Oral cavity - OmicsDI

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Unknown (3829)
Genomics (786)
Transcriptomics (444)
Proteomics (99)
Metabolomics (23)
Clinical (22)
Methylation profiling (9)
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Genomic (5)
Models (1)
Multiomics (1)

Organisms

Homo sapiens (398)
Mus musculus (106)
Rattus norvegicus (16)
Streptococcus mutans UA159 (10)
Colinus virginianus (5)
Drosophila melanogaster (4)
Oncorhynchus nerka (3)
Gallus gallus (3)
Streptococcus gordonii str. Challis (3)
Porphyromonas gingivalis (3)
human oral metagenome (2)
Macaca mulatta (2)
Streptomyces coelicolor A3(2) (2)
Oncorhynchus mykiss (2)
Porphyromonas gingivalis W83 (2)
Beauveria bassiana (1)
Nicotiana attenuata (1)
Pimephales promelas (1)
Marmota monax (1)
Ciona robusta (1)
Schmidtea mediterranea (1)
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Aggregatibacter actinomycetemcomitans (1)
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Heliconius melpomene (1)
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Apis mellifera (1)
Anopheles gambiae (1)

Organisms

Homo sapiens (92)
human oral metagenome (41)
Mus musculus (37)
human metagenome (9)
Streptococcus salivarius (8)
Bacteria (8)
Streptococcus mutans (7)
oral metagenome (7)
Aggregatibacter actinomycetemcomitans (4)
Capnocytophaga canimorsus (4)
Capnocytophaga (4)
Staphylococcus aureus (4)
Escherichia coli K-12 (4)
Capnocytophaga cynodegmi (3)
Streptococcus mutans UA159 (3)
Rothia mucilaginosa (3)
Klebsiella pneumoniae (3)
Streptococcus parasanguinis FW213 (2)
Neisseria musculi (2)
Capnocytophaga felis (2)
Selenomonas sputigena (2)
frog metagenome (2)
Lactobacillus gasseri (2)
organismal metagenomes (2)
human saliva metagenome (2)
Limosilactobacillus fermentum (2)
Lacticaseibacillus rhamnosus (2)
human skin metagenome (2)
mouse metagenome (2)
Canis lupus familiaris (2)

Repository

ENA (704)
biostudies-arrayexpress (369)
geo (108)
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pride (57)
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dbGaP (5)
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PanoramaPublic (3)
PAXDB (3)
EVA (2)
NODE (2)
ExpressionAtlas (1)
BioModels (1)
GNPS (1)
GPMDB (1)

Tissue

Oral cavity (3)
Blood (2)
Brain (2)
Liver (2)
Lung (2)
Lymph node (2)
Adrenal gland (1)
Bone marrow (1)
Bone tissue (1)
Breast (1)
Caecum (1)
Cartilage tissue (1)
Chordate pharynx (1)
Colon (1)
Esophagus (1)
Ileum (1)
Kidney (1)
Nasal septum (1)
Ovary (1)
Pancreas (1)
Pleura (1)
Prostate gland (1)
Rectum (1)
Skeletal muscle tissue (1)
Stomach (1)
Testis (1)
Tongue (1)
Urinary bladder (1)
Uterine cervix (1)
Uterus (1)

Disease

Acute T cell leukemia (1)
Acute lymphoblastic leukemia (1)
Acute monocytic leukemia (1)
Acute myelogenic leukemia (1)
Acute myeloid leukemia (1)
Anaplastic large cell lymphoma (1)
B-cell lymphoma (1)
Breast adenocarcinoma (1)
Breast anaplastic carcinoma (1)
Breast carcinoma (1)
Breast ductal adenocarcinoma (1)
Breast ductal carcinoma in situ (1)
Breast fibrocystic disease (1)
Breast medullary carcinoma (1)
Breast metaplastic carcinoma (1)
Breast squamous cell carcinoma (1)
Breast synovial sarcoma (1)
Bronchoalveolar adenocarcinoma (1)
Cecum adenocarcinoma (1)
Cecum carcinoma (1)
Cervical adenocarcinoma (1)
Cervical carcinoma (1)
Cervical squamous cell carcinoma (1)
Chondrosarcoma (1)
Chronic myelogenic leukemia (1)
Chronic myelogenous leukemia (1)
Colon adenocarcinoma (1)
Colon carcinoma (1)
Ewing's sarcoma (1)
Hodgkin's lymphoma (1)

