Patient derived organoid

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Unknown (1376)
Genomics (591)
Transcriptomics (338)
Proteomics (54)
Other (8)
Metabolomics (8)
Clinical (7)
Methylation profiling (5)
Genomic (2)

Organisms

Homo sapiens (472)
Allexis (30)
Arabidopsis thaliana (30)
Callinectes sapidus (30)
Ctenopharyngodon idella (30)
Danio rerio (30)
Drosophila (30)
Drosophila melanogaster (30)
Ensifer adhaerens (30)
Entamoeba histolytica (30)
Escherichia coli (30)
Leishmania major strain Friedlin (30)
Listeria monocytogenes (30)
Medicago truncatula (30)
Methylohalobius crimeensis 10Ki (30)
Mus musculus (30)
Mycobacterium tuberculosis (30)
Oryza sativa Indica Group (30)
Physcomitrium patens (30)
Pseudomonas fluorescens WH6 (30)
Pseudomonas putida KT2440 (30)
Rattus norvegicus (30)
Saccharomyces cerevisiae (30)
Schizosaccharomyces pombe (30)
Schizosaccharomyces pombe 972h- (30)
Mus musculus (24)
Canis lupus familiaris (3)
Thermoplasma acidophilum DSM 1728 (1)
Pan troglodytes (1)
Pan paniscus (1)

Organisms

Homo sapiens (360)
Mus musculus (24)
Canis lupus familiaris (3)
Mammalia (1)
unidentified (1)

Repository

ENA (460)
geo (260)
EGA (114)
biostudies-arrayexpress (107)
pride (30)
iProX (12)
MassIVE (10)
MetaboLights (8)
dbGaP (2)
jPOST (2)
EVA (1)

Tissue

Cell culture (8)
Colon (5)
Epithelial cell (3)
Kidney (3)
Permanent cell line cell (3)
Brain (2)
Malignant cell (2)
Neural cell (2)
Pluripotent stem cell (2)
B cell (1)
Bladder (1)
Colon epithelial cell (1)
Fibroblast (1)
Liver (1)
Melanocyte (1)
Midbrain (1)
Ovary (1)
Pancreas (1)
Pancreatic acinar cell (1)
Pancreatic duct (1)
Pancreatic ductal adenocarcinoma cell line (1)
Pancreatic ductal cell (1)
Pancreatic stellate cell (1)
Primary cell (1)
Retina (1)
Skeletal muscle myoblast in skeletal muscle (1)
Stem cell (1)
Stomach (1)
Urinary bladder cancer cell (1)

Disease

Colon cancer (6)
Renal cell carcinoma (3)
Breast cancer (2)
Schizophrenia (2)
Normal (1)
Malignant neoplasm of stomach (1)
Carcinoma, Ovarian Epithelial (1)
Metastatic Colorectal Cancer (1)
Carcinoma, Hepatocellular (1)
Carcinoma (1)
Colorectal cancer (1)
Colorectal Neoplasms (1)
Bladder transitional cell carcinoma (1)
Brain cancer (1)
Brain glioblastoma multiforme (1)
Cholangiocarcinoma (1)
Congenital disorder of glycosylation (1)
Duchenne muscular dystrophy (1)
Leigh disease (1)
Melanoma (1)
Night blindness (1)
Ovarian cancer (1)
Pancreas adenocarcinoma (1)
Pancreatic carcinoma (1)
Pancreatic ductal carcinoma (1)
Rectum cancer (1)
Stomach carcinoma (1)
Urinary bladder cancer (1)

Technology Type

Mass Spectrometry (30)
Shotgun proteomics (14)
Bottom-up proteomics (7)
Mass spectrometry assay (4)
Mass spectrometry (4)
Affinity purification coupled with mass spectrometry proteomics (4)
Data-dependent acquisition (4)
Data-independent acquisition (2)
Gel-based experiment (2)
HDMSE (2)
Immunopeptidomics (2)
HiSeq X Ten (ILLUMINA) (1)
ILLUMINA, HiSeq X Ten (1)
HiSeq X Ten, ILLUMINA, Illumina HiSeq 2500 (1)
ILLUMINA, Illumina MiSeq (1)
HiSeq X Ten (1)
Illumina HiSeq 2000, ILLUMINA, Illumina HiSeq 2500 (1)
Top-down proteomics (1)

