Induced pluripotent stem cells (ipscs)

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Organisms

Homo sapiens (1028)
Mus musculus (222)
Callithrix jacchus (10)
Sus scrofa (10)
Rattus norvegicus (6)
Macaca fascicularis (4)
Canis lupus familiaris (3)
Macaca mulatta (2)
synthetic construct (2)
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Tissue

Cell culture (31)
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Disease

Disease free (6)
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Schizophrenia (1)
COVID-19 (1)
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Technology Type

Mass Spectrometry (92)
Shotgun proteomics (55)
Data-independent acquisition (17)
Bottom-up proteomics (15)
Data-dependent acquisition (9)
Illumina HiSeq 2000 (5)
SWATH MS (3)
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Affinity purification coupled with mass spectrometry proteomics (3)
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HDMSE (2)
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ILLUMINA, Illumina HiSeq 2500 (1)
NMR spectroscopy (1)
Mass spectrometry (1)
DiaPASEF (1)

Instrument Platform

Illumina NovaSeq 6000 (28)
Illumina HiSeq 4000 (16)
NextSeq 500 (16)
Illumina HiSeq 2500 (14)
Illumina HiSeq 2000 (9)
NextSeq 2000 (4)
Sequel IIe (2)
PromethION (2)
Illumina NovaSeq X (2)
NA (2)
MinION (2)
Illumina HiSeq 1500 (2)
NextSeq 550 (2)
RiboErase Roche (1)
Qiagen RNaesy kit (1)
High-performance computing workstation (1)
Protocol computer workstation running R statistical software (1)
Thermal cycler (PCR); Covaris ME220 focused ultrasonicator; magnetic separation rack; Agilent TapeStation system (D5000 and D1000 ScreenTape assays); Qubit fluorometer or equivalent; microcentrifuge. (1)
JANUS® G3 MDT automated liquid handling workstation (PerkinElmer); thermal cycler or incubator (42 °C); Zymo DNA Clean & Concentrator columns; AMPure XP magnetic bead purification system; magnetic separation rack. (1)
Multichannel pipettes or automated liquid handler; 384-well tissue culture plates; Class II biological safety cabinet; CO₂ incubator (37 °C, 5% CO₂). (1)
Cutadapt, STAR (1)
TruSeq Stranded mRNA Sample Prep Kit (Illumina) (1)
BD InFlux Cytometer (Becton-Dickinson) (1)
Qubit instrument, DNA HS kit (1)
High Sensitivity DNA kit (1)
BioRad SureCell (1)
10X Genomics Chromium (1)
Illumina Hiseq 2500 (1)
Unspecified (1)
NextSeq 1000 (1)

Publication Date

2014 (152)
2015 (144)
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2016 (121)
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2013 (103)
2020 (85)
2019 (82)
2012 (77)
2017 (75)
2018 (73)
2011 (64)
2010 (53)
2009 (9)

CHEBI ID

CHEBI:17824 (1)
CHEBI:89698 (1)
CHEBI:68567 (1)
CHEBI:28797 (1)
CHEBI:6359 (1)
CHEBI:17790 (1)
CHEBI:16236 (1)
CHEBI:15824 (1)
CHEBI:25523 (1)
CHEBI:36313 (1)
CHEBI:4170 (1)
CHEBI:30794 (1)
CHEBI:17170 (1)
CHEBI:16830 (1)
CHEBI:17287 (1)
CHEBI:43433 (1)
CHEBI:37373 (1)
CHEBI:28315 (1)
CHEBI:15422 (1)
CHEBI:13389 (1)
CHEBI:17268 (1)
CHEBI:1148 (1)
CHEBI:18183 (1)
CHEBI:422 (1)
CHEBI:17115 (1)
CHEBI:17053 (1)
CHEBI:18295 (1)
CHEBI:16856 (1)
CHEBI:30751 (1)
CHEBI:17202 (1)

