Evidence map›Paper›PMID 28410643›Full record

ArticleStem cell reports2017

High-Throughput and Cost-Effective Characterization of Induced Pluripotent Stem Cells.

Matteo D'Antonio, Grace Woodruff, Jason L Nathanson, Agnieszka D'Antonio-Chronowska, Angelo Arias, Hiroko Matsui, Roy Williams, Cheryl Herrera, Sol M Reyna, Gene W Yeo and 3 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Stem cell reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.

0numbers the graph read from it
0cells of the map it votes in
36citing papers in PubMed
–field-weighted citation impact
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

36 citing papers in PubMed.

  1. Article
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  5. Review
  6. Article
  7. Injectable biodegradable microcarriers for iPSC expansion and cardiomyocyte differentiation.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024
    Article
  8. Review
  9. Article
  10. Review
  11. Article
  12. Review
  13. Review
  14. Article
  15. Article
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  17. Article
  18. Review
  19. Review
  20. The Challenge of Bringing iPSCs to the Patient.International journal of molecular sciences · 2019
    Review
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

13 authors.

Matteo D'AntonioDepartment of Pediatrics, University of California, San Diego, La Jolla, CA 92093, USA.
Grace WoodruffDepartment of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA 92093, USA.
Jason L NathansonDepartment of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA 92093, USA.
Agnieszka D'Antonio-ChronowskaInstitute for Genomic Medicine, University of California, San Diego, La Jolla, CA 92093, USA.
Angelo AriasDepartment of Pediatrics, University of California, San Diego, La Jolla, CA 92093, USA.
Hiroko MatsuiInstitute for Genomic Medicine, University of California, San Diego, La Jolla, CA 92093, USA.
Roy WilliamsInstitute for Genomic Medicine, University of California, San Diego, La Jolla, CA 92093, USA.
Cheryl HerreraDepartment of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA 92093, USA.
Sol M ReynaDepartment of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA 92093, USA.
Gene W YeoDepartment of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA 92093, USA; Institute for Genomic Medicine, University of California, San Diego, La Jolla, CA 92093, USA.
Lawrence S B GoldsteinDepartment of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA 92093, USA; Department of Neurosciences, University of California, San Diego, La Jolla, CA 92093, USA. Electronic address: lgoldstein@ucsd.edu.
Athanasia D PanopoulosDepartment of Biological Sciences, University of Notre Dame, Notre Dame, IN 46556, USA. Electronic address: apanopou@nd.edu.
Kelly A FrazerDepartment of Pediatrics, University of California, San Diego, La Jolla, CA 92093, USA; Institute for Genomic Medicine, University of California, San Diego, La Jolla, CA 92093, USA. Electronic address: kafrazer@ucsd.edu.

Funding

VIRAL MALIGNANCYP30CA023100 · NCI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Jesse Nodora · 1985 to 2026
$124.9M
Functional RNA elements in the human genomeR01HG004659 · NHGRI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Kevin Daniel Corbett, Eugene Wei-Ming Yeo · 2008 to 2026
$12.4M
REGULATORY GENOMIC STUDIES IN A COHORT OF IPS CELL DERIVED CARDIOMYOCYTESU01HL107442 · NHLBI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI EVANS, SYLVIA M, FRAZER, KELLY A · 2011 to 2016
$9.8M
Training Program in Basic Clinical GeneticsT32GM008666 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI HAMILTON, BRUCE A · 1998 to 2021
$8.6M
Molecular Basis of Hereditary Retinal DegenerationsR01EY021237 · NEI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI AYYAGARI, RADHA · 2011 to 2020
$5.6M
Functional Analysis of T2D Associated Non-coding SNPsU01DK105541 · NIDDK · LUDWIG INSTITUTE FOR CANCER RES LTD · PI FRAZER, KELLY A, REN, BING · 2015 to 2019
$4.6M
Fine-mapping and functional analysis of T1D-associated variantsDP3DK112155 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI FRAZER, KELLY A, SANDER, MAIKE · 2016 to 2016
$3.3M
Defining the messenger RNP code in the brainR01NS075449 · NINDS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI YEO, EUGENE WEI-MING · 2012 to 2016
$3.0M
Commercialization of HaploSeq as a Service (HaaS) for generating chromosome-span phased genome and exome sequence informationR44HG008118 · NHGRI · ARIMA GENOMICS, INC. · PI DIXON, JESSE R, LAURENT, LOUISE CHANG · 2018 to 2019
$1.7M
Optimizing HaploSeq for whole-genome phased haplotypes in biomedical applicationsR41HG008118 · NHGRI · ARIMA GENOMICS, LLC · PI FRAZER, KELLY A, HEINTZMAN, NATE · 2015 to 2016
$822k
NCI NIH HHS P30 CA023100NEI NIH HHS R01 EY021237NHGRI NIH HHS R01 HG004659NHGRI NIH HHS R41 HG008118NHGRI NIH HHS R44 HG008118NHLBI NIH HHS U01 HL107442NIDDK NIH HHS DP3 DK112155NIDDK NIH HHS U01 DK105541NINDS NIH HHS R01 NS075449
6 · The paper itself

Abstract

Reprogramming somatic cells to induced pluripotent stem cells (iPSCs) offers the possibility of studying the molecular mechanisms underlying human diseases in cell types difficult to extract from living patients, such as neurons and cardiomyocytes. To date, studies have been published that use small panels of iPSC-derived cell lines to study monogenic diseases. However, to study complex diseases, where the genetic variation underlying the disorder is unknown, a sizable number of patient-specific iPSC lines and controls need to be generated. Currently the methods for deriving and characterizing iPSCs are time consuming, expensive, and, in some cases, descriptive but not quantitative. Here we set out to develop a set of simple methods that reduce cost and increase throughput in the characterization of iPSC lines. Specifically, we outline methods for high-throughput quantification of surface markers, gene expression analysis of in vitro differentiation potential, and evaluation of karyotype with markedly reduced cost.

Indexed as

Genetic VariationBiomarkersCell DifferentiationCell LineCellular ReprogrammingCost-Benefit AnalysisGenotypeHigh-Throughput Screening AssaysHumansInduced Pluripotent Stem CellsKaryotypingMyocytes, CardiacNeuronsPhenotypeBiomarkersdifferentiation potentialdigital karyotypingflow cytometryfluorescent cell barcodinghigh-throughput methodsinduced pluripotent stem cellspluripotency characterizationqPCRSNP arrays

Identifiers

PMID28410643
PMCPMC5390243

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Registered trials

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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.