Periodontal - OmicsDI

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Organisms

Homo sapiens (222)
Mus musculus (78)
Porphyromonas gingivalis (14)
Rattus norvegicus (11)
Porphyromonas gingivalis W83 (7)
Aggregatibacter actinomycetemcomitans (5)
Arabidopsis thaliana (4)
Fusobacterium nucleatum (4)
Treponema denticola (3)
Caenorhabditis elegans (2)
Fusobacterium nucleatum subsp. nucleatum ATCC 25586 (2)
Porphyromonas gingivalis ATCC 33277 (2)
Aggregatibacter actinomycetemcomitans HK1651 (2)
human saliva metagenome (2)
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synthetic construct (2)
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Filifactor alocis ATCC 35896 (1)
Simian-Human immunodeficiency virus (1)
human papillomavirus 72 (1)
cucumber mosaic cucumovirus (1)
Human betaherpesvirus 7 (1)
Human alphaherpesvirus 3 (1)

Organisms

Homo sapiens (179)
Mus musculus (58)
human oral metagenome (38)
Rattus norvegicus (14)
Porphyromonas gingivalis (10)
oral metagenome (6)
Fusobacterium nucleatum (5)
Treponema denticola (4)
human saliva metagenome (4)
Aggregatibacter actinomycetemcomitans (3)
Porphyromonas gingivalis W83 (3)
human metagenome (3)
Canis lupus familiaris (3)
Bacteria (3)
mouse gut metagenome (3)
Fusobacterium nucleatum subsp. nucleatum ATCC 25586 (2)
Porphyromonas gingivalis W50 (2)
Treponema denticola ATCC 35405 (2)
Bulleidia extructa (2)
Porphyromonas gingivalis ATCC 33277 (2)
fossil metagenome (2)
Prevotella intermedia (2)
Macaca mulatta (2)
mouse metagenome (2)
Sus scrofa (2)
Porphyromonas gingivalis JCVI SC001 (1)
Olsenella uli (1)
[Eubacterium] saphenum (1)
Capnocytophaga ochracea DSM 7271 (1)
Bacillus cereus AH820 (1)

Repository

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geo (228)
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pride (52)
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Tissue

Saliva (12)
Cell culture (7)
Gingival fluid (6)
Periodontal ligament (6)
Stem cell (6)
Cell lysate (2)
Deciduous periodontal ligament (1)
Permanent periodontal ligament (1)
Saliva (1)
Subglottic samples of intubated (1)
Others (1)
Blood plasma (1)
Blood serum (1)
Brain (1)
CNS neuron (sensu Nematoda and Protostomia) (1)
Connective tissue cell (1)
Dental pulp (1)
Dental pulp cell (1)
Epithelial cell (1)
Fibroblast (1)
Fibroblast of gingiva (1)
Gingiva (1)
Gingival epithelial cell (1)
Mesenchymal stem cell of Wharton's jelly (1)
Mesenchymal stem cell of adipose (1)
Multi-cell-part structure (1)
Neuron of the forebrain (1)
Oral mucosa (1)
Osteoblast (1)
Periodontium (1)

Disease

Periodontitis (9)
Not Available (2)
Disease free (2)
Gingivitis (2)
Obesity (2)
Periodontal disease (2)
Chronic granulomatous disease (1)
Normal (1)
Colorectal Neoplasms (1)
Dental plaque (1)
Alzheimer's disease (1)
Arthritis (1)
Gingival disease (1)
Herpes simplex (1)
Parkinson's disease (1)

Technology Type

Mass Spectrometry (53)
Shotgun proteomics (25)
Bottom-up proteomics (15)
Data-dependent acquisition (7)
Mass spectrometry assay (4)
Mass spectrometry (4)
Gel-based experiment (4)
NMR spectroscopy (3)
Data-independent acquisition (3)
MSE (3)
SWATH MS (3)
SRM/MRM (2)
EI (1)
HDMSE (1)
Top-down proteomics (1)

