Publications

  • Lineage-resolved analysis of embryonic gene expression evolution in C. elegans and C. briggsae
     Science, June 2025 *free access using this link*
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  • A spatiotemporally resolved atlas of mRNA decay in the C. elegans embryo reveals differential regulation of mRNA stability across stages and cell types
     Genome Research, Jan 2024
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  • Mechanisms of lineage specification in Caenorhabditis elegans
     Genetics. Dec 2023
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  • Transcript accumulation rates in the early Caenorhabditis elegans embryo
     Science Advances, Aug 2023
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  • The proprotein convertase BLI-4 promotes collagen secretion during assembly of the Caenorhabditis elegans cuticle
     bioRxiv, June 2023
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  • Young transposable elements rewired gene regulatory networks in human and chimpanzee hippocampal intermediate progenitors
     Development, Oct 2022
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  • pop-1/TCF, ref-2/ZIC and T-box factors regulate the development of anterior cells in the C. elegans embryo
     Dev Biol, Sept 2022
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  • Transcript accumulation rates in the early C. elegans embryo
     Sci Adv, Aug 2023
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  • The anterior Hox gene ceh-13 and elt-1/GATA activate the posterior Hox genes nob-1 and php-3 to specify posterior lineages in the C. elegans embryo
     PLoS Genetics, May 2022
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  • Lineage-specific control of convergent differentiation by a Forkhead repressor
     Development, Oct 2021
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  • ngn-1/neurogenin activates transcription of multiple terminal selector transcription factors in the Caenorhabditis elegans nervous system.
     G3: Genes, Genomics, Genetics. April 2020.
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  • Neurogenesis: Silencing the alternative
     eLife. Aug 2019.
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  • A lineage-resolved molecular atlas of C. elegans embryogenesis at single-cell resolution
     Science. Sep 2019.
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  • H3K9me2 orchestrates inheritance of spatial positioning of peripheral heterochromatin through mitosis.
     eLife. June 2019.
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  • Gene expression distribution deconvolution in single-cell RNA sequencing.
     PNAS. July 2018
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  • SAVER: gene expression recovery for single-cell RNA sequencing.
     Nature Methods. July 2018.
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  • Rare Cell Detection by Single-Cell RNA Sequencing as Guided by Single-Molecule RNA FISH.
     Cell Systems. Feb 2018.
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  • Systems biology of embryonic development: Prospects for a complete understanding of the Caenorhabditis elegans embryo.
     Wiley Online Library. Jan 2018.
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  • The Lipocalin LPR-1 Cooperates with LIN-3/EGF Signaling To Maintain Narrow Tube Integrity in Caenorhabditis elegans.
     Genetics. March 2017.
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  • Combinatorial decoding of the invariant C. elegans embryonic lineage in space and time.
     Genesis. Apr 2016.
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  • Overlapping cell population expression profiling and regulatory inference in C. elegans.
     BMC Genomics. Feb 2016.
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  • Quantitative Differences in Nuclear β-catenin and TCF Pattern Embryonic Cells in C. elegans.
     PLOS Genetics. Oct 2015.
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More Publications

(Murray lab members are in bold)