Instrument Platform

Illumina NovaSeq 6000 (27)
Illumina HiSeq 2500 (13)
NextSeq 500 (12)
Illumina HiSeq 4000 (8)
NextSeq 550 (4)
Orbitrap Exploris 480 (4)
Liquid Chromatography MS - positive - reverse phase (3)
DNBSEQ-T7 (2)
Illumina HiSeq 1500 (2)
Orbitrap Fusion Lumos (2)
DNBelab C Series High-throughput Single-cell RNA Library Preparation Set V3.0 (MGI Tech) (1)
DNBelab C-TaiM droplet generator (MGI Tech) (1)
Avatarget 12-well dual-chamber organ-on-chip system; AvatarFlow Organ Chip Flow Initiation Controller System (Avatarget Co., Ltd., Suzhou, China) (1)
Chromium Controller, 10x Genomics and Chromium X, 10x Genomics (1)
Chromium Controller, 10x Genomics and Chromium X, 10x Genomics (1)
Cell culture (1)
IEO HPC (1)
MACS (1)
BD FACSARIA II (1)
Illumina NovaSeq X (1)
None (1)
N/A (1)
NextSeq 2000 (1)
DNBSEQ-G400 (1)
Illumina HiSeq 2000 (1)
Orbitrap Fusion (1)
Q Exactive HF-X (1)
Q Exactive Plus (1)
QTRAP 5500 (1)
TimsTOF Pro (1)

Publication Date

2025 (80)
2026 (78)
2024 (58)
2021 (47)
2023 (43)
2022 (35)
2020 (24)
2019 (14)
2018 (13)
2017 (6)
2016 (6)
2014 (6)
2013 (5)
2011 (4)
2015 (2)
2012 (2)
2009 (1)
2004 (1)

CHEBI ID

CHEBI:46905 (2)
CHEBI:17927 (2)
CHEBI:16977 (2)
CHEBI:16335 (2)
CHEBI:18050 (2)
CHEBI:61553 (1)
CHEBI:16959 (1)
CHEBI:142699 (1)
CHEBI:77462 (1)
CHEBI:136579 (1)
CHEBI:132957 (1)
CHEBI:137597 (1)
CHEBI:132676 (1)
CHEBI:132673 (1)
CHEBI:136186 (1)
CHEBI:136239 (1)
CHEBI:140362 (1)
CHEBI:141590 (1)
CHEBI:141589 (1)
CHEBI:37736 (1)
CHEBI:18105 (1)
CHEBI:136259 (1)
CHEBI:136256 (1)
CHEBI:28664 (1)
CHEBI:67077 (1)
CHEBI:85568 (1)
CHEBI:85566 (1)
CHEBI:66858 (1)
CHEBI:74473 (1)
CHEBI:136203 (1)

Metabolite Name

Carnitine (3)
Acetylcarnitine (3)
Stearylcarnitine (2)
Stylopine (2)
Oleylcarnitine (2)
Gramine (2)
Juglone (2)
Niflumic acid (2)
Indole-3-pyruvic acid (2)
Methylcysteine (2)
His-Pro (2)
Tetradecanoylcarnitine (2)
N-Acetylserine (2)
Anserine (2)
L-Norleucine (2)
Histidine (2)
Leucine (2)
Glutarylcarnitine (2)
Dimethylglycine (2)
Gamma-Linolenic acid (2)
Methylsuccinic acid (2)
4-Hydroxyproline (2)
Indole-3-acetaldehyde (2)
Betaine (2)
L-Lysine (2)
Homocitrulline (2)
Citrulline (2)
1-Aminocyclohexanecarboxylic acid (2)
Indolelactic acid (2)
Oxoadipic acid (2)

First Public Date

2026 (101)
2025 (92)
2024 (69)
2023 (47)
2022 (43)
2021 (42)
2020 (26)
2018 (19)
2019 (14)
2017 (5)
2015 (1)
2014 (1)