Technology Type

Mass Spectrometry (57)
Shotgun proteomics (37)
Mass spectrometry (10)
Mass spectrometry assay (9)
Bottom-up proteomics (8)
Top-down proteomics (8)
Data-independent acquisition (4)
NMR spectroscopy (3)
Data-dependent acquisition (3)
Illumina HiSeq 2000 (2)
454 GS FLX Titanium, Illumina HiSeq 2000 (1)
ILLUMINA, Illumina HiSeq 2000 (1)
Illumina HiSeq 2500, ILLUMINA (1)
NextSeq 500 (ILLUMINA), Illumina HiSeq 2500 (ILLUMINA) (1)
DiaPASEF (1)
Gel-based experiment (1)
Glycoproteomics (1)
SWATH MS (1)

Instrument Platform

Q Exactive (8)
Illumina HiSeq 2500 (7)
Illumina NovaSeq 6000 (5)
LTQ Orbitrap Velos (5)
Liquid Chromatography MS - positive - reverse phase (5)
Orbitrap Fusion Lumos (4)
Liquid Chromatography MS - negative - reverse phase (4)
Illumina HiSeq 4000 (3)
NextSeq 500 (3)
Liquid Chromatography MS - negative - reverse-phase (3)
Illumina HiSeq 1500 (2)
NextSeq 550 (2)
Illumina HiSeq 2000 (2)
Q Exactive HF (2)
TimsTOF Pro (2)
NextSeq 2000 (1)
MinION (1)
Illumina MiSeq (1)
- (1)
Illumina CanineHD (1)
Exactive (1)
Instrument (1)
Compact (1)
LTQ Orbitrap (1)
LTQ Orbitrap Elite (1)
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LTQ Orbitrap XL ETD (1)
MaXis (1)
Orbitrap Exploris 240 (1)
Q-Exactive Plus Orbitrap mass spectrometer (1)

Publication Date

2013 (66)
2014 (55)
2015 (50)
2011 (49)
2012 (43)
2016 (38)
2024 (34)
2025 (32)
2023 (32)
2026 (30)
2010 (26)
2022 (23)
2009 (21)
2008 (21)
2021 (20)
2020 (17)
2018 (15)
2019 (10)
2017 (9)
2007 (6)
2005 (2)
2006 (1)

UNIPROT ID/AC

1433S_HUMAN (3)
A0A096LPE2_HUMAN (3)
A1AG1_HUMAN (3)
A1AG2_HUMAN (3)
A1AT_HUMAN (3)
A1BG_HUMAN (3)
A2AP_HUMAN (3)
A2GL_HUMAN (3)
A2MG_HUMAN (3)
AACT_HUMAN (3)
ACTB_HUMAN (3)
ACTG_HUMAN (3)
ACTS_HUMAN (3)
ADIPO_HUMAN (3)
AFAM_HUMAN (3)
ALBU_HUMAN (3)
ALS_HUMAN (3)
AMBP_HUMAN (3)
AMPN_HUMAN (3)
ANGT_HUMAN (3)
ANT3_HUMAN (3)
APMAP_HUMAN (3)
APOA1_HUMAN (3)
APOA2_HUMAN (3)
APOA4_HUMAN (3)
APOA_HUMAN (3)
APOB_HUMAN (3)
APOC1_HUMAN (3)
APOC2_HUMAN (3)
APOC3_HUMAN (3)

CHEBI ID

CHEBI:15428 (5)
CHEBI:15676 (4)
CHEBI:15891 (4)
CHEBI:16199 (4)
CHEBI:16335 (4)
CHEBI:16737 (4)
CHEBI:16919 (4)
CHEBI:17295 (4)
CHEBI:17368 (4)
CHEBI:17821 (4)
CHEBI:15318 (3)
CHEBI:15347 (3)
CHEBI:15603 (3)
CHEBI:15611 (3)
CHEBI:15741 (3)
CHEBI:15971 (3)
CHEBI:16040 (3)
CHEBI:16235 (3)
CHEBI:16236 (3)
CHEBI:16449 (3)
CHEBI:16610 (3)
CHEBI:16704 (3)
CHEBI:16708 (3)
CHEBI:16750 (3)
CHEBI:16958 (3)
CHEBI:17126 (3)
CHEBI:17148 (3)
CHEBI:17154 (3)
CHEBI:17172 (3)
CHEBI:17191 (3)

