Mouse lung tissue

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Unknown (3040)
Transcriptomics (2805)
Genomics (1349)
Proteomics (283)
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Other (29)
Methylation profiling (8)
Genomic (1)
Multiomics (1)

Organisms

Mus musculus (2517)
Homo sapiens (520)
Arabidopsis thaliana (168)
Rattus norvegicus (58)
Drosophila melanogaster (18)
Escherichia coli str. K-12 substr. MG1655 (9)
Sus scrofa (7)
Schistosoma mansoni (5)
Danio rerio (5)
Bos taurus (5)
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Aspergillus fumigatus (4)
Anopheles gambiae (3)
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Listeria monocytogenes EGD-e (2)
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Mus musculus domesticus (2)
mixed sample (2)
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Rhabdomys pumilio (1)
Arabidopsis thaliana x Arabidopsis halleri (1)
Veillonella parvula DSM 2008 (1)
Microtus ochrogaster (1)
Geranium dissectum (1)

Organisms

Mus musculus (812)
Homo sapiens (90)
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Mustela putorius furo (2)
Sus scrofa (2)
Amia calva (1)
Chlamydia muridarum (1)
Mesocricetus auratus (1)
Francisella tularensis subsp. tularensis (1)
Mus (1)
mouse metagenome (1)
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gut metagenome (1)
mouse gut metagenome (1)

Repository

biostudies-arrayexpress (2493)
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geo (599)
pride (187)
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jPOST (21)
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ExpressionAtlas (7)
PanoramaPublic (6)
GNPS (5)
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NODE (2)
dbGaP (1)
GPMDB (1)

Tissue

Lung (139)
Liver (51)
Heart (42)
Brain (35)
Kidney (35)
Spleen (30)
Testis (10)
Pancreas (8)
Skeletal muscle (8)
Colon (7)
Brown adipose tissue (5)
Adrenal gland (3)
Cerebellum (1)
Cerebral cortex (1)
Cortex of kidney (1)
Diaphragm (1)
Duodenum (1)
Embryonic tissue (1)
Eye (1)
Ileum (1)
Medulla oblongata (1)
Midbrain (1)
Olfactory bulb (1)
Ovary (1)
Renal medulla (1)
Saliva-secreting gland (1)
Skeletal muscle tissue (1)
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Uterus (1)

Disease

Normal (13)
Mammary tumor (3)
Porphyria NOS (2)
Rheumatoid arthritis (2)
Asthma (2)
Congential heart disease (1)
Pulmonary hypertension (1)
LPS-induced acute lung injury (1)
Diabetes mellitus type 1 (1)
Breast Normal (1)
Non-small cell lung cancer xenograft tumor (1)
Unspecified peripheral T-cell lymphoma (1)
Perilobar nephrogenic rest (1)
CUP (1)
Lung adenocarcinoma (1)
Mild asthma (1)
Xenografts with H1299 cell line (1)
Hodgkin lymphoma, mixed cellularity, stage IV (1)
MFC II (1)
Dukes D primary colon cancer (1)
Colon cancer metastasis (1)
IRAK-4 Q293X mutation (1)
Fibrosis (1)
Gestational diabetes mellitus (1)
None- acute control (1)
Hyperglycaemic (1)
Tuberculosis (1)
Small cell lung carcinoma (1)
SS2-infected (1)
Spinal muscular atrophy (NCI Metathesaurus C0026847) has DiseaseStaging postsymptomatic (1)

Technology Type

Mass Spectrometry (190)
Shotgun proteomics (99)
Bottom-up proteomics (43)
Data-independent acquisition (28)
Data-dependent acquisition (27)
Mass spectrometry (20)
Mass spectrometry assay (14)
SWATH MS (13)
Top-down proteomics (8)
Affinity purification coupled with mass spectrometry proteomics (6)
NMR spectroscopy (3)
ESI (3)
Gel-based experiment (3)
SRM/MRM (3)
NMR (2)
Proteogenomics (2)
HiSeq X Ten (ILLUMINA) (1)
NMR spectroscopy assay (1)
DiaPASEF (1)
Mass spectrometry imaging (1)

