kevin Yang, Peter Horvath, Vlado Dancik, Bridget K Wagner, Paul A Clemons, Shantanu Singh, Anne E Carpenter, Juan C Caicedo

Nat Commun· April 2023

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The OASIS Consortium: integrating multi-omics technologies to transform chemical safety assessment.
David Rouquié, Andreas Bender, Jaime Cheah, Christine E Crute, Deidre Dalmas, Shantanu Singh

Toxicol Sci· December 2025

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Acquisition, quality control, and architecture of a large image dataset as a tool for in silico cell biological research.
Nikita Konshin, Marta Garcia Valverde, Danila Solodennikov, Koen Minartz, Vlado Menkovski, Shantanu Singh

Mater Today Bio· December 2025

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Toward Atomic-Scale Control over Structural Modulations in Quasi-1D Chalcogenides for Colossal Optical Anisotropy.
Guodong Ren, Shantanu Singh, Gwan Yeong Jung, Wooseon Choi, Huandong Chen

ACS Nano· November 2025

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nELISA: a high-throughput, high-plex platform enables quantitative profiling of the inflammatory secretome.
Milad Dagher, Grant Ongo, Nathaniel Robichaud, Jinglin Kong, Woojong Rho, Shantanu Singh

Nat Methods· November 2025

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Alternate dyes for image-based profiling assays.
Suganya Sivagurunathan, Patrick Byrne, Alán F Muñoz, John Arevalo, Anne E Carpenter, Shantanu Singh

SLAS Discov· October 2025

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Image-Based Profiling in Live Cells Using Live Cell Painting.
Thaís Moraes-Lacerda, Mariana Rodrigues-Da-Silva, Shantanu Singh, Marcelo Bispo De Jesus

Bio Protoc· October 2025

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cubic: CUDA-accelerated 3D Bioimage Computing.
Alexandr A Kalinin, Anne E Carpenter, Shantanu Singh, Matthew J O'Meara

ArXiv· October 2025

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Morphological map of under- and overexpression of genes in human cells.
Srinivas Niranj Chandrasekaran, Eric Alix, John Arevalo, Adriana Borowa, Patrick J Byrne, Shantanu Singh

Nat Methods· August 2025

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Progress and new challenges in image-based profiling.
Erik Serrano, John Peters, Jesko Wagner, Rebecca E Graham, Zhenghao Chen, Shantanu Singh

ArXiv· August 2025

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Evaluation of Prothrombotic Biomarkers in Stable and Exacerbation Phases of Chronic Obstructive Pulmonary Disease: A Case-Control Study.
Kamlesh K Gupta, Shantanu Singh, Virendra Atam, Devansh Mishra, Jay Tewari

Cureus· August 2025

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Live-cell painting: Image-based profiling in live cells using acridine orange.
Fernanda Garcia-Fossa, Thaís Moraes-Lacerda, Mariana Rodrigues-da-Silva, Barbara Diaz-Rohrer, Shantanu Singh

Mol Biol Cell· July 2025

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Combining phenomics with transcriptomics reveals cell-type-specific morphological and molecular signatures of the 22q11.2 deletion.
Matthew Tegtmeyer, Dhara Liyanage, Yu Han, Kathryn B Hebert, Ruifan Pei, Shantanu Singh

Nat Commun· July 2025

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Adsorptive removal of fluoride from water using hydroxyapatite synthesized from marine shell waste.
Shantanu Singh, Gokulakrishnan Murugesan, Ramesh Vinayagam, Thivaharan Varadavenkatesan, Raja Selvaraj

Sci Rep· July 2025

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Foreground-aware Virtual Staining for Accurate 3D Cell Morphological Profiling.
Alexandr A Kalinin, Paula Llanos, Theresa Maria Sommer, Giovanni Sestini, Xinhai Hou, Shantanu Singh

ArXiv· July 2025

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cp_measure: API-first feature extraction for image-based profiling workflows.
Alán F Muñoz, Tim Treis, Alexandr A Kalinin, Shatavisha Dasgupta, Fabian Theis, Shantanu Singh

ArXiv· July 2025

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A versatile information retrieval framework for evaluating profile strength and similarity.
Alexandr A Kalinin, John Arevalo, Erik Serrano, Loan Vulliard, Hillary Tsang, Shantanu Singh

Nat Commun· June 2025

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Machine Learning for Toxicity Prediction Using Chemical Structures: Pillars for Success in the Real World.
Srijit Seal, Manas Mahale, Miguel García-Ortegón, Chaitanya K Joshi, Layla Hosseini-Gerami, Shantanu Singh

Chem Res Toxicol· May 2025

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Reproducible image-based profiling with Pycytominer.
Erik Serrano, Srinivas Niranj Chandrasekaran, Dave Bunten, Kenneth I Brewer, Jenna Tomkinson, Shantanu Singh

Nat Methods· April 2025

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A genome-wide atlas of human cell morphology.
Meraj Ramezani, Erin Weisbart, Julia Bauman, Avtar Singh, John Yong, Shantanu Singh

Nat Methods· March 2025

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Cell Painting: a decade of discovery and innovation in cellular imaging.
Srijit Seal, Maria-Anna Trapotsi, Ola Spjuth, Shantanu Singh, Jordi Carreras-Puigvert

Nat Methods· February 2025

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Author Correction: Cell Painting: a decade of discovery and innovation in cellular imaging.
Srijit Seal, Maria-Anna Trapotsi, Ola Spjuth, Shantanu Singh, Jordi Carreras-Puigvert

Nat Methods· February 2025

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Cell Painting for cytotoxicity and mode-of-action analysis in primary human hepatocytes.
Jessica D Ewald, Katherine L Titterton, Alex Bäuerle, Alex Beatson, Daniil A Boiko, Shantanu Singh

bioRxiv· January 2025

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Pervasive mislocalization of pathogenic coding variants underlying human disorders.
Jessica Lacoste, Marzieh Haghighi, Shahan Haider, Chloe Reno, Zhen-Yuan Lin, Tanisha Teelucksingh, Shantanu Singh

Cell· November 2024

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Capturing cell heterogeneity in representations of cell populations for image-based profiling using contrastive learning.
Robert van Dijk, John Arevalo, Mehrtash Babadi, Anne E Carpenter, Shantanu Singh

PLoS Comput Biol· November 2024

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Combining NeuroPainting with transcriptomics reveals cell-type-specific morphological and molecular signatures of the 22q11.2 deletion.
Matthew Tegtmeyer, Dhara Liyanage, Yu Han, Kathryn B Hebert, Ruifan Pei, Shantanu Singh

bioRxiv· November 2024

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