Metabolite Name

Creatine (5)
Hypoxanthine (5)
L-Valine (5)
Taurine (5)
Thymine (5)
Adenosine (4)
Betaine (4)
Creatinine (4)
Glycine (4)
Guanine (4)
Guanosine (4)
Inosine (4)
Leucine (4)
Urea (4)
Xanthine (4)
Xanthosine (4)
Adenine (3)
Allantoin (3)
Benzoic acid (3)
Cholic acid (3)
Choline (3)
Citric acid (3)
Cytidine (3)
Cytosine (3)
Dodecanedioic acid (3)
Galactitol (3)
Glutaric acid (3)
Glycerol (3)
Glycerol 3-phosphate (3)
Histidine (3)

First Public Date

2024 (88)
2013 (86)
2025 (82)
2023 (65)
2021 (60)
2026 (58)
2022 (57)
2020 (49)
2014 (40)
2017 (35)
2019 (29)
2018 (26)
2015 (19)
2016 (10)

Modelling Approach

Constraint-based model (1)

Study status

Recruiting (9)
Completed (8)
Not yet recruiting (2)
Active, not recruiting (1)
Not provided (1)
Terminated (1)

Lab affiliation

Department of Medical Biotechnology and Laboratory Science College of Medicine, Chang Gung University, Taoyuan, Taiwan (2)
9McKusick-Nathans Institute of Genetic Medicine, 10Departments of Biological Chemistry, and 11Pathology, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. (1)
Amsterdam UMC, Vrije Universiteit Amsterdam, Medical Oncology, Cancer Center Amsterdam, OncoProteomics Laboratory, Amsterdam, Netherlands (1)
Associate Professor Iowa Institute for Oral Health Research Department of Periodontics University of Iowa College of Dentistry and Dental Clinics N423 Dental Science Building 801 Newton Rd, Iowa City, IA 52242 (1)
Bauru School of Dentistry, University of São Paulo, São Paulo, Brazil (1)
Bavarian Center for Biomolecular Mass Spectrometry (BayBioMS), Technical University of Munich (TUM), Freising, Germany (1)
Bavarian Center for Biomolecular Mass Spectrometry at Klinikum rechts der Isar (BayBioMS@MRI), TUM School of Medicine and Health, Technical University of Munich (TUM), 81675 München, Germany (1)
Biotech Research and Innovation Centre (BRIC) University of Copenhagen, Copenhagen, Denmark (1)
Chair of Proteomics and Bioanalytics Technical University of Munich (1)
Chang Gung University Department of Medical Biotechnology and Laboratory Science (1)
Core Facility Proteomics, Department of Clinical Chemistry, Universitry Medical Center Göttingen, Germany (1)
Department of Anthropology, University of Oklahoma, USA (1)
Department of Archaeology, Max Planck Institute for the Science of Human History, Jena, Germany. (1)
Department of Biochemistry and Pharmacology, University of Melbourne, Victoria, Australia (1)
Department of Biophysics,All India Institute of MedicalSciences, New Delhi, India (1)
Department of Infectious Diseases, Hospital Universitario Ramón y Cajal, IRYCIS. AND CIBERInf, Instituto de Salud Carlos III. Madrid, Spain (1)
Department of Life and Environmental Sciences - Biomedical Section (1)
Department of Life and Environmental Sciences, University of Cagliari (1)
Department of Medical Biotechnology and Laboratory Science, College of Medicine, Chang Gung University, Taiwan (1)
Department of Medical Biotechnology and Laboratory Sciences, College of Medicine, Chang Gung University, Taiwan (1)
Department of Oral Biology and Pathology, Faculty of Odontology, Malmö University, Malmö, Sweden (1)
Department of Oral Biology and Pathology, Faculty of Odontology, Malmö University, Malmö, Sweden Genovis AB, Kävlinge, Sweden (1)
Department of Periodontology, Dental Research Division, Guarulhos University (UnG), Guarulhos, Sāo Paulo 07023-070, Brazil | Dental Science School (Faculdade de Ciências Odontológicas - FCO), Montes Claros, Minas Gerais 39401-303 Brazil. (1)
Department of Restorative Dentistry, School of Dentistry, Oregon Health and Science University (1)
Department of proteomics and signal transduction, max planck institute of biochemistry, Germany (1)
Faculty of Dentistry, Oral & Craniofacial Sciences, King’s College London (London, UK) (1)
Guanghua school of stomatolgy, Hospital of stomatology, Sun Yat-sen university (1)
Head of Mass Spectrometry Laboratory, Brazilian Biosciences National Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), Campinas, SP, Brazil. (1)
Helmholtz Zentrum München, Institute of Lung Biology and Disease, Group Regenerative Biology and Medicine, Munich, Germany, Member of the German Centre for Lung Research (DZL) (1)
INRAE, Centre For Taste and Feeding Bahaviour,Dijon, FRANCE (1)