Instrument Platform

Illumina NovaSeq 6000 (8)
Illumina NovaSeq X (5)
Q Exactive (4)
NA (3)
Liquid Chromatography MS - positive - reverse phase (3)
Scanning hardware (2)
Q Exactive GC-Orbitrap (Thermo Scientific) (2)
Instrument (2)
Bruker (2)
Liquid Chromatography MS - positive - reverse-phase (2)
Liquid Chromatography MS - negative - reverse-phase (2)
Agilent High resolution C scanner (1)
Maxwell 16 Instrument (1)
HiSeq X Five (1)
GeneChip Scanner 3000 7G (1)
NextSeq 2000 (1)
Ion Torrent S5 XL (1)
LTQ Orbitrap Elite (1)
LTQ Orbitrap Velos (1)
MaXis (1)
Q Exactive HF-X (1)
Flow injection analysis MS - negative (1)
Flow injection analysis MS - positive (1)
Nuclear Magnetic Resonance (NMR) - (1)
Liquid Chromatography MS - alternating - reverse phase (1)
Liquid Chromatography MS - negative - hilic (1)
Liquid Chromatography MS - positive - hilic (1)
Liquid Chromatography MS - negative - reverse phase (1)
LTQ Orbitrap XL (1)

Publication Date

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2010 (23)
2014 (22)
2013 (20)
2020 (18)
2018 (16)
2011 (15)
2008 (13)
2016 (12)
2019 (10)
2009 (10)
2017 (9)
2012 (7)
2015 (5)
2007 (5)
2006 (3)
2005 (1)

UNIPROT ID/AC

A0A024RC46 (1)
A0A0A0MS51 (1)
A2BFH1 (1)
A4D110 (1)
A5A3E0 (1)
A6NCN2 (1)
A6NJJ0 (1)
A6NNZ2 (1)
B1AHL2 (1)
B1AK88 (1)
B3KML9 (1)
B3KT93 (1)
B3KW93 (1)
B4DHB3 (1)
B4DKM5 (1)
B4DPR2 (1)
B4DRV9 (1)
B4DY08 (1)
B4E1R7 (1)
B4E3A4 (1)
B7Z556 (1)
B7Z9A0 (1)
B9VP19 (1)
C9JM50 (1)
D3DPU2 (1)
E5RK69 (1)
E7EQ72 (1)
E7EVA0 (1)
E7EX29 (1)
E9PAV3 (1)

ENSEMBL ID

ENSG00000170477 (1)

CHEBI ID

CHEBI:15428 (4)
CHEBI:17822 (3)
CHEBI:26986 (3)
CHEBI:28044 (3)
CHEBI:9349 (3)
CHEBI:16865 (3)
CHEBI:15891 (3)
CHEBI:15366 (3)
CHEBI:32816 (3)
CHEBI:78320 (3)
CHEBI:30769 (3)
CHEBI:20067 (3)
CHEBI:17992 (2)
CHEBI:17172 (2)
CHEBI:48430 (2)
CHEBI:17256 (2)
CHEBI:15611 (2)
CHEBI:17363 (2)
CHEBI:26271 (2)
CHEBI:25094 (2)
CHEBI:18237 (2)
CHEBI:48153 (2)
CHEBI:22660 (2)
CHEBI:22653 (2)
CHEBI:27570 (2)
CHEBI:30751 (2)
CHEBI:18186 (2)
CHEBI:16811 (2)
CHEBI:28300 (2)
CHEBI:15698 (2)

Metabolite Name

Succinate (4)
Acetate (3)
Uracil (3)
Taurine (3)
Lactate (3)
Pyruvate (3)
Deoxycytidine (3)
Uridine (3)
Sucrose (3)
Thr-Gln (2)
Asp-Pro (2)
Tyr-Met (2)
Phe-Gln (2)
Ser-Met (2)
Ser-Lys (2)
Gly-Glu (2)
His-Ser (2)
Leu-Gln (2)
Gly-Asp (2)
Val-Trp (2)
D-ribose 5-phosphate (2)
Arg-Tyr (2)
Tyr-Ser (2)
Tyr-Glu (2)
Ile-Lys (2)
Butyrate (2)
Phe-Glu (2)
His-Gly (2)
D-Xylulose 5-phosphate (2)
Phe-Ser (2)

First Public Date

2026 (117)
2025 (97)
2024 (97)
2023 (67)
2022 (66)
2021 (64)
2020 (48)
2014 (48)
2013 (48)
2019 (27)
2017 (26)
2018 (15)
2016 (10)
2015 (5)
2012 (1)
2010 (1)

Classification

bacteria (61)

Modification

15.994915 (1)
42.010565 (1)
71.037114 (1)

Study status

Recruiting (1)

