Bone marrow microenvironment

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Organisms

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Repository

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Tissue

Bone marrow (27)
Cell culture (13)
Macrophage (6)
Blood cell (4)
Monocyte (4)
Stem cell (4)
Bone marrow cell (3)
Plasma cell (3)
Stromal cell of bone marrow (3)
B cell (2)
Blood (2)
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Lung (2)
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Mesenchymal stem cell of the bone marrow (2)
Myeloid leukocyte (2)
Bone marrow CD45+ cells (1)
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Blood plasma (1)
Breast (1)
Cell suspension culture (1)
Dendritic cell (1)
Endometrial gland (1)
Lymphocyte (1)
Neutrophil (1)
Pancreas (1)
Permanent cell line cell (1)

Disease

Multiple myeloma (11)
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Brain cancer (2)
Tumor bearing (1)
Oropharynx squamous-cell carcinoma in DiseaseLocation oropharynx has DiseaseStaging lymph node negative (N0) (1)
Monoclonal gammopathy of unknown significance (MGUS) (1)
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Basal cell carcinoma, Gorlin-Goltz syndrome (1)
Osteosarcoma (1)
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Breast cancer (1)
Childhood acute lymphocytic leukemia (1)
Chronic myeloid leukemia (1)
Diamond-Blackfan anemia (1)
Disease free (1)
Female infertility (1)
Lung cancer (1)
Multiple sclerosis (1)
Neuroblastoma (1)
Pancreatic cancer (1)
Prostate adenocarcinoma (1)
Thrombocytopenia (1)
Wounds and Injuries (1)

Technology Type

Mass Spectrometry (55)
Shotgun proteomics (38)
Mass spectrometry assay (15)
Mass spectrometry (8)
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Data-independent acquisition (6)
Data-dependent acquisition (5)
Affinity purification coupled with mass spectrometry proteomics (3)
Gel-based experiment (3)
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SRM/MRM (1)
SWATH MS (1)
Top-down proteomics (1)

Instrument Platform

Illumina NovaSeq 6000 (12)
Illumina HiSeq 1500 (4)
Illumina HiSeq 2000 (4)
Illumina HiSeq 4000 (4)
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Not applicable (2)
Illumina HiSeq 1000 (2)
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6410 Triple Quadrupole LC/MS (1)
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LTQ Orbitrap (1)
LTQ Orbitrap XL (1)
LTQ Velos (1)

Publication Date

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2013 (51)
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2019 (38)
2014 (38)
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2010 (30)
2011 (22)
2017 (21)
2008 (18)
2012 (17)
2009 (14)
2007 (6)
2005 (6)
2006 (4)
2004 (1)

CHEBI ID

CHEBI:16708 (3)
CHEBI:30838 (3)
CHEBI:30887 (3)
CHEBI:42111 (3)
CHEBI:15891 (3)
CHEBI:15741 (3)
CHEBI:15428 (3)
CHEBI:18012 (3)
CHEBI:30915 (3)
CHEBI:15351 (3)
CHEBI:17822 (2)
CHEBI:16709 (2)
CHEBI:26271 (2)
CHEBI:17202 (2)
CHEBI:22660 (2)
CHEBI:17981 (2)
CHEBI:18186 (2)
CHEBI:16811 (2)
CHEBI:28300 (2)
CHEBI:16530 (2)
CHEBI:18009 (2)
CHEBI:15846 (2)
CHEBI:28044 (2)
CHEBI:27266 (2)
CHEBI:16704 (2)
CHEBI:15380 (2)
CHEBI:15996 (2)
CHEBI:17677 (2)
CHEBI:17050 (2)
CHEBI:15721 (2)

Metabolite Name

Glycine (7)
Creatinine (6)
Hypoxanthine (6)
Linoleamide (5)
EDTA (5)
Uracil (5)
Betaine (5)
Thymine (5)
Guanidoacetic acid (5)
Adenosine (5)
Cytosine (5)
Riboflavin (5)
Phosphorylcholine (5)
Uric acid (5)
Val-Ile (5)
Phenylalanylphenylalanine (4)
Pelargonic acid (4)
Histidine (4)
N-Acetylgalactosamine (4)
Acetoin (4)
N-Acetylcadaverine (4)
2-Ketobutyric acid (4)
2-Aminonicotinic acid (4)
3-Amino-4-methylpentanoic acid (4)
Gly-Ala (4)
Taurodeoxycholic acid (4)
N-Acetylalanine (4)
Ketoleucine (4)
2-Hydroxystearic acid (4)
2-Hydroxy-3-methylbutyric acid (4)