Keyword

Antibodies (3)
Antibodies, Monoclonal (3)
Antineoplastic Agents, Immunological (3)
Cetuximab (3)
Immunoglobulins (3)
Erlotinib Hydrochloride (2)
Ipilimumab (2)
Nivolumab (2)
7-hydroxystaurosporine (1)
Albumin-Bound Paclitaxel (1)
Anal Cancer (1)
Bevacizumab (1)
Bulky Tumor (1)
Cancer disease (1)
Carboplatin (1)
Disease burden (1)
Esophageal tumor (1)
Fludara (1)
Interleukin-12 (1)
Irinotecan (1)
Lenalidomide (1)
Lung Tumor (1)
Lymphadenopathy (1)
Neuroendocrine tumor (1)
Oral Cancer (1)
Palliative therapy (1)
Pancreatic tumor (1)
Patient care (1)
Patient´s needs (1)
Pelvic Tumors (1)

IsPrivate

False (1)

Submitter Keywords

FROG (1)

Classification

bacteria (95)
viruses (1)

Study type

Transcription profiling by array (256)
RNA-seq of coding RNA (29)
Comparative genomic hybridization by array (23)
Methylation profiling by array (16)
Interventional (15)
Genotyping by array (5)
Observational (5)
Transcription profiling by SAGE (4)
Other (4)
DNA-seq (4)
RNA-seq of coding RNA from single cells (4)
ChIP-seq (3)
Proteomic profiling by array (3)
Methylation profiling by high throughput sequencing (3)
RNA-seq of non coding RNA (3)
Unknown experiment type (2)
Transcription profiling by tiling array (2)
Transcription profiling by RT-PCR (2)
MicroRNA profiling by array (2)
Observational patient registry (2)
Cell line - High-throughput sequencing (1)
MicroRNA profiling by high throughput sequencing (1)
Spatial transcriptomics by high-throughput sequencing (1)
RNA-seq of total RNA (1)

Release Date

2022 (475)
2024 (459)
2023 (457)
2021 (412)
2025 (398)
2020 (338)
2019 (223)
2016 (191)
2018 (188)
2015 (163)
2017 (158)
2014 (155)
2013 (117)
2011 (95)
2012 (83)
2026 (73)
2010 (58)
2009 (46)
2008 (35)
2007 (16)
2006 (13)
2005 (12)
2002 (8)
2004 (5)
2001 (5)
2000 (5)
1999 (4)
2003 (2)
1997 (2)
1998 (1)

Location

United States (10)
Germany (2)
India (2)
Japan (2)
Denmark (1)
France (1)
Guam (1)
Iran (1)
New Zealand (1)
Sweden (1)

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Transcription profiling of oral cavity samples from human squamous cell carcinoma patients

Metastasis via the lymphatics is a major risk factor in squamous cell carcinoma of the oral cavity (OSCC). We sought to determine whether the presence of metastasis in the regional lymph node could be predicted by a gene expression signature of the primary tumor. A total of 18 OSCCs were characteriz...

