Evidence map›Paper›PMID 31261375›Full record

ArticlePloS one2019

Transcriptomes of antigen presenting cells in human thymus.

Ingvild S M Gabrielsen, Hanna Helgeland, Helle Akselsen, Hans Christian D Aass, Arvind Y M Sundaram, Isaac V Snowhite, Alberto Pugliese, Siri T Flåm, Benedicte A Lie

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

Article in PloS one, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing papers in PubMed
1.0field-weighted citation impact, top 25% 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

14 citing papers in PubMed, 21 citations in OpenAlex.

  1. Review
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  11. Thymus and autoimmunity.Seminars in immunopathology · 2021
    Review
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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

9 authors at 2 institutions in 2 countries.

Ingvild S M GabrielsenDepartment of Medical Genetics, University of Oslo and Oslo University Hospital, Oslo, Norway.ORCID 0000-0003-4333-5209
Hanna HelgelandDepartment of Medical Genetics, University of Oslo and Oslo University Hospital, Oslo, Norway.
Helle AkselsenDepartment of Medical Genetics, University of Oslo and Oslo University Hospital, Oslo, Norway.
Hans Christian D AassInstitute of Clinical Medicine, University of Oslo, Oslo, Norway.
Arvind Y M SundaramDepartment of Medical Genetics, University of Oslo and Oslo University Hospital, Oslo, Norway.
Isaac V SnowhiteDiabetes Research Institute, Miller School of Medicine, University of Miami, Miami, Florida, United States of America.
Alberto PuglieseDiabetes Research Institute, Miller School of Medicine, University of Miami, Miami, Florida, United States of America.
Siri T FlåmDepartment of Medical Genetics, University of Oslo and Oslo University Hospital, Oslo, Norway.ORCID 0000-0002-9004-9136
Benedicte A LieDepartment of Medical Genetics, University of Oslo and Oslo University Hospital, Oslo, Norway.
Oslo University Hospital · NOUniversity of Miami · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Antigen presenting cells (APCs) in the thymus play an essential role in the establishment of central tolerance, i.e. the generation of a repertoire of functional and self-tolerant T cells to prevent autoimmunity. In this study, we have compared the transcriptomes of four primary APCs from human thymus (mTECs, CD19+ B cells, CD141+ and CD123+ DCs). We investigated a set of genes including the HLA genes, genes encoding transcriptional regulators and finally, tissue-enriched genes, i.e, genes with a five-fold higher expression in a particular human tissue. We show that thymic CD141+ DCs express the highest levels of all classical HLA genes and 67% (14/21) of the HLA class I and II pathway genes investigated in this study. CD141+ DCs also expressed the highest levels of the transcriptional regulator DEAF1, whereas AIRE and FEZF2 expression were mainly found in primary human mTECs. We found expression of "tissue enriched genes" from the Human Protein Atlas (HPA) in all four APC types, but the mTECs were clearly dominating in the number of uniquely expressed tissue enriched genes (20% in mTECs, 7% in CD19+ B cells, 4% in CD123+ DCs and 2% in CD141+ DCs). The tissue enriched genes also overlapped with reported human autoantigens. This is, to our knowledge, the first study that performs RNA sequencing of mTECs, CD19+ B cells, CD141+ and CD123+ DCs isolated from the same individuals and provides insight into the transcriptomes of these human thymic APCs.

Indexed as

AIRE ProteinAntigen PresentationAntigens, SurfaceB-LymphocytesDendritic CellsDNA-Binding ProteinsEpithelial CellsGene Expression ProfilingHLA AntigensHumansImmunophenotypingInfantInfant, NewbornInterleukin-3 Receptor alpha SubunitMalePrimary Cell CultureAIRE ProteinAntigens, SurfaceDEAF1 protein, humanDNA-Binding ProteinsFEZF2 protein, humanHLA AntigensIL3RA protein, humanInterleukin-3 Receptor alpha SubunitTHBD protein, humanThrombomodulinTranscription Factors

Identifiers

PMID31261375
PMCPMC6602790
OpenAlexW2954567461

What OpenQuestion holds

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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.