Instrument Platform

Illumina NovaSeq 6000 (111)
NextSeq 500 (69)
Illumina HiSeq 4000 (60)
Illumina HiSeq 2500 (53)
Illumina HiSeq 2000 (29)
NextSeq 550 (17)
Illumina MiSeq (13)
NextSeq 2000 (10)
Illumina NovaSeq X (9)
Axon GenePix 4000B scanning hardware (8)
Illumina HiSeq 3000 (6)
Illumina Genome Analyzer II (5)
DNBSEQ-T7 (5)
BGISEQ-500 (5)
Illumina HiSeq 1500 (5)
NA (4)
DNBSEQ-G400 (4)
Affymetrix GeneChip(R) HT Scanner (3)
Affymetrix GeneChip Scanner 3000 7G (3)
G2565BA DNA microarray scanner [Agilent] (3)
Scanning hardware (3)
Ion Torrent Proton (3)
Thermomixer (2)
Single-Cell Extraction: For enzymatic digestion, pronase (Septomyces argeus, 1 mg/mL) was applied for 25 minutes at room temperature for P0 to P8 datasets. Cells were dissociated and triturated into a single-cell suspension in ACSF supplemented with 1% fetal calf serum (FCS) and DNase (1 µL/10 mL). Trituration was performed using three glass Pasteur pipettes of decreasing diameters. For P30 datasets, enzymatic digestion and cell dissociation were carried out using the Worthington Papain Dissociation System, following the manufacturer’s instructions. Single-Nuclei Extraction: For nuclei isolation, the Hibernate™-E Medium was removed, and 500 µL of chilled 0.1X NP40 Lysis Buffer was added. Tissue was homogenized using a Pellet Pestle (15 strokes) and incubated on ice for 5 minutes. The suspension was pipette-mixed 10 times using a wide-bore pipette tip and incubated for an additional 10 minutes on ice. Following lysis, 500 µL of chilled wash buffer was added, and the mixture was pipette-mixed 5 times using a regular-bore pipette tip. The suspension was filtered through a 30 µm cell strainer into a 50 mL tube to remove debris. The filtered suspension was transferred to a 1.5 mL tube and centrifuged at 950 × g for 10 minutes at 4°C. The supernatant was carefully removed, and the nuclei pellet was retained for downstream analysis. (2)
10x Chromium (2)
ScanArray 4000 [PerkinElmer] (2)
GenePix Professional 4200A [Axon Instruments] (2)
BAS-5000 [FUJIFILM] (2)
Illumina Genome Analyzer IIx (2)
Axon- GenePix4000B (2)

Publication Date

2013 (293)
2015 (281)
2014 (239)
2012 (236)
2010 (234)
2016 (203)
2011 (191)
2026 (190)
2025 (187)
2008 (158)
2023 (157)
2022 (143)
2024 (130)
2009 (130)
2021 (119)
2020 (110)
2007 (80)
2019 (73)
2005 (66)
2017 (63)
2018 (61)
2006 (52)
2004 (12)
2003 (1)

UNIPROT ID/AC

1433E_MOUSE (8)
2AAA_MOUSE (8)
3HIDH_MOUSE (8)
6PGL_MOUSE (8)
A1AT1_MOUSE (8)
AATC_MOUSE (8)
AATM_MOUSE (8)
ABCD3_MOUSE (8)
ACBP_MOUSE (8)
ACINU_MOUSE (8)
ACL6A_MOUSE (8)
ACON_MOUSE (8)
ACOX1_MOUSE (8)
ACTA_MOUSE (8)
ACTN4_MOUSE (8)
ADK_MOUSE (8)
ADT1_MOUSE (8)
AHSA1_MOUSE (8)
AIFM1_MOUSE (8)
ALBU_MOUSE (8)
ALDH2_MOUSE (8)
ALDOA_MOUSE (8)
ALDR_MOUSE (8)
AMPL_MOUSE (8)
AMRP_MOUSE (8)
ANXA6_MOUSE (8)
AP2M1_MOUSE (8)
APOA1_MOUSE (8)
APOA2_MOUSE (8)
ARI1A_MOUSE (8)