Study type

Transcription profiling by array (74)
RNA-seq of coding RNA (13)
RNA-seq of total RNA (4)
Animal - Two-color microarray (2)
ChIP-chip by array (2)
Transcription profiling by RT-PCR (2)
Other (2)
ChIP-seq (2)
MicroRNA profiling by array (2)
RNA-seq of non coding RNA (2)
Unknown experiment type (1)
ChIP-chip by tiling array (1)
High-throughput sequencing (1)
Cell line - High-throughput sequencing (1)
Transcription profiling by tiling array (1)
RIP-seq (1)
RNA-seq of coding RNA from single cells (1)
Interventional (1)

Release Date

2025 (849)
2022 (692)
2023 (638)
2024 (595)
2021 (585)
2020 (418)
2019 (298)
2018 (273)
2017 (218)
2016 (182)
2015 (171)
2014 (161)
2026 (138)
2013 (111)
2012 (63)
2010 (55)
2011 (47)
2009 (30)
2008 (24)
2006 (19)
2007 (14)
2005 (13)
2003 (8)
2004 (7)
2001 (7)
2000 (7)
1999 (7)
2002 (6)
1998 (6)

Lab affiliation

Basilbiotech, Incheon 22002, Republic of Korea. (2)
Laboratory of Protein Mass Spectrometry, Faculty of Biotechnology, University of Wroclaw (2)
The Gade Research Group for Infection and Immunity, Department of Clinical Science, Faculty of Medicine and Dentistry, University of Bergen, Bergen, Norway (2)
Bauru School of Dentistry from University of São Paulo (1)
Center for Translational and Clinical Research, Department of Proteomics, School of Medicine, University of Zagreb, Zagreb, Croatia Drago Perović Department of Anatomy, School of Medicine, University of Zagreb, Zagreb, Croatia (1)
Center of Excellence in Systems Biology, Faculty of Medicine, Chulalongkorn University, Bangkok, Thailand (1)
Core Facility for Cell Sorting & Cell Analysis, Laboratory for Clinical Immunology, University Medical Center Rostock, 18057 Rostock, Schillingallee 70, Germany (1)
Department of Biological Sciences, Bauru School of Dentistry, University of São Paulo (1)
Department of Dental Medicine (DENTMED), OF, Karolinska Institutet (1)
Department of Dental Medicine, Karolinska Institute Alfred Nobels Alle 8, 14104, Huddinge, Sweden (1)
Department of Diagnosis and Surgery, School of Dentistry at Araraquara, Sao Paulo State University - UNESP, Araraquara, São Paulo, Brazil (1)
Department of Diagnosis and Surgery, School of Dentistry at Araraquara, Sao Paulo State University - UNESP, Araraquara, São Paulo, Brazil. (1)
Department of Pathology and Conservative Dentistry. Faculty of Dentistry. Centre for Biomedical Research and Innovation (CIIB). Periodontal Research Laboratory. University of the Andes, Santiago, Chile (1)
Department of Prosthodontics and Periodontics, Division of Periodontics, Piracicaba Dental School, University of Campinas, Brazil (1)
Department of Restorative Dentistry, School of Dentistry, Oregon Health and Science University (1)
Department of Stomatology, Nanfang Hospital, Southern Medical University, Guangzhou, China, 510515 (1)
Deptartment of Orthodontics, University Clinic of Dental Medicine, University of Geneva (1)
Division of Oral Diseases, Department of Dental Medicine, Karolinska Insitutet, Sweden (1)
Division of Oral Microbiology and Immunology, Department of Operative Dentistry, Periodontology and Preventive Dentistry, Rheinisch-Westfälische Technische Hochschule (RWTH) University Hospital, Aa-chen, Germany (1)
Erciyes University Genome and Stem Cell Center (GENKOK) (1)
Head of the Laboratory of non-coding DNA, Institute of Cytology RAS, St. Petersburg, Russia (1)
Institute for Glycomics, Gold Coast Campus, Griffith University, QLD 4222, Australia (1)
Instituto de Investigaciones Sanitarias de Santiago de Compostela (1)
Instituto de Investigaciones sanitarias de Santiago de Compostela (1)
Laboratory of Structural Biology and Cell Signalling BIOCEV - Institute of Microbiology, v. v. i., The Czech Academy of Sciences (1)
Mass Spectrometry and Proteomics Facility (1)
Melbourne Dental School, University of Melbourne, Australia (1)
NIH/NIDCR (1)
Oral Biology (International Program), Faculty of Dentistry, Chulalongkorn University, Bangkok, Thailand (1)
Oral Microbiology Research Laboratory Faculty of Dentistry Kuwait University (1)

Location

Sweden (1)

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Oral dysbiosis initiates periodontal disease in experimental kidney disease

BACKGROUND AND HYPOTHESIS: It is presently unclear why there is a high prevalence of periodontal disease in individuals living with chronic kidney disease. Whilst some have argued that periodontal disease causes chronic kidney disease, we hypothesized that alterations in saliva ...

