Evidence map›Paper›PMID 32584494›Full record

ArticleCurrent protocols in stem cell biology2020

High-throughput Preparation of DNA, RNA, and Protein from Cryopreserved Human iPSCs for Multi-omics Analysis.

Jeffrey X Zhang, Edward Lau, David T Paik, Yan Zhuge, Joseph C Wu

Open access · greenAbstract read
In one paragraph

Article in Current protocols in stem cell biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
0.2field-weighted citation impact, top 50% 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

4 citing papers in PubMed, 4 citations in OpenAlex.

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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

5 authors at 3 institutions in 1 country.

Jeffrey X ZhangStanford Cardiovascular Institute, Stanford University School of Medicine, Stanford, California.
Edward LauStanford Cardiovascular Institute, Stanford University School of Medicine, Stanford, California.
David T PaikStanford Cardiovascular Institute, Stanford University School of Medicine, Stanford, California.
Yan ZhugeStanford Cardiovascular Institute, Stanford University School of Medicine, Stanford, California.
Joseph C WuStanford Cardiovascular Institute, Stanford University School of Medicine, Stanford, California.
Cardiovascular Institute of the South · USStanford University · USUniversity of Colorado Anschutz Medical Campus · US

Funding

Project 3 (Mercola)P01HL141084 · NHLBI · STANFORD UNIVERSITY · PI Karim Sallam · 2019 to 2026
$21.1M
Modeling Tyrosine Kinase Inhibitor-Induced Vascular Dysfunction Using Human iPSCsR01HL141851 · NHLBI · STANFORD UNIVERSITY · PI WONG, WING H., WU, JOSEPH C. · 2018 to 2025
$5.7M
Single Cell Sequencing of Human iPSC-CM Subtype Identity and FunctionR01HL145676 · NHLBI · STANFORD UNIVERSITY · PI MARK MERCOLA, Joseph C. Wu · 2019 to 2026
$5.1M
Modeling Susceptibility to Chemotherapy-Induced Cardiotoxicity Using Human iPSCsR01HL123968 · NHLBI · STANFORD UNIVERSITY · PI QUERTERMOUS, THOMAS, WU, JOSEPH C. · 2014 to 2021
$4.8M
Identifying Angiocrine Factors for Cardiomyocyte Maturation Using Single-Cell SequencingK99HL150216 · NHLBI · STANFORD UNIVERSITY · PI PAIK, DAVID T · 2020 to 2021
$325k
Proteomics Approach to Identify Cardiokine Signals in Human iPSC ModelsK99HL144829 · NHLBI · STANFORD UNIVERSITY · PI LAU, EDWARD · 2019 to 2020
$259k
NHLBI NIH HHS K99 HL144829NHLBI NIH HHS K99 HL150216NHLBI NIH HHS P01 HL141084NHLBI NIH HHS R01 HL123968NHLBI NIH HHS R01 HL141851NHLBI NIH HHS R01 HL145676
6 · The paper itself

Abstract

We describe the procedure to isolate genomic DNA, RNA, and protein directly from cryopreserved induced pluripotent stem cell (iPSC) vials using commercially available solid-phase extraction kits, and we report the relationship between macromolecule yields and experimental and storage factors. Sufficient quantities of DNA, RNA, and protein are recoverable from as low as 1 million cryopreserved cells across 728 distinct iPSC lines suitable for whole-genome sequencing, RNA sequencing, and mass spectrometry experiments. Nucleic acids extracted from iPSC stocks cryopreserved up to 4 years maintain sufficient quantity and integrity for downstream analysis with minimal genomic DNA fragmentation. An expected positive correlation exists between cell count and DNA or RNA yield, with comparable yields recovered between cells across different cryostorage timespans. This article provides an effective way to simultaneously isolate iPSC biomolecules for multi-omics investigations. © 2020 Wiley Periodicals LLC. Basic Protocol 1: QIAshredder and AllPrep DNA/RNA/protein mini kit extraction and subsequent DNA quantification and quality analysis Basic Protocol 2: Broad-range RNA quantification and quality assay using QuBit 4 Fluorometer and associated kits.

Indexed as

CryopreservationGenomicsDNAFluorometryHigh-Throughput Screening AssaysHumansInduced Pluripotent Stem CellsLinear ModelsProteinsRNADNAProteinsRNAbiobankcryopreservationinduced pluripotent stem cellsmultimodal omics analysis

Identifiers

PMID32584494
PMCPMC7442745
OpenAlexW3037513349

What OpenQuestion holds

Textmetadata
LicenceTDM
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.