Sparse feature selection identifies H2A.Z as a novel, pattern-specific biomarker for asymmetrically self-renewing distributed stem cells
Open accessAbstract
There is a long-standing unmet clinical need for biomarkers with high specificity for distributed stem cells (DSCs) in tissues, or for use in diagnostic and therapeutic cell preparations (e.g., bone marrow). Although DSCs are essential for tissue maintenance and repair, accurate determination of their numbers for medical applications has been problematic. Previous searches for biomarkers expressed specifically in DSCs were hampered by difficulty obtaining pure DSCs and by the challenges in mining complex molecular expression data. To identify such useful and specific DSC biomarkers, we combined a novel sparse feature selection method with combinatorial molecular expression data focused on asymmetric self-renewal, a conspicuous property of DSCs. The analysis identified reduced expression of the histone H2A variant H2A.Z as a superior molecular discriminator for DSC asymmetric self-renewal. Subsequent molecular expression studies showed H2A.Z to be a novel "pattern-specific biomarker" for asymmetrically self-renewing cells, with sufficient specificity to count asymmetrically self-renewing DSCs in vitro and potentially in situ.
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Self-citation
- Authors
- Huh, Y. H., Noh, M., Burden, F. R., Chen, J. C., Winkler, D. A., & Sherley, J. L.
- Affiliations
- Korea Basic Science Institute (KR)
- Seoul National University (KR)
- Commonwealth Scientific and Industrial Research Organisation (AU)
- University of Massachusetts Chan Medical School (US)
- Corresponding author
- Winkler, David A.
- Sherley, James L.
- Venue
- Stem Cell Research
- Publisher
- Elsevier BV
- Published
- 2015-03
- Volume
- 14
- Issue
- 2
- Pages
- 144-154
- ISSN
- 1873-5061 (ISSN-L)
- PMC
- PMC4363179
- OpenAlex
- W1978330325
- Cited by
- 20
- References
- 43
- Citations by year
- 2023: 2 · 2022: 2 · 2021: 1 · 2020: 3 · 2019: 1 · 2018: 5 · 2017: 1 · 2016: 3 · 2015: 2
- FWCI
- 2.88
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- Locations
- Stem Cell Research (publishedVersion, cc-by-nc-nd)
- PubMed (publishedVersion)
- PubMed Central (acceptedVersion)
- Monash University Research Portal (Monash University) (submittedVersion, cc-by-nc-nd)
- DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
- Funders
- NHGRI (PSO HG 003170)
- NIEHS (689471)
- NIGMS (5DP1OD000805)
- Eunice Kennedy Shriver National Institute of Child Health & Human Development of the National Institutes of Health (U54HD060848)
- Topics
- Health Sciences › Medicine › Hematology › Hematopoietic Stem Cell Transplantation
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gene expression and cancer classification
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Keywords
- H2A.Z, histone H2A variant, biomarkers, sparse feature selection, cell counting, bone marrow, stem cell isolation
- MeSH terms
- Animals, Histones, Humans, Stem Cells, Biomarkers, Cell Culture Techniques, Satellite Cells, Skeletal Muscle, Microarray Analysis, Mice
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