Cargando…

An open-source pipeline for analysing changes in microglial morphology

Changes in microglial morphology are powerful indicators of the inflammatory state of the brain. Here, we provide an open-source microglia morphology analysis pipeline that first cleans and registers images of microglia, before extracting 62 parameters describing microglial morphology. It then compa...

Descripción completa

Detalles Bibliográficos
Autores principales:	Clarke, Devin, Crombag, Hans S., Hall, Catherine N.
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	The Royal Society 2021
Materias:	Methods and Techniques
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8354754/ https://www.ncbi.nlm.nih.gov/pubmed/34375551 http://dx.doi.org/10.1098/rsob.210045

Ejemplares similares

Quantitative analysis of subcellular distributions with an open-source, object-based tool
por: Ryder, Pearl V., et al.
Publicado: (2020)

OSpRad: an open-source, low-cost, high-sensitivity spectroradiometer
por: Troscianko, Jolyon
Publicado: (2023)

3D for the people: multi-camera motion capture in the field with consumer-grade cameras and open source software
por: Jackson, Brandon E., et al.
Publicado: (2016)

A fully automated deep learning pipeline for high-throughput colony segmentation and classification
por: Carl, Sarah H., et al.
Publicado: (2020)

scGRNom: a computational pipeline of integrative multi-omics analyses for predicting cell-type disease genes and regulatory networks
por: Jin, Ting, et al.
Publicado: (2021)

PiQSARS: A pipeline for quantitative and statistical analyses of ratiometric fluorescent biosensors
por: Lévy, Elise, et al.
Publicado: (2020)

An optimised pipeline for parallel image-based quantification of gene expression and genotyping after in situ hybridisation
por: Dobrzycki, Tomasz, et al.
Publicado: (2018)

Hypothyroidism affects astrocyte and microglial morphology in type 2 diabetes
por: Nam, Sung Min, et al.
Publicado: (2013)

Parakeet: a digital twin software pipeline to assess the impact of experimental parameters on tomographic reconstructions for cryo-electron tomography
por: Parkhurst, James M., et al.
Publicado: (2021)

A benchmark for RNA-seq quantification pipelines
por: Teng, Mingxiang, et al.
Publicado: (2016)

TRITEX: chromosome-scale sequence assembly of Triticeae genomes with open-source tools
por: Monat, Cécile, et al.
Publicado: (2019)

MMAPPR: Mutation Mapping Analysis Pipeline for Pooled RNA-seq
por: Hill, Jonathon T., et al.
Publicado: (2013)

HUPAN: a pan-genome analysis pipeline for human genomes
por: Duan, Zhongqu, et al.
Publicado: (2019)

A low-cost open-source SNP genotyping platform for association mapping applications
por: Macdonald, Stuart J, et al.
Publicado: (2005)

POSaM: a fast, flexible, open-source, inkjet oligonucleotide synthesizer and microarrayer
por: Lausted, Christopher, et al.
Publicado: (2004)

minimod: An Open Source Python Package to Evaluate the Cost Effectiveness of Micronutrient Intervention Programs
por: Michuda, Aleksandr, et al.
Publicado: (2022)

MetaTrans: an open-source pipeline for metatranscriptomics
por: Martinez, Xavier, et al.
Publicado: (2016)

Filopodyan: An open-source pipeline for the analysis of filopodia
por: Urbančič, Vasja, et al.
Publicado: (2017)

Minian, an open-source miniscope analysis pipeline
por: Dong, Zhe, et al.
Publicado: (2022)

Open Source Data Pipelines for Intelligent Applications
por: Bader, Kyle
Publicado: (2020)

mvp – an open‐source preprocessor for cleaning duplicate records and missing values in mass spectrometry data
por: Lee, Geunho, et al.
Publicado: (2017)

SRCP: a comprehensive pipeline for accurate annotation and quantification of circRNAs
por: Rabin, Avigayel, et al.
Publicado: (2021)

INKA, an integrative data analysis pipeline for phosphoproteomic inference of active kinases
por: Beekhof, Robin, et al.
Publicado: (2019)

Artifactual FA dimers mimic FAHFA signals in untargeted metabolomics pipelines
por: Nelson, Alisa B., et al.
Publicado: (2022)

3DMorph Automatic Analysis of Microglial Morphology in Three Dimensions from Ex Vivo and In Vivo Imaging
por: York, Elisa M., et al.
Publicado: (2018)

Analyses of ‘change scores’ do not estimate causal effects in observational data
por: Tennant, Peter W G, et al.
Publicado: (2021)

A high-throughput pipeline for the production of synthetic antibodies for analysis of ribonucleoprotein complexes
por: Na, Hong, et al.
Publicado: (2016)

Iterative categorization (IC): a systematic technique for analysing qualitative data
por: Neale, Joanne
Publicado: (2016)

Fully automated open‐source lesion mapping of T2‐FLAIR images with FSL correlates with clinical disability in MS
por: Wetter, Nathan C., et al.
Publicado: (2016)

An integrative variant analysis pipeline for accurate genotype/haplotype inference in population NGS data
por: Wang, Yi, et al.
Publicado: (2013)

An integrated metagenomics pipeline for strain profiling reveals novel patterns of bacterial transmission and biogeography
por: Nayfach, Stephen, et al.
Publicado: (2016)

Target parameters and bias in non-causal change-score analyses with measurement errors
por: Sjölander, Arvid, et al.
Publicado: (2023)

An open RNA-Seq data analysis pipeline tutorial with an example of reprocessing data from a recent Zika virus study
por: Wang, Zichen, et al.
Publicado: (2016)

Genome (re‐)annotation and open‐source annotation pipelines
por: Siezen, Roland J., et al.
Publicado: (2010)

SILVI, an open-source pipeline for T-cell epitope selection
por: Pissarra, Joana, et al.
Publicado: (2022)

PySilSub: An open-source Python toolbox for implementing the method of silent substitution in vision and nonvisual photoreception research
por: Martin, Joel T., et al.
Publicado: (2023)

DNA base flipping analytical pipeline
por: Zhang, Peng, et al.
Publicado: (2017)

Data pipeline for managing field experiments
por: Liu, Jian, et al.
Publicado: (2023)

PhagePhisher: a pipeline for the discovery of covert viral sequences in complex genomic datasets
por: Hatzopoulos, Thomas, et al.
Publicado: (2016)

Employing an open-source tool to assess astrocyte tridimensional structure
por: Tavares, Gabriela, et al.
Publicado: (2016)

Cannot write session to /tmp/vufind_sessions/sess_8akd8ljk3j3aq0df818jiu2jcf