CHEBI ID

CHEBI:18012 (9)
CHEBI:30769 (9)
CHEBI:15354 (7)
CHEBI:15422 (7)
CHEBI:15428 (7)
CHEBI:15891 (7)
CHEBI:16027 (7)
CHEBI:16704 (7)
CHEBI:16708 (7)
CHEBI:16761 (7)
CHEBI:16919 (7)
CHEBI:15741 (6)
CHEBI:16737 (6)
CHEBI:16811 (6)
CHEBI:16908 (6)
CHEBI:18237 (6)
CHEBI:22653 (6)
CHEBI:22660 (6)
CHEBI:25017 (6)
CHEBI:25094 (6)
CHEBI:26271 (6)
CHEBI:27266 (6)
CHEBI:27570 (6)
CHEBI:28044 (6)
CHEBI:28300 (6)
CHEBI:29016 (6)
CHEBI:32816 (6)
CHEBI:6650 (6)
CHEBI:15355 (5)
CHEBI:15724 (5)

Metabolite Name

Creatine (11)
Creatinine (10)
Adenosine (9)
Cytidine (9)
ADP (8)
Anserine (8)
Choline (8)
Cytosine (8)
Histamine (8)
Uridine (8)
Acetylcholine (7)
Adenine (7)
Carnosine (7)
Cholesterol (7)
Guanosine (7)
Histidine (7)
Phenylalanine (7)
Phosphorylcholine (7)
Pyridoxine (7)
Taurine (7)
Uracil (7)
ATP (6)
Arginine (6)
Betaine (6)
CDP (6)
CMP (6)
Citrulline (6)
Diethanolamine (6)
Guanine (6)
Hypoxanthine (6)

First Public Date

2025 (168)
2014 (138)
2026 (132)
2024 (122)
2023 (119)
2022 (82)
2021 (70)
2020 (57)
2019 (47)
2017 (44)
2015 (43)
2018 (35)
2016 (16)
2013 (10)

Classification

bacteria (1)

Modification

6-dioxaoctanediamine derivatized cysteine (1)

Study type

Transcription profiling by array (1566)
RNA-seq of coding RNA (329)
ChIP-seq (151)
RNA-seq of coding RNA from single cells (95)
Other (35)
Animal - High-throughput sequencing (25)
ChIP-chip by array (24)
Comparative genomic hybridization by array (24)
Methylation profiling by array (24)
Unknown experiment type (23)
ChIP-chip by tiling array (23)
Methylation profiling by high throughput sequencing (22)
RNA-seq of non coding RNA (17)
DNA-seq (14)
RNA-seq of total RNA (12)
Transcription profiling by RT-PCR (11)
ATAC-seq (10)
Cell line - High-throughput sequencing (9)
Transcription profiling by tiling array (8)
Animal - One-color microarray (6)
MicroRNA profiling by array (6)
Genotyping by array (4)
Single nucleus RNA sequencing (4)
Transcription profiling by SAGE (3)
Human - High-throughput sequencing (3)
CLIP-seq (3)
Spatial transcriptomics by high-throughput sequencing (3)
Hi-C (3)
CUT&RUN (3)
Differential (2)

Release Date

2022 (382)
2023 (360)
2025 (357)
2021 (355)
2015 (346)
2024 (346)
2013 (345)
2014 (339)
2016 (318)
2020 (311)
2012 (282)
2010 (263)
2011 (239)
2019 (225)
2018 (194)
2017 (194)
2008 (176)
2009 (150)
2026 (93)
2007 (93)
2005 (75)
2006 (54)
2004 (13)
2003 (6)
1997 (5)
2002 (4)
2000 (4)
1999 (2)
1998 (2)