Metabolite Name

Pyroglutamic acid (2)
Phosphocreatine (2)
Folic acid (2)
Creatinine (2)
Adenosine (2)
Taurine (2)
D-Glucose (2)
Succinic acid (2)
Xanthine (2)
Inosine (2)
N2-Succinyl-glutamic acid (1)
C5H7NO3 (1)
C5H8N2O5 (1)
C11H18N3O6 - Ophthalmic acid ? (1)
C5H8O5 (1)
Citra/Gluta/Ita-conic acid 1 (1)
C4H6O4 - diacid (1)
C14H17N5O8 (N6-succinyladenosine ?) (1)
C5H9NO3 (1)
C6H11NO3 (1)
C7H11NO6 (1)
C6H8O6 (1)
C5H8O2 (1)
Methylaconitate isomer 4 (1)
3-Amino(iso)butanoic acid (1)
Methylaconitate isomer 3 (1)
C9H9NO4 (1)
Methylaconitate isomer 2 (1)
C7H10O5 (1)
Acetylneuraminic acid isomer 2 (1)

IsPrivate

False (1)

First Public Date

2024 (188)
2014 (183)
2025 (172)
2023 (143)
2026 (124)
2022 (112)
2021 (102)
2020 (93)
2019 (92)
2017 (82)
2018 (81)
2015 (70)
2016 (38)
2013 (17)
2011 (2)

Modelling Approach

Ordinary differential equation model (1)

Modification

6-dioxaoctanediamine derivatized cysteine (1)

Study type

Transcription profiling by array (265)
RNA-seq of coding RNA (100)
ChIP-seq (38)
Methylation profiling by array (31)
RNA-seq of coding RNA from single cells (27)
Comparative genomic hybridization by array (15)
Methylation profiling by high throughput sequencing (11)
RNA-seq of non coding RNA (6)
Cell line - High-throughput sequencing (5)
Other (4)
DNA-seq (4)
RNA-seq of total RNA (4)
Cell line - Single-cell sequencing (3)
Genotyping by array (3)
Transcription profiling by RT-PCR (3)
Baseline (2)
Human - High-throughput sequencing (2)
ATAC-seq (2)
Unknown experiment type (1)
ChIP-chip by tiling array (1)
Cell line - One-color microarray (1)
Trajectory (1)
MicroRNA profiling by high throughput sequencing (1)
Hi-C (1)
ScATAC-seq (1)

Release Date

2021 (336)
2022 (326)
2023 (315)
2020 (285)
2025 (280)
2024 (260)
2014 (257)
2019 (255)
2016 (255)
2015 (246)
2017 (232)
2018 (230)
2013 (136)
2012 (123)
2011 (73)
2010 (57)
2026 (36)
2009 (13)

