Evidence map›Paper›PMID 25192464›Full record

ArticleCell stem cell2014

The developmental potential of iPSCs is greatly influenced by reprogramming factor selection.

Yosef Buganim, Styliani Markoulaki, Niek van Wietmarschen, Heather Hoke, Tao Wu, Kibibi Ganz, Batool Akhtar-Zaidi, Yupeng He, Brian J Abraham, David Porubsky and 14 more

Open access · bronzeAbstract read
In one paragraph

Article in Cell stem cell, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 89 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
89citing papers in PubMed, 1 pooled it
10.2field-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

89 citing papers in PubMed, 1 synthesis or guideline pooled it, 167 citations in OpenAlex.

  1. Meta-Analysis of Gene Expressions in Testicular Germ Cell Tumor Histologies.International journal of molecular sciences · 2020
    Pooled it
  2. An RNA mark for pluripotency.Nature chemical biology · 2026
    Article
  3. Article
  4. Review
  5. Article
  6. Article
  7. Review
  8. Cell reprogramming: methods, mechanisms and applications.Cell regeneration (London, England) · 2025
    Review
  9. Research progress of stem cells in the treatment of atherosclerosis.Frontiers in cell and developmental biology · 2025
    Review
  10. Article
  11. Article
  12. Article
  13. Review
  14. Article
  15. Review
  16. Trends in Developing Extracellular Vesicle-Based Therapeutics.Brain tumor research and treatment · 2024
    Review
  17. Review
  18. Article
  19. Review
  20. Article

29 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

24 authors at 7 institutions in 3 countries.

Yosef BuganimDepartment of Developmental Biology and Cancer Research, Institute for Medical Research Israel-Canada, Hebrew University-Hadassah Medical School, Jerusalem 91120, Israel. Electronic address: yossibug@ekmd.huji.ac.il.
Styliani MarkoulakiWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
Niek van WietmarschenEuropean Research Institute for the Biology of Ageing, University Medical Center Groningen, University of Groningen, Antonius Deusinglaan 1, AV Groningen 9713, the Netherlands.
Heather HokeWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Tao WuYale Stem Cell Center, Yale University, New Haven, CT 06520, USA.
Kibibi GanzWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
Batool Akhtar-ZaidiWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
Yupeng HeGenomic Analysis Laboratory, Howard Hughes Medical Institute, Salk Institute for Biological Studies, La Jolla, CA 92037, USA.
Brian J AbrahamWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
David PorubskyEuropean Research Institute for the Biology of Ageing, University Medical Center Groningen, University of Groningen, Antonius Deusinglaan 1, AV Groningen 9713, the Netherlands.
Elisabeth KulenkampffWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
Dina A FaddahWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Linyu ShiWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
Qing GaoWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
Sovan SarkarWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
Malkiel CohenWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
Johanna GoldmannWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
Joseph R NeryGenomic Analysis Laboratory, Howard Hughes Medical Institute, Salk Institute for Biological Studies, La Jolla, CA 92037, USA.
Matthew D SchultzGenomic Analysis Laboratory, Howard Hughes Medical Institute, Salk Institute for Biological Studies, La Jolla, CA 92037, USA.
Joseph R EckerGenomic Analysis Laboratory, Howard Hughes Medical Institute, Salk Institute for Biological Studies, La Jolla, CA 92037, USA.
Andrew XiaoYale Stem Cell Center, Yale University, New Haven, CT 06520, USA.
Richard A YoungWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA; Skolkovo Institute of Science and Technology (Skoltech), Novaya strazha 100, Skolkovo Moscow Region 143025, Russia.
Peter M LansdorpEuropean Research Institute for the Biology of Ageing, University Medical Center Groningen, University of Groningen, Antonius Deusinglaan 1, AV Groningen 9713, the Netherlands; Skolkovo Institute of Science and Technology (Skoltech), Novaya strazha 100, Skolkovo Moscow Region 143025, Russia.
Rudolf JaenischWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA; Skolkovo Institute of Science and Technology (Skoltech), Novaya strazha 100, Skolkovo Moscow Region 143025, Russia. Electronic address: jaenisch@wi.mit.edu.
Whitehead Institute for Biomedical Research · USHoward Hughes Medical Institute · USUniversity Medical Center Groningen · NLMassachusetts Institute of Technology · USSalk Institute for Biological Studies · USYale Cancer Center · USYale University · US

