Solid biopsy - OmicsDI

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Unknown (646)
Genomics (85)
Transcriptomics (67)
Proteomics (37)
Clinical (20)
Metabolomics (8)
Other (5)
Genomic (3)
Methylation profiling (2)

Organisms

Homo sapiens (119)
Mus musculus (10)
Escherichia coli (8)
Rattus norvegicus (3)
Entamoeba histolytica (1)
Caenorhabditis elegans (1)
Canis lupus familiaris (1)
Sus scrofa (1)
Equus caballus (1)
Lentinus crinitus (1)
Sus scrofa domesticus (1)

Organisms

Homo sapiens (38)
Mammalia (3)
Canis lupus familiaris (1)
Mus musculus (1)

Repository

biostudies-arrayexpress (59)
ENA (53)
pride (33)
EGA (25)
geo (23)
MetaboLights (8)
dbGaP (3)
iProX (1)
MassIVE (1)
PanoramaPublic (1)

Tissue

Blood plasma (10)
Colon (5)
Kidney (5)
Cell culture (4)
Abdominal adipose tissue (3)
Brain (3)
Liver (3)
Lung (3)
Urine (3)
Blood serum (2)
Muscle (2)
Skeletal muscle (2)
Skin (2)
Testis (2)
Bile (1)
Bile duct (1)
Bladder (1)
Blood (1)
Blood platelet (1)
Blood-lymph (1)
Bone marrow (1)
Cartilage (1)
Cartilage tissue (1)
Cerebrospinal fluid (1)
Endometrioma cell (1)
Epithelial cell of endometrial gland (1)
Extracellular vesicle (1)
HEK-293T cell (1)
Leg muscle (1)
Lymph node (1)

Disease

Colon cancer (5)
Colorectal Neoplasms (4)
Neoplasms (3)
Brain cancer (3)
Carcinoma (2)
Brain glioblastoma multiforme (2)
Neuroblastoma (2)
Epithelioid mesothelioma (1)
Locally advanced rectal cancer (1)
Central nervous system cancer (1)
Breast Neoplasms (1)
Carcinoma, Non-Small-Cell Lung (1)
Carcinoma, Ovarian Epithelial (1)
Colorectal cancer (1)
Gastrointestinal Neoplasms (1)
Lymphoma (1)
Melanoma (1)
Meningioma (1)
Pathologically (histologically or cytologically) confirmed diagnosis of solid tumor (breast, lung, colorectal and head and neck) (1)
Patients older than 18 years with clinical suspicion of CMV colitis were enrolled. The criteria for clinically suspicious of CMV colitis included: i) presence of at least one of the risk factors, including human immunodeficiency virus infection, solid organ or hematologic stem cell transplantations, hematologic malignancy, inflammatory bowel disease, taking immunosuppressive agents or chemotherapy, and critically ill with multiple comorbidities, and ii) presenting with gastrointestinal tract symptoms, including abdominal pain, gastrointestinal bleeding, diarrhea, and bowel ileus (1)
Sarcoma (1)
Acute leukemia (1)
Childhood extraosseous osteosarcoma (1)
Cholangiocarcinoma (1)
Chronic bronchitis (1)
Embryonal rhabdomyosarcoma (1)
Fibrosarcoma (1)
Glioblastoma (1)
Head and neck cancer (1)
Hepatitis C (1)

Technology Type

Mass Spectrometry (33)
Shotgun proteomics (15)
Data-independent acquisition (9)
Bottom-up proteomics (8)
Data-dependent acquisition (7)
Mass spectrometry (5)
Mass spectrometry assay (3)
SWATH MS (3)
Gel-based experiment (2)
Illumina HiSeq 2500, ILLUMINA (1)
Illumina HiSeq 2500, Illumina HiSeq 4000, ILLUMINA, NextSeq 500 (1)
Illumina MiSeq (1)
DiaPASEF (1)
Top-down proteomics (1)

