ArticlePloS one2013
Quantitation of gene expression in formaldehyde-fixed and fluorescence-activated sorted cells.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
19 citing papers in PubMed.
- Plasticity of the Immune System in Children Following Treatment Interruption in HIV-1 Infection.Frontiers in immunology · 2021Trial
- Article
- Ultrasound-Guided Synovial Biopsy Can Be Effectively and Safely Performed in Different Clinical Settings Favouring a Widespread Application of Precision Medicine in Rheumatoid Arthritis: A Post-hoc Analysis of Three Clinical Trials.Journal of clinical medicine · 2026Article
- The aging mouse CNS is protected by an autophagy-dependent microglia population promoted by IL-34.Nature communications · 2024Article
- Association Between Prolonged Shedding of Zika Virus in Human Semen and Male Reproductive Tract Inflammation.The Journal of infectious diseases · 2022Article
- Early alveolar macrophage response and IL-1R-dependent T cell priming determine transmissibility of Mycobacterium tuberculosis strains.Nature communications · 2022Article
- The importance of taking ART appropriately in children and adolescents with HIV-1 to reach the highest capacity of immune function later in life.Frontiers in immunology · 2022Article
- RNA analysis based on a small number of manually isolated fixed cells (RNA-snMIFxC) to profile stem cells from human deciduous tooth-derived dental pulp cells.Biological procedures online · 2021Article
- ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics.Genome biology · 2021Article
- IgM, IgG, and IgA Influenza-Specific Plasma Cells Express Divergent Transcriptomes.Journal of immunology (Baltimore, Md. : 1950) · 2019Article
- Addressing cellular heterogeneity in tumor and circulation for refined prognostication.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- Assessing Binary Mixture Effects from Genotoxic and Endocrine Disrupting Environmental Contaminants Using Infrared Spectroscopy.ACS omega · 2018Article
- Design and Fabrication of a Hierarchically Structured Scaffold for Tendon-to-Bone Repair.Advanced materials (Deerfield Beach, Fla.) · 2018Article
- Apln-CreERT:mT/mG reporter mice as a tool for sprouting angiogenesis study.BMC ophthalmology · 2017Article
- Selective depletion of cultured macrophages by magnetite nanoparticles modified with gelatin.Experimental and therapeutic medicine · 2017Article
- Maintaining RNA Integrity for Transcriptomic Profiling of Ex Vivo Cultured Limbal Epithelial Stem Cells after Fluorescence-Activated Cell Sorting (FACS).Biological procedures online · 2017Article
- Protein characterization of intracellular target-sorted, formalin-fixed cell subpopulations.Scientific reports · 2016Article
- High CD3+ Cells in Intracranial Thrombi Represent a Biomarker of Atherothrombotic Stroke.PloS one · 2016Article
- Inflammatory monocytes recruited to the liver within 24 hours after virus-induced inflammation resemble Kupffer cells but are functionally distinct.Journal of virology · 2015Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
Fluorescence-activated cell sorting (FACS) is a sensitive and valuable technique to characterize cellular subpopulations and great advances have been made using this approach. Cells are often fixed with formaldehyde prior to the sorting process to preserve cell morphology and maintain the expression of surface molecules, as well as to ensure safety in the sorting of infected cells. It is widely recognized that formaldehyde fixation alters RNA and DNA structure and integrity, thus analyzing gene expression in these cells has been difficult. We therefore examined the effects of formaldehyde fixation on the stability and quantitation of nucleic acids in cell lines, primary leukocytes and also cells isolated from SIV-infected pigtailed macaques. We developed a method to extract RNA from fixed cells that yielded the same amount of RNA as our common method of RNA isolation from fresh cells. Quantitation of RNA by RT-qPCR in fixed cells was not always comparable with that in unfixed cells. In comparison, when RNA was measured by the probe-based NanoString system, there was no significant difference in RNA quantitation. In addition, we demonstrated that quantitation of proviral DNA in fixed cells by qPCR is comparable to that in unfixed cells when normalized by a single-copy cellular gene. These results provide a systematic procedure to quantitate gene expression in cells that have been fixed with formaldehyde and sorted by FACS.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.