Publications by authors named "Geoffrey Schiebinger"

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Spatial Transcriptomics Brings New Challenges and Opportunities for Trajectory Inference.
Matthieu Heitz, Yujia Ma, Sharvaj Kubal, Geoffrey Schiebinger

Annu Rev Biomed Data Sci· August 2025

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The dynamics of hematopoiesis over the human lifespan.
Hojun Li, Parker Côté, Michael Kuoch, Jideofor Ezike, Katie Frenis, Geoffrey Schiebinger

Nat Methods· February 2025

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Single-Cell Transcriptomics Reveals Evolutionary Reconfiguration of Embryonic Cell Fate Specification in the Sea Urchin Heliocidaris erythrogramma.
Abdull J Massri, Alejandro Berrio, Anton Afanassiev, Laura Greenstreet, Krista Pipho, Geoffrey Schiebinger

Genome Biol Evol· January 2025

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Tracking the gene expression programs and clonal relationships that underlie mast, myeloid, and T lineage specification from stem cells.
Yale S Michaels, Matthew C Major, Becca Bonham-Carter, Jingqi Zhang, Tiam Heydari, Geoffrey Schiebinger

Cell Syst· December 2024

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Reprogramming of cells during embryonic transfating: overcoming a reprogramming block.
Alejandro Berrio, Esther Miranda, Abdull J Massri, Anton Afanassiev, Geoffrey Schiebinger

Development· December 2024

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Neuropeptide signalling orchestrates T cell differentiation.
Yu Hou, Linyu Sun, Martin W LaFleur, Linglin Huang, Conner Lambden, Geoffrey Schiebinger

Nature· November 2024

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Reconstruction of single-cell lineage trajectories and identification of diversity in fates during the epithelial-to-mesenchymal transition.
Yu-Chen Cheng, Yun Zhang, Shubham Tripathi, B V Harshavardhan, Mohit Kumar Jolly, Geoffrey Schiebinger

Proc Natl Acad Sci U S A· August 2024

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Cellular proliferation biases clonal lineage tracing and trajectory inference.
Becca Bonham-Carter, Geoffrey Schiebinger

Bioinformatics· August 2024

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Single-cell transcriptomics reveals evolutionary reconfiguration of embryonic cell fate specification in the sea urchin .
Abdull J Massri, Alejandro Berrio, Anton Afanassiev, Laura Greenstreet, Krista Pipho, Geoffrey Schiebinger

bioRxiv· May 2024

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DNA-GPS: A theoretical framework for optics-free spatial genomics and synthesis of current methods.
Laura Greenstreet, Anton Afanassiev, Yusuke Kijima, Matthieu Heitz, Soh Ishiguro, Geoffrey Schiebinger

Cell Syst· October 2023

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Cellular population dynamics shape the route to human pluripotency.
Francesco Panariello, Onelia Gagliano, Camilla Luni, Antonio Grimaldi, Silvia Angiolillo, Geoffrey Schiebinger

Nat Commun· May 2023

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Brassinosteroid gene regulatory networks at cellular resolution in the root.
Trevor M Nolan, Nemanja Vukašinović, Che-Wei Hsu, Jingyuan Zhang, Isabelle Vanhoutte, Geoffrey Schiebinger

Science· March 2023

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A single-cell Arabidopsis root atlas reveals developmental trajectories in wild-type and cell identity mutants.
Rachel Shahan, Che-Wei Hsu, Trevor M Nolan, Benjamin J Cole, Isaiah W Taylor, Geoffrey Schiebinger

Dev Cell· February 2022

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Optimal transport analysis reveals trajectories in steady-state systems.
Stephen Zhang, Anton Afanassiev, Laura Greenstreet, Tetsuya Matsumoto, Geoffrey Schiebinger

PLoS Comput Biol· December 2021

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Developmental single-cell transcriptomics in the Lytechinus variegatus sea urchin embryo.
Abdull J Massri, Laura Greenstreet, Anton Afanassiev, Alejandro Berrio, Gregory A Wray, Geoffrey Schiebinger

Development· October 2021

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LineageOT is a unified framework for lineage tracing and trajectory inference.
Aden Forrow, Geoffrey Schiebinger

Nat Commun· August 2021

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Methodologies for Following EMT In Vivo at Single Cell Resolution.
Abdull J Massri, Geoffrey R Schiebinger, Alejandro Berrio, Lingyu Wang, Gregory A Wray

Methods Mol Biol· March 2021

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Optimal-Transport Analysis of Single-Cell Gene Expression Identifies Developmental Trajectories in Reprogramming.
Geoffrey Schiebinger, Jian Shu, Marcin Tabaka, Brian Cleary, Vidya Subramanian

Cell· March 2019

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Optimal-Transport Analysis of Single-Cell Gene Expression Identifies Developmental Trajectories in Reprogramming.
Geoffrey Schiebinger, Jian Shu, Marcin Tabaka, Brian Cleary, Vidya Subramanian

Cell· February 2019

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Transcriptional instability is not a universal attribute of aging.
Luigi A Warren, Derrick J Rossi, Geoffrey R Schiebinger, Irving L Weissman, Stuart K Kim

Aging Cell· December 2007

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