Publications

You can find the full list of publications on Google Scholar

Highlighted recent publications

TransTag enables simple and efficient transgene mapping in zebrafish via tagmentation. Cell Reports Methods. https://www.cell.com/cell-reports-methods/fulltext/S2667-2375(25)00126-2

We present a method to map transgene insertion sites of Tol2-based transgenic lines in zebrafish. We hope this method could facilite precise mapping of transgenes to avoid potential off-target effects.

Competition for H2A.Z underlies the developmental impacts of repetitive elements de-repression. Development. https://doi.org/10.1242/dev.202338

The histone variant H2A.Z is known to be enriched at promoters and enhancers. By establishing genomic profiles of H2A.Z using CUT&Tag, we show here that H2A.Z also marks a subset of repetitive elements(REs). Importantly, de-repression of REs leads to H2A.Z accumulation at REs while reduction at promoters. We propose that REs and gene promoters are competing for limited H2A.Z in early developing embryos.

Full List of publications

* Co-first authors, + Corresponding/Co-corresponding authors, # Undergraduate researcher

2025

Meng FW⁺, Schneider P^#, Wei X, Ariyasiri K, Halpern ME, Murphy PJ⁺. (2025) TransTag enables simple and efficient transgene mapping in zebrafish via tagmentation. Cell Reports Methods. https://www.cell.com/cell-reports-methods/fulltext/S2667-2375(25)00126-2

Blanc RS, Shah N, Hachmer S, Salama NAS, Meng FW, Mousaei A, Puri G, Hwang JH, Wacker EE, Yang BA, Aguilar CA, Chakkalakal JV, Onukwufor JO, Murphy PJ, Calvi LM, Dilworth FJ, Dirksen RT.(2025) Epigenetic erosion of H4K20me1 induced by inflammation drives aged stem cell ferroptosis. Nature Aging. https://www.nature.com/articles/s43587-025-00902-5

Meng FW, Murphy PJ⁺. (2025) Canonical and Variant Nucleosome Reprogramming from Sperm to Blastula. Methods in Molecular Biology https://link.springer.com/protocol/10.1007/978-1-0716-4522-2_2

2024

Das D, Khor ES, Jiang F, He J, Kawakami Y, Wainwright L, Hollinger J, Geiger J, Liu H, Meng FW, Porter GA, Jin Z, Murphy PJ, Yao P. (2024) Loss-of-function of RNA-binding protein PRRC2B causes translational defects and congenital cardiovascular malformation. medRxiv. https://www.medrxiv.org/content/10.1101/2024.09.26.24313895v1

Blanc RS⁺, Shah N, Salama NA, Meng FW, Mousaei A, Chakkalakal JV, Onukwufor JO, Murphy PJ, Calvi LM, Dirksen RT. (2024) Epigenetic erosion of H4K20me1 induced by inflammation drives aged stem cell ferroptosis. Research Square. https://www.researchsquare.com/article/rs-3937628/v1

2023

Halblander F^#, Meng FW⁺, Murphy PJ⁺.(2023) Anp32e protects against accumulation of H2A.Z at Sox motif containing promoters during zebrafish gastrulation. Developmental Biology. https://doi.org/10.1016/j.ydbio.2023.12.010

Meng FW, Murphy KE, Makowski CE, Delatte B, Murphy PJ⁺.(2023) Competition for H2A.Z underlies the developmental impacts of repetitive elements de-repression. Development. https://doi.org/10.1242/dev.202338

Shi H, Chen S, Yan C, Meng FW, Ossip DJ, Li D⁺. (2023) Epigenome-wide DNA methylation profiling in comparison between pathological and physiological hypertrophy of human cardiomyocytes. Frontiers in Genetics. https://doi.org/10.3389/fgene.2023.1264382

2022

Akdogan-Ozdilek B, Duval KL, Meng FW, Murphy PJ⁺, Goll MG⁺. (2022) Identification of chromatin states during zebrafish gastrulation using CUT&RUN and CUT&Tag. Developmental Dynamics. https://doi.org/10.1002/dvdy.430

2021

Meng FW⁺, Murphy PJ⁺. (2021) Rolling uphill: in vivo reacquisition of pluripotency during cranial neural crest differentiation. Communications Biology. https://doi.org/10.1038/s42003-021-02154-6

2020

Murphy KE^*, Meng FW^*, Makowski CE, Murphy PJ⁺. (2020) Genome-wide chromatin accessibility is restricted by ANP32E. Nature Communications. https://doi.org/10.1038/s41467-020-18821-x

Meng FW, Rojas Villa SE, Biteau B⁺. (2020) Sox100B regulates progenitor cell-specific gene expression and differentiation in the adult Drosophila intestine. Stem Cell Reports. https://doi.org/10.1016/j.stemcr.2020.01.003

2019

Rojas Villa SE, Meng FW, Biteau B⁺. (2019) Zfh2 controls cell activation and differentiation in the adult Drosophila intestinal absorptive lineage. PLoS Genetics. https://doi.org/10.1371/journal.pgen.1008553

2017

Meng FW and Biteau B⁺. (2017) There and back again: amitosis to repopulate a stem cell pool. Stem Cell Investigation. https://doi.org/10.21037/sci.2017.10.02

2015

Meng FW and Biteau B⁺. (2015) A Sox transcription factor is a critical regulator of adult stem cell proliferation in the Drosophila intestine. Cell Reports. https://doi.org/10.1016/j.celrep.2015.09.061