IsPrivate

False (5)

First Public Date

2025 (131)
2024 (107)
2026 (105)
2023 (77)
2021 (67)
2020 (54)
2014 (54)
2022 (52)
2019 (46)
2018 (23)
2017 (17)
2015 (8)
2016 (4)
2013 (4)

Modelling Approach

Ordinary differential equation model (5)

Modification

Not available (1)

Study type

Transcription profiling by array (167)
RNA-seq of coding RNA (36)
RNA-seq of coding RNA from single cells (13)
ChIP-seq (7)
Other (4)
Methylation profiling by array (4)
Transcription profiling by RT-PCR (3)
Comparative genomic hybridization by array (3)
Unknown experiment type (2)
ChIP-chip by tiling array (2)
Animal - One-color microarray (1)
MicroRNA profiling by high-throughput sequencing (1)
Human - Single-cell sequencing (1)
Human - High-throughput sequencing (1)
Cell line - One-color microarray (1)
ChIP-chip by array (1)
ATAC-seq (1)
MicroRNA profiling by array (1)
RNA-seq of total RNA (1)

Release Date

2025 (291)
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2024 (236)
2019 (170)
2018 (152)
2016 (145)
2015 (136)
2017 (121)
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2012 (56)
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2011 (44)
2010 (41)
2009 (30)
2008 (20)
2005 (10)
2006 (9)
2007 (6)
2004 (3)
2000 (2)
1998 (1)
1997 (1)

Lab affiliation

Goethe-Universität Frankfurt, Georg-Speyer-Haus, Paul-Ehrlich-Str. 42-44, Frankfurt am Main, GERMANY (3)
College of Pharmaceutical Sciences, Zhejiang University (2)
OncoProteomics Laboratory, Dept of Medical Oncology, VU University Medical Center, Amsterdam, The Netherlands (2)
University of Vienna, Faculty of Chemistry, Department of Analytical Chemistry (2)
1Laboratory of Cytometry, Nencki Institute of Experimental Biology, Polish Academy of Sciences, Warsaw, Poland (1)
1VIB Center for Medical Biotechnology (CMB), Ghent, 2Belgium Department of Biomolecular Medicine, Ghent University, Ghent, Belgium, 3Cancer Research Institute Ghent (CRIG), Ghent, Belgium. (1)
Bavarian Center for Biomolecular Mass Spectrometry (BayBioMS) Technical University Munich Gregor-Mendel-Straße 4 85354 Freising GERMANY (1)
Berlin Institute for Medical Systems Biology, Max-Delbrück-Center for Molecular Medicine, 10115, Berlin, Germany (1)
Biologics R&D Group/ Biomedical Program CSIRO Manufacturing Bayview Ave/ Research Way, Clayton, VIC3168 Australia (1)
Biotech Research & Innovation Center (BRIC), University of Copenhagen, Denmark (1)
Department of Biomedical Genetics, University of Rochester Medical Center, Rochester, NY 14642, USA Wilmot Cancer Institute, University of Rochester Medical Center, Rochester, NY 14642, USA (1)
Department of Biosciences & Medical Biology, Paris Lodron University of Salzburg, Austria. (1)
Department of Emergency Surgery, Union Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, China (1)
Department of Fundamental Neurosciences University of Lausanne Rue du Bugnon 9 1005 Lausanne (1)
Department of Fundamental Neurosciences, Rue du Bugnon 9, 1005, Lausanne (1)
Department of Hematopoiesis, Sanquin Research, Amsterdam, The Netherlands (1)
Department of Laboratory Medicine, Wiita Lab, University of California San Francisco (1)
Department of Obstetrics and Gynecology, School of Medicine, Stanford University, CA, USA. Igenomix Foundation, Instituto de Investigación Sanitaria Hospital Clínico (INCLIVA), Valencia, Spain (1)
Department of Tumor Immunology, Cancer Research Institute, Biomedical Research Center, Slovak Academy of Sciences, Bratislava, Slovakia (1)
Departments of Pathology and Microbiology & Immunology, Dalhousie University, Halifax, Canada. (1)
Dept. of Laboratory Medicine, University of California, San Francisco, CA (1)
Erasmus MC, Rotterdam (1)
Full professor, Federal University of São Paulo, Brazil. (1)
German Cancer Research Center (DKFZ),Division Systems Biology of Signal Transduction, INF 280, 69120 Heidelberg (1)
Istituto G. Gaslini (1)
Laboratory of Cytometry, Nencki Institute of Experimental Biology, Polish Academy of Sciences, Warsaw, Poland (1)
Maine Medical Center Research Institute, Proteomics and Lipidomics Facility, Scarborough, Maine, United States (1)
Marseille Proteomics, CRCM, Inserm UMR1068, CNRS UMR7258, Aix Marseille Université U105, Institut Paoli Calmettes (1)
Max-Planck Institute of Biochemistry and Institute of Immunology, University of Heidelberg Im Neuenheimer Feld 305, 2. OG 69120 Heidelberg Germany (1)
Molecular Proteomics Laboratory, Biomedical Research Center (BMFZ), Heinrich-Heine-University, Düsseldorf, Germany (1)