Funding

VIRUS PRODUCTION COREP30CA014051 · NCI · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI Jacqueline A. Lees · 1985 to 2026
$93.9M
Yale University Clinical and Translational Science Award ProgramUL1TR000142 · NCATS · YALE UNIVERSITY · PI SHERWIN, ROBERT S · 2012 to 2015
$31.8M
GENOMIC IMPRINTING AND THE CLONING OF MICER37CA084198 · NCI · WHITEHEAD INSTITUTE FOR BIOMEDICAL RES · PI JAENISCH, RUDOLF · 2000 to 2008
$9.2M
In Vitro Reprogramming of Somatic Cells into Pluripotent ES-like CellsR37HD045022 · NICHD · WHITEHEAD INSTITUTE FOR BIOMEDICAL RES · PI JAENISCH, RUDOLF · 2009 to 2017
$7.5M
Nuclear Cloning and the Reprogramming of the GenomeR01HD045022 · NICHD · WHITEHEAD INSTITUTE FOR BIOMEDICAL RES · PI JAENISCH, RUDOLF · 2003 to 2008
$4.7M
Programming and Reprogramming Human CellsR01CA084198 · NCI · WHITEHEAD INSTITUTE FOR BIOMEDICAL RES · PI JAENISCH, RUDOLF · 2009 to 2013
$4.3M
Utilizing single cell approaches to decipher the mechanism underlying somatic celF32GM099153 · NIGMS · WHITEHEAD INSTITUTE FOR BIOMEDICAL RES · PI BOUGANIM, YOSEPH DAVID · 2012 to 2013
$103k
Howard Hughes Medical InstituteNCATS NIH HHS UL1 TR000142NCI NIH HHS P30 CA014051NCI NIH HHS R01 CA084198NCI NIH HHS R37 CA084198NCI NIH HHS R37CA084198NICHD NIH HHS HD 045022NICHD NIH HHS R01 HD045022NICHD NIH HHS R37 HD045022NIGMS NIH HHS 1 F32GM099153-01A1NIGMS NIH HHS F32 GM099153
6 · The paper itself

Abstract

Induced pluripotent stem cells (iPSCs) are commonly generated by transduction of Oct4, Sox2, Klf4, and Myc (OSKM) into cells. Although iPSCs are pluripotent, they frequently exhibit high variation in terms of quality, as measured in mice by chimera contribution and tetraploid complementation. Reliably high-quality iPSCs will be needed for future therapeutic applications. Here, we show that one major determinant of iPSC quality is the combination of reprogramming factors used. Based on tetraploid complementation, we found that ectopic expression of Sall4, Nanog, Esrrb, and Lin28 (SNEL) in mouse embryonic fibroblasts (MEFs) generated high-quality iPSCs more efficiently than other combinations of factors including OSKM. Although differentially methylated regions, transcript number of master regulators, establishment of specific superenhancers, and global aneuploidy were comparable between high- and low-quality lines, aberrant gene expression, trisomy of chromosome 8, and abnormal H2A.X deposition were distinguishing features that could potentially also be applicable to human.

Indexed as

Cellular ReprogrammingAnimalsCell LineChimeraChromosomes, Human, Pair 8DNA MethylationEmbryonic Stem CellsEnhancer Elements, GeneticGene Expression ProfilingGenomeHistonesHumansInduced Pluripotent Stem CellsKruppel-Like Factor 4Mice, Inbred C57BLMice, Inbred DBAgamma-H2AX protein, mouseHistonesKLF4 protein, humanKlf4 protein, mouseKruppel-Like Factor 4RNA, MessengerTranscription Factors

Identifiers

PMID25192464
PMCPMC4170792
OpenAlexW2083775070

What OpenQuestion holds

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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.