Study status

Recruiting (4)
Not yet recruiting (1)
Not provided (1)
Completed (1)

Study type

RNA-seq of coding RNA (27)
RNA-seq of coding RNA from single cells (23)
Transcription profiling by array (21)
Cell line - High-throughput sequencing (6)
Methylation profiling by array (5)
Interventional (4)
Human - High-throughput sequencing (3)
Human - One-color microarray (3)
Genotyping by array (3)
Observational (3)
High-throughput sequencing (2)
Comparative genomic hybridization by array (2)
DNA-seq (2)
RNA-seq of total RNA (2)
Cell line - Single-cell sequencing (1)
Differential (1)
Cell line - One-color microarray (1)
MicroRNA profiling by high throughput sequencing (1)
ATAC-seq (1)
ScATAC-seq (1)
Single nucleus RNA sequencing (1)
CUT&RUN (1)

Release Date

2024 (587)
2025 (219)
2023 (152)
2021 (136)
2022 (127)
2020 (85)
2019 (50)
2026 (42)
2018 (39)
2017 (11)
2016 (9)
2013 (7)
2014 (6)
2011 (5)
2015 (4)
2012 (2)
2009 (1)
2004 (1)

Lab affiliation

Lab of Neuroproteomics, Department of Biochemistry and Tissue Biology, Institute of Biology, University of Campinas (UNICAMP), Campinas, SP, Brazil (2)
1Cancer Research Program, Hospital del Mar Research Institute, Doctor Aiguader 88, Barcelona 08003, Spain. Centro de Investigación Biomédica en Red Cáncer (CIBERONC), Madrid, Spain. (1)
Acting Head of Proteomics (1)
Bavarian Center for Biomolecular Mass Spectrometry (BayBioMS) Technical University Munich (TUM) Gregor-Mendel-Strasse 4 85354 Freising GERMANY (1)
Baylor College of Medicine (1)
Bioanalytical Mass Spectrometry Group, Max-Planck-Institute for Biophysical Chemistry Department of Clinical Chemistry, University Medical Center Goettingen (1)
Bioanalytical Mass Spectrometry Group,Max-Planck-Institute for Multidisciplinary Sciences,Goettingen, Germany (1)
Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Padualaan 8, 3584 CH Utrecht, the Netherlands (1)
Cell Signalling & Proteomics Group, Barts Cancer Institue, Queen Mary University of London, London, UK (1)
Daglig leder, PROMEC Institutt for klinisk og molekylær medisin lars.hagen@ntnu.no 73598508 72573342 Laboratoriesenteret, 231.04.008, Øya, Erling Skjalgssons gate 1 (1)
Department of Laboratory Medicine and Pathology Mayo Clinic, Rochester, Minnesota 55905 United States (1)
Department of Pathology, Medical University of Vienna, Austria (1)
Department of Surgery, Erasmus MC-University Medical Center, Rotterdam, The Netherlands. (1)
Dept. Oncology-Pathology, Scilifelab, Karolinska Institutet, Stockholm, Sweden (1)
Dept. Oncology-Pathology, Scilifelab, Karolinska Institutet, Sweden (1)
Division of Medical Oncology, Department of Internal Medicine, Yonsei Cancer Center, Yonsei University College of Medicine, Seoul, South Korea (1)
Division of Molecular Genetics, the Netherlands Cancer Institute, the Netherlands (1)
Head of Proteomics Unit Spanish National Cancer Research Centre (CNIO) Address: Melchor Fernández Almagro, 3. 28029 Madrid. SPAIN Phone: +34 917 328 000 Ext. 3110 (1)
Institut Gustave Roussy, Inserm U1279 (1)
McGill University Department of Pharmacology and Therapeutics Centre de Recherche en Biologie Structurale (1)
Medizinisches Proteom-Center, Medical Faculty, Ruhr-University Bochum, 44801 Bochum, Germany; 44801 Bochum, Germany (1)
Molecular Cancer Research, Center for Molecular Medicine, University Medical Center Utrecht, Utrecht, The Netherlands (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)
Proteomics Center, Erasmus University Medical Center (1)
Proteomics Core Facillity, Biozentrum, University of Basel 4056 Basel, Switzerland (1)
Proteomics of Stem Cells and Cancer (B230) German Cancer Research Center (DKFZ) Heidelberg University Im Neuenheimer Feld 581 69120 Heidelberg Germany (1)
Strand Leader BENM, Lloyd Sansom Chair Future Industries Institute, UniSA (1)
The First Affiliated Hospital of Jinan University (1)
The Jackson Laboratory For Genomic Medicine (1)