2025-09-04 | MTBLS1833 | MetaboLights

AMPK activation orchestrated replicative senescence of periodontal ligament stem cells via regulating metabolomics

BACKGROUND: Periodontal ligament mesenchymal stem cells (PDLSCs) are a promising cell resource for cell-based regenerative medicine in dentistry. PDLSCs inevitably acquire a senescent phenotype after prolonged in vitro expansion, and the key regulators of cells during replicative...

2022-11-15 | MTBLS4568 | MetaboLights

Comparative gene expression analysis of dental follicle and periodontal ligament in humans

The aim of this study was to evaluate and compare the gene expression profiles of dental follicle and periodontal ligament in humans, which can possibly explain their functions of dental follicle and PDL such as eruption coordination and stress resorption. That may apply this information to clinical...

ORGANISM(S): Homo sapiens

2014-08-21 | E-GEOD-51342 | biostudies-arrayexpress

Distinct signatures of dental plaque metabolic byproducts dictated by periodontal inflammatory status

Not available

ORGANISM(S): Homo sapiens

ST000496 | MetabolomicsWorkbench

Differentially expressed long noncoding RNA expression between periodontal ligament stem cells from healthy periodontal tissue and periodontal ligament stem cells from inflammatory periodontal tissue.

Periodontitis can impair the osteogenic differentiation of human periodontal mesenchymal stem cells, but the underlying molecular mechanisms are still poorly understood. Long noncoding RNAs (lncRNAs) have been demonstrated to play significant roles under both physiologic and pathological conditions....

ORGANISM(S): Homo sapiens

2016-02-19 | E-GEOD-78074 | biostudies-arrayexpress

Expression data from human periodontal ligament

We used microarrays to detect the differences in gene-expression of the periontal ligament between patients with healthy periodontal ligament and patients with periodontitis RNA was extracted directly from the middle third of the human periodontal ligament

ORGANISM(S): Homo sapiens

2011-03-17 | E-GEOD-27993 | biostudies-arrayexpress

Transcription profiling of human chronic inflamed and healthy periodontal ligament cells in vivo

The periodontium are the tissues supporting and investing the tooth and consists of the periodontal ligament, the gingiva, the root cementum, and the alveolar bone. The functions of the cell populations in health and disease regarding the host-mediated tissue destruction are not well understood. To ...

ORGANISM(S): Homo sapiens

2008-06-15 | E-GEOD-7321 | biostudies-arrayexpress

Mouse periodontal ligament tissue after orthodontic tooth movement

Mouse periodontal ligament tissue after orthodontic tooth movement for 14 days. Tissue was dissected by a laser microdissection microscope. Samples were analyzed separately at mesial (compression) and distal (tension) sides.

ORGANISM(S): Mus Musculus (mouse)

2022-12-16 | PXD030430 | JPOST Repository

Comparative gene expression analysis of the human periodontal ligament in deciduous and permanent teeth

There are histological and functional differences between human deciduous and permanent pediodontal ligament (PDL) tissues. The purpose of this study was to determine the differences between these two types of tissue at the molecular level by comparative gene expression analysis. PDL samples were ob...

ORGANISM(S): Homo sapiens

2013-09-06 | E-GEOD-50640 | biostudies-arrayexpress

Transcription profiling of human peripheral blood monocytes in periodontal therapy

Periodontal infections have been associated with systemic inflammation and risk for atherosclerosis and vascular disease. We investigated the effects of comprehensive periodontal therapy on gene expression of peripheral blood monocytes. Approximately 1/3 of the patients showed substantial changes in...

ORGANISM(S): Homo sapiens

2008-06-15 | E-GEOD-6751 | biostudies-arrayexpress

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BACKGROUND AND HYPOTHESIS: It is presently unclear why there is a high prevalence of periodontal disease in individuals living with chronic kidney disease. Whilst some have argued that periodontal disease causes chronic kidney disease, we hypothesized that alterations in saliva ...

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