Lab affiliation

The Wilmer Eye Institute, Johns Hopkins University School of Medicine, Baltimore, Maryland 21287 USA (3)
Lab of Neuroproteomics, Department of Biochemistry and Tissue Biology, Institute of Biology, University of Campinas (UNICAMP), Campinas, Brazil. (2)
Chemistry I, Department of Medical Biochemistry and Biophysics, Karolinska Institutet SE 17177 Stockholm, Sweden. Department of Pharmacological & Technological Chemistry, I.M. Sechenov First Moscow State Medical University, Moscow, 119146, Russia. (2)
College of Life Sciences, University of Dundee (2)
School of Medicine, University College Dublin, Belfield, Dublin 4, Ireland (2)
University of Manchester (2)
Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Oncode Institute, Radboud University Nijmegen, 6525 GA Nijmegen, The Netherlands (2)
Hannover Medical School Institute for Clinical Biochemistry (OE 4340) Carl-Neuberg-Strasse 1 Building J03, Level 04, Room 1291 (Office), Room 1250 (Lab) 30625 Hannover (1)
Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, 91125, United States (1)
Center for Network Systems Biology, Boston University (1)
Principal Investigator „Stem Cell Metabolism“ Group Department of General Pediatrics, Neonatology, and Pediatric Cardiology University Clinic Düsseldorf (UKD), Heinrich Heine University (HHU) Moorenstraße 5, 40225 Düsseldorf, Germany Building 13.41, Level 3, Room 29 (1)
Department of Vascular Dysfunction, European Center for Angioscience, Medical Faculty Mannheim, Heidelberg University, Ludolf-Krehl-Straße 7-11, 68167 Mannheim, Germany. Department of Vascular Dysfunction, European Center for Angioscience, Medical Faculty Mannheim, Heidelberg University, Ludolf-Krehl-Straße 7-11, 68167 Mannheim, Germany. (1)
federal university of rio de janeiro (1)
Professor for Translational Epigenetics, Institute of Pathology, University Medical Center Germany (1)
Center for Regenerative Medicine, Boston University and Boston Medical Center, Boston, MA 02118, USA The Pulmonary Center and Department of Medicine, Boston University School of Medicine, Boston, MA 02118, USA (1)
Laboratory of RNA Biology Institute of Molecular Genetics of the Czech Academy of Sciences Prague, Czechia (1)
Murdoch Children’s Research Institute, Melbourne (1)
KG Jebsen Center for Diabetes Research, Department of Clinical Medicine, University of Bergen, Bergen N-5009, Norway (1)
Center for Network Systems Biology, Boston University, USA (1)
School of Biology, Aristotle University of Thessaloniki, 54124 Thessaloniki (1)
Department of Pathology, Johns Hopkins Medical School, USA (1)
Institute for Genetics and Cologne Excellence Cluster for Cellular Stress Responses in Aging-Associated Diseases (CECAD) University of Cologne Joseph Stelzmann Strasse 26 50931 Cologne, Germany Phone number: +49 22147884172 Fax number: +49 221 478 84045 E-mail: dvilchez@uni-koeln.de (1)
Bioanalytical Mass Spectrometry, Max Planck Institute for Molecular Biomedicine, Röntgenstr. 20, 48149 Münster, Germany (1)
College of Veterinary Medicine, Shaanxi Centre of Stem Cells Engineering & Technology, Northwest A&F University, Yangling, Shaanxi, 712100, China (1)
Molecular Mechanisms of Disease Research Group, Malopolska Centre of Biotechnology, Jagiellonian University, 30-387 Krakow, Poland (1)
Molecular Proteomics Laboratory, Biological Medical Research Center, Heinrich-Heine-University Düsseldorf, 40225 Düsseldorf, Germany (1)
Max Planck Institute for Molecular Biomedicine Biomolecular Mass Spectrometry Unit Röntgenstr. 20 D-48149 Münster Germany (1)
Department of Genetics, Harvard Medical School, Boston, MA 02115 (1)
Proteomics Core Facility, Biozentrum, University of Basel, Spitalstrasse 41, CH-4056 Basel / Switzerland, Phone: +41 61 207 20 59, email: alex.schmidt@unibas.ch (1)
Department of Medicine, Division of Cardiology, University of of Colorado Anschutz Medical Campus, Aurora, CO Consortium for Fibrosis Research & Translation, University of of Colorado Anschutz Medical Campus, Aurora, CO (1)

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1H NMR metabolite monitoring during the differentiation of human induced pluripotent stem cells provides new insights into the molecular events that regulate embryonic chondrogenesis

The integration of cell metabolism with signalling pathways, transcription factor networks and epigenetic mediators is critical in coordinating molecular and cellular events during embryogenesis. Induced pluripotent stem cells (IPSCs) are an established model for embryogenesis, germ layer specificat...

2023-05-24 | MTBLS4854 | MetaboLights

Generation of Naïve Induced Pluripotent Stem Cells from Rhesus Monkey Fibroblasts

Conventional embryonic stem cells (ESCs) or induced pluripotent stem cells (iPSCs) derived from primates resemble mouse epiblast stem cells, raising an intriguing question regarding whether the naïve pluripotent state resembling mouse embryonic stem cells (mESCs) exists in primates and how to captur...

ORGANISM(S): Macaca mulatta

2014-10-14 | E-GEOD-61420 | biostudies-arrayexpress

Transcription profiling of human induced pluripotent stem cells signature and memory retention

Transient expression of two factors, or from Oct4 alone, resulted in efficient generation of human iPSCs. The reprogramming strategy described revealed a potential transcriptional signature for human iPSCs yet retaining the gene expression of donor cells in human reprogrammed cells free of viral and...