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GREM1 Deficiency induced Bone Marrow Adipose Niche promotes B-cell Acute Lymphoblastic Leukemia Disease Progression

Relapse and disease progression are the primary causes of treatment failure and subsequent mortality in children B-cell acute lymphocytic leukemia (B-ALL). At diagnosis and during treatment, the bone marrow adipose microenvironment is commonly observed in pediatric leukemia. However, the relationshi...

2024-09-23 | MTBLS10103 | MetaboLights

Comparative non-targeted LC-MS metabolomic profiling of murine bone marrow-derived macrophages cultured in 2D versus 3D

Macrophages are key drivers of inflammatory and fibrotic diseases and their activation is shaped by interactions in their tissue microenvironment. However, dissecting the processes that drive immunopathology has proved challenging as traditional 2D culture methods fail to capture the complex mole...

2026-06-08 | MTBLS12917 | MetaboLights

Harnessing Exogenous Stimuli and Functionally 3D Aligned Fibrous Scaffolds for Spatiotemporal Modulation of Bone Regeneration

Bone regeneration requires spatiotemporal coordination of immune modulation, stem cell recruitment, angiogenesis, and osteogenesis, yet most scaffolds lack sequential control across healing phases. We develop a near-infrared (NIR)-responsive therapeutic platform that integrates clinically av...

2026-03-04 | MTBLS13974 | MetaboLights

T cell acute leukaemia development and chemo-resistance are mediated by dynamic interactions with heterogeneous bone marrow microenvironments.

It is widely accepted that complex interactions between cancer cells and their surrounding microenvironment contribute to disease development, chemo-resistance and disease relapse. In light of this observed interdependency, novel therapeutic interventions that target specific cancer stroma cell line...

ORGANISM(S): Homo sapiens

2016-07-01 | E-MTAB-4889 | biostudies-arrayexpress

Chen2011/1 - bone marrow invasion absolute model

The paper describes a model of tumor invasion to bone marrow. Created by COPASI 4.26 (Build 213) This model is described in the article: Modeling invasion of metastasizing cancer cells to bone marrow utilizing ecological principles Kun-Wan Chen, Kenneth J Pienta Theoretical Biology and Medical ...

2024-09-02 | BIOMD0000000793 | BioModels

Chen2011/2 - bone marrow invasion relative model

2024-09-02 | BIOMD0000000795 | BioModels

Gene expression profiles in bone marrow of human gastric adenocarcinoma at stage III and stage IV

A secreted factor in bone marrow associated with metastatic gastric cancer was indentified through expression profiling in bone marrow of stage III and stage IV gastric adenocarcinoma. In the study presented here, bone marrow samples from patients with stage III or stage IV gastric adenocarcinoma we...

ORGANISM(S): Homo sapiens

2013-10-22 | E-GEOD-41801 | biostudies-arrayexpress

Metabolic-engineered probiotic-OMVs as nanovaccine mediating sequential immunomodulation for chronic bone infection immunotherapy

Chronic, drug-resistant bone infection caused by methicillin-resistant Staphylococcus aureus (MRSA) features an immunosuppressive niche enabling persistent infection and impaired bone healing. Specific treatment requires initial antibacterial immune activation against infection, followed by resha...

2026-03-19 | MTBLS14091 | MetaboLights

Transcription profiling of mesenchymal stem cells exposed to CM from tumor cells or bone marrow

Gene Expression profile of MSCs exposed to CM from tumor cells or bone marrow.

ORGANISM(S): Rattus norvegicus

2006-05-30 | E-MEXP-532 | biostudies-arrayexpress

Gene expression profile of bone marrow with post-irradiation radioprotector

To elucidate the mechanism of the in vivo radioprotection activity of Zn-containing heat-treated Saccharomyces cerevisiae yeast (Zn-yeast), expression changes in bone marrow after whole body irradiation (WBI) with concomitant treatment of Zn-yeast were analyzed using microarray technology. Keywords...

ORGANISM(S): Mus musculus

2010-09-27 | E-GEOD-18727 | biostudies-arrayexpress

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