Location

China (2)
Hong Kong (1)
Singapore (1)
Germany (1)
Australia (1)
France (1)

Keyword

Organoid (2)
Drug Test (1)
Irinotecan (1)
Leucovorin (1)
Fluorouracil (1)
Oxaliplatin (1)

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Metabolomic Profiling of Personalized Cancer Therapy Responses in Organoid Chips

This study investigates metabolomic changes associated with personalized cancer therapy responses in patient-derived organoid chips containing a reconstructed tumor microenvironment. The dataset includes de-identified sample metadata, raw mass spectrometry files, processed metabolite abundance ma...

2026-08-06 | MTBLS15195 | MetaboLights

Copy number profile of human prostate cancer organoid lines using Agilent 1M aCGH platform

Advanced prostate cancer is a highly heterogenous disease with few in vitro models. We report generation of seven novel 3D organoid lines of patient-derived prostate cancer. We determine the copy number alterations of these lines using array CGH. They contain may classic alterations of prostate canc...

ORGANISM(S): Homo sapiens

2014-09-09 | E-GEOD-60612 | biostudies-arrayexpress

Transcriptomic profiling of patient-derived endometrial cancer organoids (Berg HF)

Patient-derived endometrial cancer organoids. The data was used to compare gene expression profile between organoids, and to explore whether an organoid-derived gene signature could predict disease outcomes in independent patient cohorts.

ORGANISM(S): Homo sapiens

2021-07-16 | E-MTAB-10664 | biostudies-arrayexpress

Phosphoproteomics of Matrigel-embedded samples

Phosphoproteomics data of Matrigel-embedded HCT116 spheroid, and patient-derived colorecral cancer organoid

ORGANISM(S): Homo Sapiens (human)

2019-02-24 | PXD009032 | JPOST Repository

Bulk RNA-seq of MilliporeSigma 3DGro human patient-derived gastrointestinal organoid lines compared to SCC300 human iPSC-derived colon organoid line

Transcriptomic profiles of 6 commercially-available human patient-derived gastrointestinal organoid lines were obtained and compared to transcriptomic profile of a commercially available human iPSC-induced colon organoid line. Transcriptomic profile of iPSC-derived human colon organoid line was comp...

ORGANISM(S): Homo sapiens

2022-03-31 | E-MTAB-11557 | biostudies-arrayexpress

Integrated Proteomic Analysis of YCC-Derived Organoids

This dataset contains proteomic and phosphoproteomic profiles generated from YCC-derived organoid models. The study includes paired models established from the same patient-derived materials to investigate molecular differences associated with organoid growth and tumor-related biological features. I...

ORGANISM(S): Homo sapiens (Human)

2026-06-19 | PXD076305 | Pride

Organoid

Chronic Pancreatitis Patient-Derived Organoid Profiling

PRJNA1466550 | ENA

Chronic Pancreatitis Patient-Derived Organoid Profiling

PRJNA1466551 | ENA

Lineage recording in human cerebral organoids (microdissected)

Induced pluripotent stem cell (iPSC) derived organoid systems provide models to study human organ development. Single-cell transcriptome sequencing enables highly-resolved descriptions of cell state heterogeneity within these systems and computational methods can reconstruct developmental trajectori...

ORGANISM(S): Homo sapiens

2021-11-03 | E-MTAB-10973 | biostudies-arrayexpress

Lineage recording in human cerebral organoids (Visium)

ORGANISM(S): Homo sapiens

2021-11-03 | E-MTAB-10972 | biostudies-arrayexpress

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2389 Results

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