Age-dependent - OmicsDI

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Mus musculus (821)
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Instrument Platform

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HiSeq X Ten (3)
Illumina HiSeq 3000 (3)
NA (3)
- (3)
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)
BAS-5000 [FUJIFILM] (2)
Axon- GenePix4000B (2)
Affymetrix Fluidics Station 400 (2)
Ion Torrent Proton (2)
NextSeq 2000 (2)
DNBSEQ-T7 (2)
TruSeq stranded Total RNA kit (1)
Dell precision T7500 (1)
Infinium MethylationEPIC v2.0 Kit (1)
Wizard Genomic DNA Purification Kit (1)
Qiagen RNEasy Mini ki (1)
BD FACSAriaIIu cell sorter (1)
Poly-T oligo-attached magnetic beads (1)
STAR v2.5.3a, rpkmforgenes, RSeQC 2.6.1 (1)

Publication Date

2010 (483)
2013 (390)
2014 (352)
2015 (325)
2012 (309)
2026 (267)
2011 (262)
2025 (253)
2008 (218)
2023 (204)
2024 (192)
2022 (183)
2021 (173)
2016 (172)
2009 (118)
2020 (112)
2018 (100)
2017 (92)
2019 (86)
2007 (85)
2005 (21)
2006 (21)
2004 (18)
2003 (2)
2002 (1)

UNIPROT ID/AC

OTOGL_MOUSE (2)
ZRAN1_MOUSE (2)
F6QRE9_MOUSE (2)
TTL11_MOUSE (2)
SAXO2_MOUSE (2)
GRCR1_MOUSE (2)
DIAP3_MOUSE (2)
OC90_MOUSE (2)
Q8BFW6_MOUSE (2)
CRIP3_MOUSE (2)
AGR3_MOUSE (2)
OTOL1_MOUSE (2)
TT21A_MOUSE (2)
OTOAN_MOUSE (2)
NKX32_MOUSE (2)
TEKT3_MOUSE (2)
KNCN_MOUSE (2)
ACBD7_MOUSE (2)
A0A087WQ89_MOUSE (2)
TRFM_MOUSE (2)
NHSL2_MOUSE (2)
PP16A_MOUSE (2)
CAH7_MOUSE (2)
ADA11_MOUSE (2)
KCA10_MOUSE (2)
NAC2_MOUSE (2)
ABCA5_MOUSE (2)
CC151_MOUSE (2)
RSH4A_MOUSE (2)
CC114_MOUSE (2)

ENSEMBL ID

ENSMUSP00000141542 (2)
ENSMUSP00000141097 (2)
ENSMUSG00000098557 (2)

CHEBI ID

CHEBI:30769 (21)
CHEBI:15428 (19)
CHEBI:28044 (19)
CHEBI:15354 (19)
CHEBI:16704 (18)
CHEBI:18012 (18)
CHEBI:18237 (17)
CHEBI:6650 (17)
CHEBI:30915 (17)
CHEBI:25017 (16)
CHEBI:32816 (16)
CHEBI:16335 (15)
CHEBI:15891 (15)
CHEBI:16449 (15)
CHEBI:16737 (15)
CHEBI:16919 (15)
CHEBI:17596 (15)
CHEBI:17368 (15)
CHEBI:26271 (14)
CHEBI:25094 (14)
CHEBI:22660 (14)
CHEBI:18186 (14)
CHEBI:18257 (14)
CHEBI:17191 (14)
CHEBI:28300 (13)
CHEBI:16708 (13)
CHEBI:17268 (13)
CHEBI:27266 (13)
CHEBI:16414 (13)
CHEBI:67079 (1)

Metabolite Name

Creatine (13)
Hypoxanthine (13)
Creatinine (11)
Leucine (10)
Choline (10)
Choline (10)
Alanine (10)
L-Valine (10)
Uridine (9)
Pyroglutamic acid (9)
L-Threonine (9)
Taurine (9)
Phenylalanine (9)
Adenine (9)
Uridine (9)
L-Tyrosine (9)
Glycine (8)
Proline (8)
Phenylalanine (8)
Creatine (8)
Valine (8)
Adenosine (8)
Pantothenic acid (8)
Citric acid (8)
Tyrosine (8)
Adenosine (8)
L-Glutamine (8)
Glutamine (8)
Glucose (8)
Uric acid (8)

