Cargando…

Genome-wide profiling of histone modifications in Plasmodium falciparum using CUT&RUN

We recently adapted a CUT&RUN protocol for genome-wide profiling of chromatin modifications in the human malaria parasite Plasmodium. Using the step-by-step protocol described below, we were able to generate high-quality profiles of multiple histone modifications using only a small fraction of t...

Descripción completa

Detalles Bibliográficos
Autores principales:	Morillo, Riward Campelo, Harris, Chantal T, Kennedy, Kit, Henning, Samuel R, Kafsack, Björn FC
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Life Science Alliance LLC 2022
Materias:	Methods
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9670794/ https://www.ncbi.nlm.nih.gov/pubmed/36379668 http://dx.doi.org/10.26508/lsa.202201778

Ejemplares similares

GoPeaks: histone modification peak calling for CUT&Tag
por: Yashar, William M., et al.
Publicado: (2022)

The transcriptional regulator HDP1 controls expansion of the inner membrane complex during early sexual differentiation of malaria parasites
por: Campelo Morillo, Riward A., et al.
Publicado: (2022)

Revisiting the initial steps of sexual development in the malaria parasite Plasmodium falciparum
por: Bancells, Cristina, et al.
Publicado: (2018)

New Agilent platform DNA microarrays for transcriptome analysis of Plasmodium falciparum and Plasmodium berghei for the malaria research community
por: Kafsack, Björn F C, et al.
Publicado: (2012)

Safe, Effective, and Inexpensive Clearance of Mycoplasma Contamination from Cultures of Apicomplexan Parasites with Sparfloxacin
por: Malave-Ramos, Darlene R., et al.
Publicado: (2022)

Core promoters are predicted by their distinct physicochemical properties in the genome of Plasmodium falciparum
por: Brick, Kevin, et al.
Publicado: (2008)

The human malaria parasite Plasmodium falciparum can sense environmental changes and respond by antigenic switching
por: Schneider, Victoria M., et al.
Publicado: (2023)

An optimized microarray platform for assaying genomic variation in Plasmodium falciparum field populations
por: Tan, John C, et al.
Publicado: (2011)

Capturing in vivo RNA transcriptional dynamics from the malaria parasite Plasmodium falciparum
por: Painter, Heather J., et al.
Publicado: (2017)

Genome-wide analysis of chromatin features identifies histone modification sensitive and insensitive yeast transcription factors
por: Cheng, Chao, et al.
Publicado: (2011)

Application of histone modification-specific interaction domains as an alternative to antibodies
por: Kungulovski, Goran, et al.
Publicado: (2014)

Enhanced top-down characterization of histone post-translational modifications
por: Tian, Zhixin, et al.
Publicado: (2012)

Antibody-free profiling of transcription factor occupancy during early embryogenesis by FitCUT&RUN
por: Wang, Xiangxiu, et al.
Publicado: (2022)

ssvQC: an integrated CUT&RUN quality control workflow for histone modifications and transcription factors
por: Boyd, Joseph, et al.
Publicado: (2021)

One minute analysis of 200 histone posttranslational modifications by direct injection mass spectrometry
por: Sidoli, Simone, et al.
Publicado: (2019)

PIRCh-seq: functional classification of non-coding RNAs associated with distinct histone modifications
por: Fang, Jingwen, et al.
Publicado: (2019)

Post-translational modifications of histones H3 and H4 associated with the histone methyltransferases Suv39h1 and G9a
por: Robin, Philippe, et al.
Publicado: (2007)

Elucidating combinatorial histone modifications and crosstalks by coupling histone-modifying enzyme with biotin ligase activity
por: Lau, Priscilla Nga Ieng, et al.
Publicado: (2013)

Histone modifications associated with gene expression and genome accessibility are dynamically enriched at Plasmodium falciparum regulatory sequences
por: Tang, Jingyi, et al.
Publicado: (2020)

Integrating quantitative proteomics with accurate genome profiling of transcription factors by greenCUT&RUN
por: Nizamuddin, Sheikh, et al.
Publicado: (2021)

ncHMR detector: a computational framework to systematically reveal non-classical functions of histone modification regulators
por: Hu, Shengen, et al.
Publicado: (2020)

Exploiting CRISPR–Cas9 technology to investigate individual histone modifications
por: Vasquez, Juan-José, et al.
Publicado: (2018)

A tissue dissociation method for ATAC-seq and CUT&RUN in Drosophila pupal tissues
por: Buchert, Elli M., et al.
Publicado: (2023)

Successful Profiling of Plasmodium falciparum var Gene Expression in Clinical Samples via a Custom Capture Array
por: Stucke, Emily M., et al.
Publicado: (2021)

Leveraging a Fluorescent Fatty Acid Probe to Discover Cell-Permeable Inhibitors of Plasmodium falciparum Glycerolipid Biosynthesis
por: Dapper, Christie, et al.
Publicado: (2022)

Disruption of the Plasmodium falciparum Life Cycle through Transcriptional Reprogramming by Inhibitors of Jumonji Demethylases
por: Matthews, Krista A., et al.
Publicado: (2020)

Robust methods for purification of histones from cultured mammalian cells with the preservation of their native modifications
por: Rodriguez-Collazo, Pedro, et al.
Publicado: (2009)

VAR2CSA Ectodomain Labeling in Plasmodium falciparum Infected Red Blood Cells and Analysis via Flow Cytometry
por: Carmo, Olivia M.S., et al.
Publicado: (2023)

Analysis of Plasmodium falciparum Mitochondrial Electron Transport Chain Activity Using Seahorse XFe96 Extracellular Flux Assays
por: Ramesh, SaiShyam, et al.
Publicado: (2023)

HMCan-diff: a method to detect changes in histone modifications in cells with different genetic characteristics
por: Ashoor, Haitham, et al.
Publicado: (2017)

Genome-wide mapping of G-quadruplex structures with CUT&Tag
por: Lyu, Jing, et al.
Publicado: (2021)

Optimisation and standardisation of a multiplex immunoassay of diverse Plasmodium falciparum antigens to assess changes in malaria transmission using sero-epidemiology
por: Wu, Lindsey, et al.
Publicado: (2020)

A non-canonical sensing pathway mediates Plasmodium adaptation to amino acid deficiency
por: Marreiros, Inês M., et al.
Publicado: (2023)

FACT-seq: profiling histone modifications in formalin-fixed paraffin-embedded samples with low cell numbers
por: Zhao, Linxuan, et al.
Publicado: (2021)

Inferring Demography from Runs of Homozygosity in Whole-Genome Sequence, with Correction for Sequence Errors
por: MacLeod, Iona M., et al.
Publicado: (2013)

Genome-scale network model of metabolism and histone acetylation reveals metabolic dependencies of histone deacetylase inhibitors
por: Shen, Fangzhou, et al.
Publicado: (2019)

Quantitative chromatin proteomics reveals a dynamic histone post-translational modification landscape that defines asexual and sexual Plasmodium falciparum parasites
por: Coetzee, Nanika, et al.
Publicado: (2017)

Predicting gene expression in the human malaria parasite Plasmodium falciparum using histone modification, nucleosome positioning, and 3D localization features
por: Read, David F., et al.
Publicado: (2019)

DNA organization by the apicoplast-targeted bacterial histone-like protein of Plasmodium falciparum
por: Ram, E. V. S. Raghu, et al.
Publicado: (2008)

Modeling cis-regulation with a compendium of genome-wide histone H3K27ac profiles
por: Wang, Su, et al.
Publicado: (2016)

Cannot write session to /tmp/vufind_sessions/sess_ohj7vo2km2rign5kvlb8gnbcpc