ORGANISM(S): Homo sapiens

2007-08-25 | E-GEOD-2280 | biostudies-arrayexpress

Biomarker Discovery in Oral Cancer (OSMF & OSCC) and its severity

Oral squamous cell carcinoma (OSCC) is frequently the outcome of oral submucous fibrosis (OSMF), a common possibly premalignant disease. In our study, a cohort of 50 patients with OSCC and OSMF, along with 50 healthy controls, was analyzed to identify significant metabolic differences between the...

2024-10-23 | MTBLS11009 | MetaboLights

Expression data from oral squamous cell carcinoma (OSCC)-derived cell lines and normal oral keratinocytes

Oral squamous cell carcinoma (OSCC) is a lethal disease and early death usually occurs as a result of local invasion and regional lymph node metastases. We used microarrays to identify down or upregulated genes in OSCCs compared with non-malignant controls. To identify genes whose transcription is d...

ORGANISM(S): Homo sapiens

2011-09-01 | E-GEOD-31853 | biostudies-arrayexpress

Identification and Validation of Plasma Lipid Biomarkers for Oral Cancer Diagnosis

Despite lipid metabolic changes in oral cancer (OC), their potential as diagnostic markers remains unclear. This study assessed the diagnostic potential of metabolites for OC detection. Plasma metabolites of patients with OC and healthy controls (HC) were profiled using untargeted and targeted me...

2026-05-02 | MTBLS12655 | MetaboLights

System Xc- exacerbates metabolic stress under glucose depletion in oral squamous cell carcinoma

OBJECTIVE: Emerging evidence suggests that glucose depletion (GD)-induced cell death depends on system Xc-, a glutamate/cystine antiporter extensively studied in ferroptosis. However, the underlying mechanism remains debated. Our study confirmed the correlation between system Xc...

2024-01-16 | MTBLS5358 | MetaboLights

Oral dysplasias and oral squamous cell carcinoma

Analysis of DNA from 94 oral lesions by whole genome tiling-path array comparative genomic hybridization. Keywords: array comparative genomic hybridization Whole genome tiling-path array CGH profiles of 94 formalin-fixed paraffin-embedded oral specimens.

ORGANISM(S): Homo sapiens

2008-12-30 | E-GEOD-9193 | biostudies-arrayexpress

A YAP/TAZ-Regulated Molecular Signature is Associated with Oral Squamous Cell Carcinoma

Oral squamous cell carcinoma (OSCC) is a prevalent form of cancer that develops from the epithelium of the oral cavity. OSCC is on the rise worldwide, and death rates associated with the disease are particularly high. Despite progress in understanding of the mutational and expression landscape assoc...

ORGANISM(S): Homo sapiens

2015-05-26 | E-GEOD-66949 | biostudies-arrayexpress

Synergistic metabolism of salivary MUC5B in oral commensal bacteria during early biofilm formation

Bacterial metabolism in oral biofilms is comprised of complex networks of nutritional chains and biochemical regulations. These processes involve both intraspecies and interspecies networks as well as interactions with components from host saliva, gingival crevicular fluid, and dietary intake. In...

2023-10-30 | MTBLS8370 | MetaboLights

Gene expression changes in Porphyromonas gingivalis W83 after inoculation in rat oral cavity

The aim of this study is to investigate the alterations in gene expression in Porphyromonas gingivalis W83 after inoculation in rat oral cavity. P.gingivalis W83 inoculation in rat oral cavity caused inflammatory responses in gingival tissues and destroyed host alveolar bone. Microarray analysis rev...

ORGANISM(S): Porphyromonas gingivalis W83

2015-04-07 | E-GEOD-67608 | biostudies-arrayexpress

Mechanistic study of the effects of salivary components from OSCC patients on tumor growth using a mouse model of oral squamous cell carcinoma

2025-08-01 | MTBLS12805 | MetaboLights

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OBJECTIVE: Emerging evidence suggests that glucose depletion (GD)-induced cell death depends on system Xc-, a glutamate/cystine antiporter extensively studied in ferroptosis. However, the underlying mechanism remains debated. Our study confirmed the correlation between system Xc...

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