Instrument Platform

Liquid Chromatography MS - negative - reverse phase (5)
Liquid Chromatography MS - positive - reverse phase (5)
Illumina HiSeq 2000 (3)
Illumina NovaSeq 6000 (2)
NextSeq 500 (2)
Nanostring GeoMx® spatial profiler (1)
Gene Titan (1)
AB SOLiD System 3.0 (1)
10x Genomics CytAssist (1)
- (1)
Illumina HiSeq 2500 (1)
Illumina HiSeq 4000 (1)
AB 5500xl Genetic Analyzer (1)
Orbitrap Astral (1)
Liquid Chromatography MS - (1)
Liquid Chromatography MS - alternating - hilic (1)
Liquid Chromatography MS - negative - reverse-phase (1)
Liquid Chromatography MS - positive - reverse-phase (1)
MS Imaging - (1)
UHPLC-Q-TOF-MS (1)

Publication Date

2026 (17)
2024 (14)
2025 (10)
2013 (10)
2023 (9)
2010 (9)
2022 (8)
2016 (8)
2021 (6)
2020 (6)
2015 (5)
2014 (5)
2011 (4)
2018 (3)
2008 (3)
2019 (3)
2017 (2)
2012 (1)
2009 (1)
2005 (1)

CHEBI ID

CHEBI:15971 (2)
CHEBI:16919 (2)
CHEBI:17295 (2)
CHEBI:10072 (1)
CHEBI:1014 (1)
CHEBI:105799 (1)
CHEBI:116314 (1)
CHEBI:131430 (1)
CHEBI:131439 (1)
CHEBI:131886 (1)
CHEBI:131887 (1)
CHEBI:132001 (1)
CHEBI:132002 (1)
CHEBI:132006 (1)
CHEBI:132007 (1)
CHEBI:132481 (1)
CHEBI:132966 (1)
CHEBI:133179 (1)
CHEBI:133226 (1)
CHEBI:133325 (1)
CHEBI:133570 (1)
CHEBI:134270 (1)
CHEBI:134273 (1)
CHEBI:134428 (1)
CHEBI:134439 (1)
CHEBI:134487 (1)
CHEBI:134594 (1)
CHEBI:134648 (1)
CHEBI:135063 (1)
CHEBI:135234 (1)

Metabolite Name

1-Nonadecanoyl-glycero-3-phosphoserine (3)
4-Oxo-1-(3-pyridyl)-1-butanone (3)
5,6-Dihydrouridine (3)
6-Ethylchenodeoxycholic acid (3)
6-Hydroxymelatonin (3)
Embelin (3)
Glycyl-histidyl-arginyl-proline (3)
Ibuprofen glucuronide (3)
Lichenin (3)
Linatine (3)
O-Succinyl-L-homoserine (3)
Thromboxane (3)
Thymidine glycol (3)
Undecylenic acid (3)
(2E,8E)-10-hydroxydeca-2,8-dien-4-ynoylcarnitine (2)
(2S,2'S)-Pyrosaccharopine (2)
(2S,3S,4S,5R)-3,4,5-Trihydroxy-6-sulfooxyoxane-2-carboxylic acid (2)
(E)-indol-3-ylacetaldoxime (2)
(S)-2-Acetamido-3-(4-chlorophenyl)propanoic acid (2)
(S)-3-Sulfonatolactate (2)
(Z)-[(4-hydroxyphenyl)acetaldehyde oxime] (2)
1-(2-Furanyl)-1-propanone (2)
1-Ipomeanol (2)
1-Methylguanosine (2)
1-Octen-3-yl glucoside (2)
1-[(2R,3S,5R)-3,4-Dihydroxy-5-(hydroxymethyl)oxolan-2-yl]pyrimidine-2,4-dione (2)
1-[(5-Amino-5-carboxypentyl)amino]-1-deoxyfructose (2)
10-Formyldihydrofolate (2)
12-oxo-PDA (2)
12alpha-hydroxy-3-oxo-5beta-cholan-24-oic Acid (2)

First Public Date

2024 (13)
2026 (8)
2025 (6)
2023 (6)
2021 (6)
2014 (4)
2019 (3)
2017 (2)
2016 (2)
2022 (1)
2020 (1)
2015 (1)

Study status

Recruiting (8)
Completed (7)
Not yet recruiting (2)
Terminated (2)
Not provided (1)

