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GlossaryATAC-seq

technique identifies open chromatin regions to study gene regulation

ATAC-seq, or Assay for Transposase-Accessible Chromatin using sequencing, is a technique used to study the accessibility of chromatin, which is the material that makes up chromosomes. By identifying regions of DNA that are open and accessible, ATAC-seq helps researchers understand which parts of the genome are active and potentially involved in gene regulation. This method is valuable for studying gene expression patterns in various biological contexts, including development, disease, and cellular responses.

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research A Multi-Omics Approach to Identifying Factors Involved in Hair Follicle Growth and Development

April 2023 in “Journal of Investigative Dermatology”

The research found that certain factors in hair follicle cells control hair growth and development, and these could be used to create new treatments for hair loss.

Deciphering a Message from the Nucleus: How Transcription Factors and Spatial Chromatin Interactions Orchestrate Epidermal Differentiation

research Deciphering a Message from the Nucleus: How Transcription Factors and Spatial Chromatin Interactions Orchestrate Epidermal Differentiation

April 2023 in “The journal of investigative dermatology/Journal of investigative dermatology”

Key skin cell regulators and gene organization changes are crucial for skin cell development and could help treat skin disorders.

Integrated Single-Cell Chromatin and Transcriptomic Analyses of Human Scalp Reveal Etiological Insights Into Genetic Risk for Hair and Skin Disease

research Integrated Single-Cell Chromatin and Transcriptomic Analyses of Human Scalp Reveal Etiological Insights Into Genetic Risk for Hair and Skin Disease

September 2022 in “bioRxiv (Cold Spring Harbor Laboratory)”

The research provided new insights into the genetic factors contributing to hair loss and skin conditions by analyzing individual cells from the human scalp.

research Promotion of Hair Growth in Alopecia Areata by Topical Treatment of HDAC Inhibitors

April 2019 in “The journal of investigative dermatology/Journal of investigative dermatology”

HDAC inhibitors, like Vorinostat and Entinostat, can help regrow hair in alopecia areata.

research Characterization of Ectomesenchyme as an Origin of Epidermal Stem Cells

April 2023 in “Journal of Investigative Dermatology”

Ectomesenchyme is a key source of skin stem cells.

research Distinct Regulatory Programs Control the Latent Regenerative Potential of Dermal Fibroblasts During Wound Healing

128 citations, August 2020 in “Cell stem cell”

Dermal fibroblasts have adjustable roles in wound healing, with specific cells promoting regeneration or scar formation.

research Single Cell Analysis of Transcriptome and Open Chromatin Reveals the Dynamics of Hair Follicle Stem Cell Aging

3 citations, July 2023 in “Frontiers in Aging”

Hair follicle stem cells change states with age, affecting hair growth and aging.

research Temporal Layering of Signaling Effectors Drives Chromatin Remodeling During Hair Follicle Stem Cell Lineage Progression

85 citations, January 2018 in “Cell stem cell”

Different signals work together to change gene activity and guide hair follicle stem cells to become specific cell types.

Transcriptome Analyses of Reprogrammed Feather/Scale Chimeric Explants Revealed Co-Expressed Epithelial Gene Networks During Organ Specification

research Transcriptome Analyses of Reprogrammed Feather/Scale Chimeric Explants Revealed Co-Expressed Epithelial Gene Networks During Organ Specification

7 citations, October 2018 in “BMC genomics”

Key genes can rewire networks, changing skin appendage types.

research States and Fates of Skin Fibroblasts Revealed Through Chromatin Accessibility

February 2022 in “Journal of Investigative Dermatology”

Newborn skin cells can change into wound-healing cells more easily than adult ones, which might explain why baby skin heals without scars. Understanding this could help treat chronic wounds and prevent scarring.