ORGANISM(S): Homo sapiens

2009-12-19 | E-GEOD-18618 | biostudies-arrayexpress

Grafting induced pluripotent stem cells-derived tenocytes contribute to recovery of motor function after Achilles tendon rupture in rat

Self-renewal of tendons is rare since the vascular formation inside is extremely poor, thus reconstructive surgery using autologous tendons has been often taken place in the case of severe injury. However, the rate of re-injury after surgery is relatively high, and collection of autologous tendons l...

ORGANISM(S): Homo Sapiens (human)

PXD020887 | JPOST Repository

Nanog is Dispensable for the Generation of Induced Pluripotent Stem Cells

Cellular reprogramming from somatic cells to induced pluripotent stem cells (iPSCs) can be achieved through forced expression of the transcription factors Oct4, Klf4, Sox2 and c-Myc (OKSM). These factors, in combination with environmental cues, induce a stable intrinsic pluripotency network that con...

ORGANISM(S): Mus musculus

2014-01-28 | E-GEOD-53832 | biostudies-arrayexpress

Large intergenic non-coding RNAs as novel modulators of reprogramming: human embryonic stem cells, CD34+ cells, and CD34+ derived induced pluripotent stem cells (LincRNA expression)

LincRNA expression profiles of human embryonic stem cells, CD34+ cells, and CD34+ derived induced pluripotent stem cells Total RNA was extracted from human ESCs, CD34+ cells, and CD34+ derived iPSC lines, then hybridized to Nimblegen tiling array GPL8792; Human lincRNA 391k Tiling Array V2

ORGANISM(S): Homo sapiens

2010-11-10 | E-GEOD-23970 | biostudies-arrayexpress

Large intergenic non-coding RNAs as novel modulators of reprogramming: human embryonic stem cells, fibroblasts, and fibroblast-derived induced pluripotent stem cells (LincRNA expression)

Expression profiling of non coding RNAs using tilling arrays from ES, Fibroblasts and Fibroblasts derived iPSC LincRNA profiles of human embryonic stem cells, fibroblasts, and fibroblast-derived induced pluripotent stem cells Total RNA was extracted from human ESCs, fibroblast, and fibroblast-derive...

ORGANISM(S): Homo sapiens

2010-11-10 | E-GEOD-24181 | biostudies-arrayexpress

Targeted correction of RUNX1 mutation in FPD patient-specific induced pluripotent stem cells rescues megakaryopoietic defects

Familial platelet disorder with predisposition to acute myeloid leukemia (FPD/AML) is an autosomal dominant disease of the hematopoietic system, which is caused by heterozygous mutations in RUNX1. FPD/AML patients have a bleeding disorder characterized by thrombocytopenia with reduced platelet numb...

ORGANISM(S): Homo sapiens

2014-07-01 | E-GEOD-54295 | biostudies-arrayexpress

Chromatin Structure and Gene Expression Programs of Human Embryonic and Induced Pluripotent Stem Cells

This SuperSeries is composed of the following subset Series: GSE23402: Chromatin Structure and Gene Expression Programs of Human Embryonic and Induced Pluripotent Stem Cells (Affymetrix) GSE23455: Chromatin Structure and Gene Expression Programs of Human Embryonic and Induced Pluripotent Stem Cells ...

ORGANISM(S): Homo sapiens

2010-08-08 | E-GEOD-22499 | biostudies-arrayexpress

Erythroid differentiation of human induced pluripotent stem cells is independent of donor cell type of origin

Epigenetic memory in induced pluripotent stem cells (iPSCs), with regards to their somatic cell type of origin, might lead to variations in their differentiation capacities. In this context, iPSCs from human CD34+ hematopoietic stem cells (HSCs) might be more suitable for hematopoietic differentiati...

ORGANISM(S): Homo sapiens

2015-02-20 | E-GEOD-55109 | biostudies-arrayexpress

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