Study type

Transcription profiling by array (30)
Interventional (10)
RNA-seq of coding RNA (9)
Observational (9)
Comparative genomic hybridization by array (4)
Spatial transcriptomics by high-throughput sequencing (3)
Methylation profiling by array (3)
Other (2)
DNA-seq (2)
RNA-seq of non coding RNA (2)
Proteomic profiling by mass spectrometer (1)
Genotyping by array (1)
ChIP-seq (1)
Genotyping by high throughput sequencing (1)
Observational patient registry (1)

Release Date

2022 (106)
2023 (94)
2021 (88)
2025 (84)
2024 (61)
2020 (51)
2019 (41)
2016 (32)
2017 (30)
2018 (24)
2015 (17)
2013 (17)
2014 (14)
2010 (11)
2026 (11)
2011 (9)
2008 (5)
2012 (3)
2009 (2)
2005 (2)
2007 (1)
2003 (1)
2000 (1)

Lab affiliation

1 Interdisciplinary Research Center on Biology and Chemistry, State Key Laboratory of Chemical Biology, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 201210, China 2 Shanghai Academy of Natural Sciences (SANS), Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 201210, China (2)
IFOM (2)
1 Interdisciplinary Research Center on Biology and Chemistry, State Key Laboratory of Chemical Biology, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 201210, China 2 Shanghai Academy of Natural Sciences (SANS), Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 201210, China (lab head) (1)
1)Department of Pediatrics III, University Hospital Essen, Hufelandstrasse 55, 45147 Essen, Germany. 2)Department of General, Visceral, Vascular and Transplant Surgery, Medical Faculty, University Hospital Essen, Hufelandstrasse 55, 45147 Essen, Germany. (1)
1. Gene Regulation, Stem Cells and Development group, PTS, Granada GENyO, Pfizer-University of Granada-Andalusian Regional Government Centre for Genomics and Oncological Research, Avenida de la Ilustración 114, 18016 Granada, Spain. 2. Department of Biochemistry and Molecular Biology I, Faculty of Science, University of Granada, Avenida Fuentenueva s/n, 18071 Granada, Spain. 3. Instituto de Investigación Biosanitaria ibs.GRANADA, Granada, Spain. (1)
1Instituto de Ciências Biomédicas, Departamento de Parasitologia, Universidade de São Paulo, USP, São Paulo, Brazil. (1)
Cancer Biology and Epigenetics Group, Research Center of IPO Porto (CI-IPOP), Portuguese Oncology Institute of Porto, Porto, Portugal (1)
Center of Experimental Rheumatology, Department of Rheumatology, University Hospital, University of Zurich, Zurich, Switzerland (1)
Centre for Craniofacial and Regenerative Biology, King's College London, Guy's Hospital, United Kingdom (1)
Departamento de Bioquímica Setor de Ciências Biológicas Centro Politécnico Universidade Federal do Paraná BRAZIL (1)
Department of Anatomy and Cell Biology, Faculty of Medecine and Health Sciences, Université de Sherbrooke, Sherbrooke, Québec, Canada (1)
Department of Chemistry, Michigan State University, MI 48824, USA (1)
Department of Immunology, University of Oslo, Norway (1)
Head of Brain Cancer Research, Chris O'Brien Lifehouse, Camperdown, Sydney, Australia (1)
Head of Brain Cancer Research, Chris O'Brien Lifehouse, NSW, Sydney (1)
Head of Cell Signalling Unit, Children's Medical Research Institute, The University of Sydney Co-Director of ProCan - The ACRF International Centre for the Proteome of Human Cancer Co-Director of ACRF Centre for Kinomics (1)
LEO Foundation Skin Immunology Research Center, Department of Immunology and Microbiology, University of Copenhagen, Copenhagen, DK (1)
Medical Univeristy of South Carolina Division of Infectious Diseases Department of Microbiology and Immunology (1)
Pacific Northwest National Laboratory (1)
ProCan®, Children’s Medical Research Institute, Faculty of Medicine and Health, The University of Sydney, Westmead, NSW, Australia. (1)
Project Lead (1)
Singapore Immunology Network (SIgN), Agency for Science, Technology and Research (A*STAR), 8A Biomedical Grove, Immunos, Singapore 138648, Republic of Singapore; Department of Pharmacy and Pharmaceutical Sciences, National University of Singapore, 117543, Singapore, Singapore; (1)
South African National Bioinformatics Institute, University of the Western Cape, South Africa (1)
Target Discovery Institute Nuffield Department of Medicine (1)
Technical University of Denmark, Department of Biotechnology and Biomedicine, Section for Medical Biotechnology, Cell diversity Lab (1)
The University of Melbourne and University of Sydney (1)
The University of Sydney (1)
University of Cadiz (1)
University of Kansas Medical Center (1)
University of Mississippi Medical Center Director, Mississippi Center for Heart Research Professor, Department of Physiology and Biophysics Research Health Scientist, Research Service G.V. (Sonny) Montgomery Veterans Affairs Medical Center. 2500 North State Street, Room G351-04 Jackson, MS 39216-4505 (1)