Lab affiliation

Philip Morris International R&D, Philip Morris Products S.A., Quai Jeanrenaud 5, 2000 Neuchâtel, Switzerland (5)
Boehringer Ingelheim Pharma GmbH & Co. KG Drug Discovery Sciences (3)
University of Vienna, Faculty of Chemistry, Department of Analytical Chemistry (3)
Boston University (2)
College of Chemistry and Molecular Engineering, Peking University, Beijing, China. (2)
Department of Biomedicine Faculty of medicine and Dentistry University of Bergen Service box 7804 N-5020 Bergen Norway (2)
Division Systems Biology of Signal Transduction, German Cancer Research Center (DKFZ), Heidelberg, Germany (2)
Institute of Molecular Medicine and Experimental Immunology, BMZ-II, Building 12, University Hospital Bonn (2)
Lund University, Faculty of Medicine, Department of Clinical Sciences Lund, Division of Infection Medicine, Lund, Sweden (2)
Philip Morris International R&D, Philip Morris Products S.A., Quai Jeanrenaud 5, 2000 Neuchatel, Switzerland (2)
State Key Laboratory of Microbial Metabolism (2)
"Philip Morris R&D, Neuchatel, Switzerland" (1)
1) Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center (MDACC), Houston, TX 77030, USA 2) Proteomics Core Facility, Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center (MDACC), Houston, TX 77030, USA 3) Metabolomics Core Facility, Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center (MDACC), Houston, TX 77030, USA (1)
1) Department of Cancer Biology, Dana–Farber Cancer Institute, Boston, MA, USA. 2) Department of Cell Biology, Harvard Medical School, Boston, MA, USA. (1)
1) Department of Molecular and Applied Microbiology, Leibniz Institute for Natural Product Research and Infection Biology – Hans Knöll Institute, Jena, Germany 2) Department of Microbiology and Molecular Biology, Friedrich Schiller University, Jena, Germany (1)
1)Departament Ciències Mèdiques Bàsiques, Facultat de Medicina, Universitat de Lleida. 2)Cell Cycle Laboratory, Institut de Recerca Biomedica de Lleida (IRBLleida). Av. Alcalde Rovira Roure, 80, 25198, Lleida, Catalonia. Spain (1)
Aging Institute, University of Pittsburgh School of Medicine/UPMC (1)
Assistant Professor, Dept. of Basic Sciences, College of Veterinary Medicine, Mississippi State University, Mississippi State, MS 39762 (1)
Associate Professor Dept. of Pathology and Laboratory Medicine HSRF 218, University of Vermont Larner College of Medicine Burlington, Vermont, 05405, USA (1)
Barts Cancer Institute, Queen Mary University of London (1)
Beijing Key Laboratory for Radiobiology, Beijing Institute of Radiation Medicine, Beijing 100850, P.R. China (1)
Beijing University of Chinese Medicine (1)
Binzhou Medical University (1)
Biochemistry and Molecular Biology, Michael Smith Laboratories, University of British Columbia, Canada (1)
Biochemistry and Molecular Biology, University of British Columbia, Canada (1)
Biognosys AG, Schlieren, Switzerland (1)
Biological Mass Spectrometry Lab Department of Translational Medicine (DiMeT) Center for Translational Research on Autoimmune & Allergic Diseases - CAAD University of Piemonte Orientale Corso Trieste 15/A, 28100, Novara, Italy (1)
Biotech Research and Innovation Centre (BRIC) University of Copenhagen, Copenhagen, Denmark (1)
CAS Key Laboratory of Special Pathogens and Biosafety, Center for Biosafety Mega-Science, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan, 430071, China. (1)
CIR, Queen’s Medical Research Institute, University of Edinburgh (1)

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Spatially resolved integrative analysis of transcriptomic and metabolomic changes in tissue injury studies

Recent developments in spatially resolved -omics have enabled the joint study of gene expression, metabolite levels and tissue morphology, offering greater insights into biological pathways. Integrating these modalities from matched tissue sections to probe spatially-coordinated processes, howeve...