Fibroblast Heterogeneity and Functions: Insights from Single-Cell Sequencing in Wound Healing, Breast Cancer, Ovarian Cancer, and Melanoma

research Fibroblast Heterogeneity and Functions: Insights from Single-Cell Sequencing in Wound Healing, Breast Cancer, Ovarian Cancer, and Melanoma

March 2024 in “Frontiers in genetics”

Different types of fibroblasts play specific roles in wound healing and cancer, which could help improve treatments.

research Molecular Heterogeneity of Quiescent Melanocyte Stem Cells Revealed by Single-Cell RNA-Sequencing

April 2024 in “Pigment cell & melanoma research”

Different types of resting melanocyte stem cells have unique characteristics and vary in their potential to become other cells.

research Lineage Commitment of Dermal Fibroblast Progenitors Is Mediated by Chromatin De-repression

1 citations, March 2023 in “bioRxiv (Cold Spring Harbor Laboratory)”

Skin cell types develop when specific genes are turned on by removing certain chemical tags from DNA.

research Identification of an Intronic Regulatory Element Necessary for Tissue-Specific Expression of Foxn1 in Thymic Epithelial Cells

17 citations, June 2019 in “The journal of immunology/The Journal of immunology”

A specific DNA region is crucial for Foxn1 gene expression in thymus cells but not in hair follicles.

research Epithelial-Mesenchymal Micro-Niches Govern Stem Cell Lineage Choices

214 citations, April 2017 in “Cell”

Different small areas within hair follicles send specific signals that control what type of cells stem cells become.

research Regulation of Adipocyte Dedifferentiation at the Skin Wound Edge

November 2023 in “bioRxiv (Cold Spring Harbor Laboratory)”

Adipocytes can change into fibroblast-like cells to help with wound healing.

research Wound Healing: A Cellular Perspective

1160 citations, November 2018 in “Physiological Reviews”

The document concludes that better targeted treatments are needed for wound healing, and single-cell technologies may improve cell-based therapies.

research ATP-Dependent Chromatin Remodeling During Mammalian Development

182 citations, August 2016 in “Development”

ATP-dependent chromatin-remodeling complexes are crucial for gene regulation, cell differentiation, and organ development in mammals.

research From Bedside to Bench: Regulation of Host Factors in SARS-CoV-2 Infection

4 citations, April 2021 in “Experimental and Molecular Medicine”

The conclusion is that certain genetic factors and blood types may affect COVID-19 severity, but changes in ACE2 and TMPRSS2 genes are not clearly linked to it.

research Spatio-Temporal Regulation of Gene Expression Defines Subpopulations of Epidermal Stem Cells

1 citations, November 2020 in “Biochemical Society transactions”

Different types of skin stem cells can change and adapt, which is important for developing new treatments.

Cell-Type-Specific Chromatin States Differentially Prime Squamous Cell Carcinoma Tumor-Initiating Cells for Epithelial to Mesenchymal Transition

research Cell-Type-Specific Chromatin States Differentially Prime Squamous Cell Carcinoma Tumor-Initiating Cells for Epithelial to Mesenchymal Transition

174 citations, November 2016 in “Cell stem cell”

Different types of skin cells have unique genetic markers that affect how likely they are to spread cancer.

research YAP And TAZ Are Essential For Basal And Squamous Cell Carcinoma Initiation

76 citations, June 2018 in “EMBO Reports”

YAP and TAZ proteins are necessary for the development of two types of skin cancer.

research Aging, Alopecia, and Stem Cells

42 citations, February 2016 in “Science”

The document concludes that both internal stem cell factors and external influences like the environment and hormones affect hair loss and aging, with potential treatments focusing on these areas.

An Intrinsic Oscillation of Gene Networks Inside Hair Follicle Stem Cells: An Additional Layer That Can Modulate Hair Stem Cell Activities

research An Intrinsic Oscillation of Gene Networks Inside Hair Follicle Stem Cells: An Additional Layer That Can Modulate Hair Stem Cell Activities

23 citations, December 2020 in “Frontiers in Cell and Developmental Biology”

Gene network oscillations inside hair stem cells are key for hair growth regulation and could help treat hair loss.

research Tailored Chromatin Modulation to Promote Tissue Regeneration

10 citations, May 2019 in “Seminars in Cell & Developmental Biology”

Understanding and manipulating epigenetic changes can potentially lead to human organ regeneration therapies, but more research is needed to improve these methods and minimize risks.

research The Pioneer Factor SOX9 Competes for Epigenetic Factors to Switch Stem Cell Fates

6 citations, July 2023 in “Nature cell biology”

SOX9 helps determine stem cell roles by interacting with DNA and proteins that control gene activity.

research Failures of DNA Methylation Clocks and Development of a Noise Barometer for Measuring Epigenetic Pressure of Aging and Disease

2 citations, September 2023 in “Aging”

Elastic Net DNA methylation clocks are inaccurate for predicting age and health status; a "noise barometer" may better indicate aging and disease.