Evidence map›Paper›PMID 31784515›Full record

ArticleNature communications2019

Single cell census of human kidney organoids shows reproducibility and diminished off-target cells after transplantation.

Ayshwarya Subramanian, Eriene-Heidi Sidhom, Maheswarareddy Emani, Katherine Vernon, Nareh Sahakian, Yiming Zhou, Maria Kost-Alimova, Michal Slyper, Julia Waldman, Danielle Dionne and 6 more

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

Article in Nature communications, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 127 papers.

0numbers the graph read from it
0cells of the map it votes in
127citing papers in PubMed
9.5field-weighted citation impact, top 1% 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

127 citing papers in PubMed, 216 citations in OpenAlex.

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67 more citing papers are in PubMed but not listed here.

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

16 authors at 2 institutions in 1 country.

Ayshwarya SubramanianBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-4134-7612
Eriene-Heidi SidhomBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-2658-9672
Maheswarareddy EmaniBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Katherine VernonBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Nareh SahakianBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Yiming ZhouBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Maria Kost-AlimovaCenter for the Development of Therapeutics, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Michal SlyperBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Julia WaldmanBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Danielle DionneBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-8338-4323
Lan T NguyenBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Astrid WeinsDepartment of Pathology, Brigham and Women's Hospital and Harvard Medical School, Boston, MA, USA.
Jamie L MarshallBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-2364-391X
Orit Rosenblatt-RosenBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Aviv RegevBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0003-3293-3158
Anna GrekaBroad Institute of MIT and Harvard, Cambridge, MA, USA. agreka@bwh.harvard.edu.ORCID http://orcid.org/0000-0001-5697-7791
Broad Institute · USBrigham and Women's Hospital · US

Funding

Molecular mechanisms of podocyte injury in FSGSR01DK095045 · NIDDK · MASSACHUSETTS GENERAL HOSPITAL · PI Anna Greka, Juan Lorenzo Pablo · 2014 to 2026
$5.1M
Role of TRPC5 channel inhibition in the treatment of glomerular diseaseR01DK099465 · NIDDK · BROAD INSTITUTE, INC. · PI Anna Greka · 2014 to 2026
$5.1M
NIDDK NIH HHS R01 DK095045NIDDK NIH HHS R01 DK099465
6 · The paper itself

Abstract

Human iPSC-derived kidney organoids have the potential to revolutionize discovery, but assessing their consistency and reproducibility across iPSC lines, and reducing the generation of off-target cells remain an open challenge. Here, we profile four human iPSC lines for a total of 450,118 single cells to show how organoid composition and development are comparable to human fetal and adult kidneys. Although cell classes are largely reproducible across time points, protocols, and replicates, we detect variability in cell proportions between different iPSC lines, largely due to off-target cells. To address this, we analyze organoids transplanted under the mouse kidney capsule and find diminished off-target cells. Our work shows how single cell RNA-seq (scRNA-seq) can score organoids for reproducibility, faithfulness and quality, that kidney organoids derived from different iPSC lines are comparable surrogates for human kidney, and that transplantation enhances their formation by diminishing off-target cells.

Indexed as

AnimalsCell DifferentiationCell LineGene Expression Regulation, DevelopmentalHumansInduced Pluripotent Stem CellsKidneyKidney TransplantationMiceOrganoidsReproducibility of ResultsSequence Analysis, RNASingle-Cell AnalysisTransplantation, Heterologous

Identifiers

PMID31784515
PMCPMC6884507
OpenAlexW2990026706

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.