2025-12-03 | MTBLS13445 | MetaboLights

Mouse Brown Adipose Tissue Lipidomics under Cold and Dietary Fat Interventions

This study investigates lipidomic remodeling in mouse brown adipose tissue under a 2 × 3 experimental design involving environmental condition and dietary fatty acid composition. Mice were maintained at room temperature with ad libitum feeding or exposed to 4°C cold conditions with 70% calorie restr...

2026-06-01 | MTBLS14642 | MetaboLights

Lactobacillus johnsonii-derived oxindole protects acute lung injury by reducing CXCL13

Gut microbiota is altered in mice with acute lung injury (ALI). Supplementation with Lactobacillus johnsonii, which is deficient in it, improved ALI in mice, and we elucidated the underlying mechanisms of the improvement by metabolomics.

2026-02-12 | MTBLS11438 | MetaboLights

Transcription profiling of mouse secondary alveolar septae of neonatal lung tissue

The tips of secondary alveolar septae in day 6 neonatal mouse lung tissue were isolated using laser capture microscopy. RNA was isolated from pooled secondary alveolar tips and also from pooled neonatal day 6 whole lung tissue. The isolated RNAs were then amplified in parallel. Gene array profiling ...

ORGANISM(S): Mus musculus

2008-06-12 | E-GEOD-4220 | biostudies-arrayexpress

Ten Mouse Organs Proteome and Metabolome Atlas from Adult to Aging

The complexity of the aging process, encompassing numerous organs and systems, poses a significant challenge in identifying and targeting key factors that drive age-related decline. The multi-organ synchronous molecular intricacies underlying natural aging remain elusive. Here we presented a data...

2025-08-29 | MTBLS10642 | MetaboLights

Quantitative metabolomics of plasma and tissue interstitial fluids from mice

This study presents quantitative metabolomic measurements of plasma and tissue interstitial fluids (IF) collected from healthy C57BL/6J mice. Using liquid chromatography–mass spectrometry (LC–MS) and external chemical standards, absolute concentrations were determined for over one hundred polar m...

2025-12-30 | MTBLS13165 | MetaboLights

Transcription profiling of mouse lung tissue after exposure to mainstream tobacco smoke

We have examined the impact of subchronic levels of tobacoo smoke on murine lungs. We have used high density DNA microarray and analysed lung tissues from mice exposed to mainstream tobacco smoke (MTS). Our results reveal induction of inflammatory cytokine interleukin-6 (IL-6) and its antagonist sup...

ORGANISM(S): Mus musculus

2009-09-18 | E-GEOD-12930 | biostudies-arrayexpress

Fecal Microbiota Transplantation Restores Gut Homeostasis and Enhances ER-Phagy to Mitigate Radiation-Induced Lung Injury

Radiation-induced lung injury (RILI) is a severe side effect of radiation therapy, characterized by lung tissue damage, inflammation, and organ dysfunction. Although fecal microbiota transplantation (FMT) has shown potential in alleviating radiation-induced damage, its underlying mechanisms ...

2026-01-05 | MTBLS12699 | MetaboLights

Spatial transcriptomics (Visium, 10x Genomics) data for human Idiopathic Pulmonary Fibrosis (IPF) and control lung tissue

Visium (10x Genomics) spatially resolved transcriptomics data generated from normal and Idiopathic Pulmonary Fibrosis (IPF) lung parenchyma tissues collected from human donors. The fresh-frozen tissues that were analyzed were from four healthy control (HC) subjects and from four IPF patients. For ea...

ORGANISM(S): Homo sapiens

2024-05-28 | E-MTAB-14121 | biostudies-arrayexpress

Integrating Proteomes for Lung Tissue and Lavage Reveals Pathways that Integrate Responses in Allergen-Challenged Mice

To capture interplay between biological pathways we analyzed the proteome from matched lung tissue and bronchoalveolar lavage fluid (BALF) of individual allergen-naive and house dust mite (HDM)-challenged BALB/c mice, a model of allergic asthma. Unbiased label-free LC-MS/MS analysis quantified 2,675...

ORGANISM(S): Mus Musculus (ncbitaxon:10090)

2020-08-24 | MSV000086003 | MassIVE

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