Evidence map›Paper›PMID 30635013›Full record

ArticleJournal of translational medicine2019

Single cell sequencing reveals gene expression signatures associated with bone marrow stromal cell subpopulations and time in culture.

Shutong Liu, David F Stroncek, Yingdong Zhao, Victoria Chen, Rongye Shi, Jinguo Chen, Jiaqiang Ren, Hui Liu, Hee Joon Bae, Steven L Highfill and 1 more

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Journal of translational medicine, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
19citing papers in PubMed, 1 pooled it
4.7field-weighted citation impact, top 5% of its field
1 · What the graph read from it

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.

2 · The registry

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.

3 · Its place in the literature

Who cites it

19 citing papers in PubMed, 1 synthesis or guideline pooled it, 33 citations in OpenAlex.

  1. Consequences of Aging on Bone.Aging and disease · 2023
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  16. Transcriptomics: a Solution for Renal Osteodystrophy?Current osteoporosis reports · 2020
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

11 authors at 3 institutions in 1 country.

Shutong LiuCell Processing Section, Department of Transfusion Medicine, Clinical Center, National Institutes of Health (NIH), 10 Center Drive-MSC-1184, Building 10, Room 3C720, Bethesda, MD, 20892-1184, USA.
David F StroncekCell Processing Section, Department of Transfusion Medicine, Clinical Center, National Institutes of Health (NIH), 10 Center Drive-MSC-1184, Building 10, Room 3C720, Bethesda, MD, 20892-1184, USA. dstroncek@cc.nih.gov.
Yingdong ZhaoBiometric Research Program, Division of Cancer Treatment and Diagnosis, National Cancer Institute, NIH, Bethesda, MD, USA.
Victoria ChenCell Processing Section, Department of Transfusion Medicine, Clinical Center, National Institutes of Health (NIH), 10 Center Drive-MSC-1184, Building 10, Room 3C720, Bethesda, MD, 20892-1184, USA.
Rongye ShiCell Processing Section, Department of Transfusion Medicine, Clinical Center, National Institutes of Health (NIH), 10 Center Drive-MSC-1184, Building 10, Room 3C720, Bethesda, MD, 20892-1184, USA.
Jinguo ChenCenter for Human Immunology, Autoimmunity and Inflammation, National Institute of Allergy and Infectious Diseases, NIH, Bethesda, MD, USA.
Jiaqiang RenCell Processing Section, Department of Transfusion Medicine, Clinical Center, National Institutes of Health (NIH), 10 Center Drive-MSC-1184, Building 10, Room 3C720, Bethesda, MD, 20892-1184, USA.
Hui LiuCell Processing Section, Department of Transfusion Medicine, Clinical Center, National Institutes of Health (NIH), 10 Center Drive-MSC-1184, Building 10, Room 3C720, Bethesda, MD, 20892-1184, USA.
Hee Joon BaeCell Processing Section, Department of Transfusion Medicine, Clinical Center, National Institutes of Health (NIH), 10 Center Drive-MSC-1184, Building 10, Room 3C720, Bethesda, MD, 20892-1184, USA.
Steven L HighfillCell Processing Section, Department of Transfusion Medicine, Clinical Center, National Institutes of Health (NIH), 10 Center Drive-MSC-1184, Building 10, Room 3C720, Bethesda, MD, 20892-1184, USA.
Ping JinCell Processing Section, Department of Transfusion Medicine, Clinical Center, National Institutes of Health (NIH), 10 Center Drive-MSC-1184, Building 10, Room 3C720, Bethesda, MD, 20892-1184, USA.
National Institutes of Health Clinical Center · USNational Cancer Institute · USNational Institute of Allergy and Infectious Diseases · US

Funding

Center for Human Immunology ZICAI001226 · NIAID · NATIONAL INSTITUTE OF ALLERGY AND INFECTIOUS DISEASES · PI CHERRY, JAMES · 2018 to 2025
$34.1M
6 · The paper itself

Abstract

backgroundBone marrow stromal cells (BMSCs) are a heterogeneous population that participates in wound healing, immune modulation and tissue regeneration. Next generation sequencing was used to analyze transcripts from single BMSCs in order to better characterize BMSC subpopulations.

methodsCryopreserved passage 2 BMSCs from one healthy subject were cultured through passage 10. The transcriptomes of bulk BMSCs from designated passages were analyzed with microarrays and RNA sequencing (RNA-Seq). For some passages, single BMSCs were separated using microfluidics and their transcriptomes were analyzed by RNA-Seq.

resultsTranscriptome analysis by microarray and RNA-Seq of unseparated BMSCs from passages 2, 4, 6, 8, 9 and 10 yielded similar results; both data sets grouped passages 4 and 6 and passages 9 and 10 together and genes differentially expressed among these early and late passage BMSCs were similar. 3D Diffusion map visualization of single BMSCs from passages 3, 4, 6, 8 and 9 clustered passages 3 and 9 into two distinct groups, but there was considerable overlap for passages 4, 6 and 8 cells. Markers for early passage, FGFR2, and late passage BMSCs, PLAT, were able to identify three subpopulations within passage 3 BMSCs; one that expressed high levels of FGFR2 and low levels of PLAT; one that expressed low levels of FGFR2 and high levels of PLAT and one that expressed intermediate levels of FGFR2 and low levels of PLAT.

conclusionsSingle BMSCs can be separated by microfluidics and their transcriptome analyzed by next generation sequencing. Single cell analysis of early passage BMSCs identified a subpopulation of cells expressing high levels of FGFR2 that might include skeletal stem cells.

Indexed as

Gene Expression ProfilingSequence Analysis, RNASingle-Cell AnalysisBiomarkersCells, CulturedCluster AnalysisGene Expression RegulationHumansMesenchymal Stem CellsTime FactorsTranscriptomeBiomarkersBone marrow stromal cellsFGFR2Next generation sequencingPLATSingle cell next generation sequencing

Identifiers

PMID30635013
PMCPMC6330466
OpenAlexW2909331152

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.