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Bioinformatics (Oxford, England)|August 5, 2024
Cellular proliferation biases clonal lineage tracing and trajectory inferenceBecca Bonham-Carter, Geoffrey SchiebingerNature Communications|August 17, 2021
LineageOT is a unified framework for lineage tracing and trajectory inferenceAden Forrow, Geoffrey SchiebingerAnnual Review of Biomedical Data Science|November 14, 2024
Spatial Transcriptomics Brings New Challenges and Opportunities for Trajectory InferenceMatthieu Heitz, Yujia Ma, Sharvaj Kubal, et al.Plos Computational Biology|December 3, 2021
Optimal transport analysis reveals trajectories in steady-state systemsStephen Zhang, Anton Afanassiev, Laura Greenstreet, et al.Journal of Mathematical Biology|April 17, 2026
Trajectory inference for a branching SDE model of cell differentiation via lineage tracingElias Ventre, Aden Forrow, Nitya Gadhiwala, et al.Cell Systems|November 30, 2024
Tracking the gene expression programs and clonal relationships that underlie mast, myeloid, and T lineage specification from stem cellsYale S Michaels, Matthew C Major, Becca Bonham-Carter, et al.Cell Systems|September 26, 2023
DNA-GPS: A theoretical framework for optics-free spatial genomics and synthesis of current methodsLaura Greenstreet, Anton Afanassiev, Yusuke Kijima, et al.Development (Cambridge, England)|August 31, 2021
Developmental single-cell transcriptomics in the Lytechinus variegatus sea urchin embryoAbdull J Massri, Laura Greenstreet, Anton Afanassiev, et al.Development (Cambridge, England)|December 4, 2024
Reprogramming of cells during embryonic transfating: overcoming a reprogramming blockAlejandro Berrio, Esther Miranda, Abdull J Massri, et al.Biorxiv : the Preprint Server for Biology|May 15, 2024
Single-cell transcriptomics reveals evolutionary reconfiguration of embryonic cell fate specification in the sea urchin Heliocidaris erythrogrammaAbdull J Massri, Alejandro Berrio, Anton Afanassiev, et al.Pageof 2