Location

United States (10)
Canada (2)
Australia (1)
Belgium (1)
China (1)
France (1)
Germany (1)
India (1)
Italy (1)
Singapore (1)
Spain (1)
Thailand (1)
United Kingdom (1)

Keyword

Cetuximab (2)
Molecular Profiling (2)
Natural History (2)
Next Generation Sequencing (2)
Oxaliplatin (2)
68GaNOTA-Anti-HER2 VHH1 (1)
Albumin-Bound Paclitaxel (1)
Anaplastic Astrocytoma, Glioblastoma (1)
Biomarkers (1)
Blood (1)
CRC (1)
Cancer Stem Cells (1)
Capecitabine (1)
Carboplatin (1)
Circulating Tumor DNA (1)
Cisplatin (1)
Cyclophosphamide (1)
Effective therapies against metastasis (1)
Epacadostat (1)
Erbitux (1)
First-In-Class Investigational Agent (1)
Flucytosine (1)
Fluorouracil (1)
Gemcitabine (1)
HER2 (1)
Hematological (1)
High Risk (1)
IDO inhibitor (1)
Lapatinib (1)
Leucovorin (1)

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The Metabolic Fate of Oxaliplatin in the Biological Milieu Investigated During In Vivo Lung Perfusion Using a Unique Miniaturized Sampling Approach Based on Solid-Phase Microextraction Coupled with Liquid Chromatography-Mass Spectrometry

Adjuvant chemotherapy after pulmonary metastasectomy for colorectal cancer may reduce recurrence and improve survival rates; however, the benefits of this treatment are limited by the significant side effects that accompany it. The development of a novel in vivo lung perf...

2022-08-02 | MTBLS4982 | MetaboLights

Biop-C: A Method for Chromatin Interactome Analysis of Solid Cancer Needle Biopsy Samples

PRJNA701288 | ENA

Healthy Antrum miRnome

A small RNA library of stomach antrum tissue was sequenced using high-throughput SOLiD sequencing technology. The study aims to provide complementary information of the role of miRNAs in molecular regulation process in the healthy human stomach, in order to establish a reference for future compariso...

ORGANISM(S): Homo sapiens

2014-03-26 | E-MTAB-2273 | biostudies-arrayexpress

Paired tumour biopsy gene expression data from patients with solid tumours, before and after combination treatment.

PRJNA978115 | ENA

Small RNA next generation sequencing of mice skin biopsies from acetone-treated healthy skins and DMBA/PMA-treated hyperplastic skins, papillomas and cutaneous Squamous Cell Carcinomas

FVB/N mice were subjected to 7,12-Dimethylbenz[a]anthracene (DMBA) two-hit multistage skin carcinogenesis protocol. Mice were topically treated with 200 nmol of DMBA in 0.2 mL acetone then twice weekly for six weeks with 5 nmol PMA (Phorbol 12-myristate 13-acetate). A second hit of DMBA was performe...

ORGANISM(S): Mus musculus

2014-02-03 | E-GEOD-52299 | biostudies-arrayexpress

Analysis of solid tumor mutation profiles in liquid biopsy.

Not available

S-EPMC6246960 | biostudies-literature

Human abdominal fat biopsy derived Ala97Ser TTR fibril (patient 1)

Cryo-EM structure of patient-derived transthyretin amyloid fibrils from an abdominal fat biopsy.

ORGANISM(S): Homo sapiens (Human)

2026-08-24 | PXD071259 | Pride