First Public Date

2026 (269)
2025 (235)
2014 (191)
2024 (174)
2023 (159)
2021 (124)
2022 (115)
2020 (93)
2018 (83)
2019 (70)
2017 (64)
2015 (42)
2016 (29)
2013 (16)

Modelling Approach

Ordinary differential equation model (5)

Study status

Enrolling by invitation (1)
Not provided (1)
Recruiting (1)
Completed (1)

Lab affiliation

Center for Translational Vision Research, Department of Ophthalmology, Gavin Herbert Eye Institute, University of California, Irvine, Irvine, CA, 92697, USA; Department of Physiology and Biophysics, Department of Chemistry, Department of Molecular Biology and Biochemistry; University of California, Irvine, Irvine, CA, 92697, USA (3)
Inserm U1016, Institut Cochin, 24 rue du Faubourg Saint-Jacques, 75014 PARIS, FRANCE. (2)
Department of Cell Biology and Physiology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599 (2)
1VIB Center for Medical Biotechnology, VIB, Ghent, 9052, Belgium 2Department of Biomolecular Medicine, Ghent University, Ghent, 9052, Belgium (2)
Life and Environmental Sciences Department (Biomedical Section) - University of Cagliari (2)
Radboud university medical center, Radboud Institute for Health Sciences, Department of Hematology The Netherlands (2)
International Institute of Molecular and Cell Biology in Warsaw, Poland (2)
DZNE Munich Neuroproteomics Feodor-Lynen Str. 17 81377 Munich Germany (2)
ReMedy International Research Agenda Unit, IMol Polish Academy of Sciences, Warsaw, Poland (2)
Boehringer Ingelheim Pharma GmbH & Co. KG Drug Discovery Sciences (2)
College of Pharmacy, Research Institute of Pharmaceutical Sciences, Kyungpook National University (2)
Dept of Experimental Medical Science, Wallenberg Neuroscience Center, Lund University, Sweden (2)
National Key Laboratory of Medical Molecular Biology & Department of Immunology, Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences (2)
Karolinska Institutet (2)
Instituto de Investigaciones Sanitarias de Santiago de Compostela (2)
Laboratory of Vaccines for the Developing World, Institute for Glycomics, Southport, QLD, Australia (1)
Harvard Medical School Department of Neurobiology (1)
Dept. of Biological Chemistry The Alexander Silberman Institute of Life Science The Hebrew University of Jerusalem (1)
Department of Medical Sciences iBiMED University of Aveiro (1)
Mass spectrometry facility, Functional Proteomics, SFB 815 Core Unit, Goethe-Universität, Frankfurt am Main, Germany (1)
Traumatic Brain Injury Research, Roskamp Institute, Sarasota, FL, USA (1)
Roskamp Institute, Neurodegenerative Disease and Proteomics Lab, Sarasota, FL (1)
Center for Diagbostik, Institute of Neuropathology, University Medical Center Hamburg Eppendorf, Germany (1)
laboratory for medical massspectrometry (1)
1 Institut de Pharmacologie et de Biologie Structurale (IPBS), Université de Toulouse, CNRS, Toulouse, France. Equipe labellisée par la Ligue contre le cancer 2 Infrastructure Nationale de Protéomique, ProFI, FR 2048, Toulouse, France. (1)
Wolfson Centre for Inherited Neuromuscular Disease, TORCH Building, RJAH Orthopaedic Hospital, Oswestry, SY10 7AG, UK (1)
Director UAB Proteomics Facility, Professor UAB Anesthesiology (1)
Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Australia (1)
Department of Cellular and Molecular Medicine, University of Ottawa, Ottawa, ON, Canada (1)
B CUBE - Center for Molecular Bioengineering, Technische Universität Dresden, Tatzberg 41, 01307 Dresden, Germany (1)

Keyword

Zearalenone (1)
Mycotoxin (1)
Gastrointestinal bacterial (1)
Lithium Carbonate (1)
Chemopreventive therapy (1)
Adenoma development (1)

IsPrivate

False (6)

Model Flag

Non Kinetic (1)

Classification

viruses (2)
protozoa (2)
bacteria (2)

Modification

N6 (1)
4-tetrahydrothiazine-3-carboxylic acid (1)

Study type

Transcription profiling by array (1690)
RNA-seq of coding RNA (296)
ChIP-seq (155)
ChIP-chip by tiling array (124)
RNA-seq of non coding RNA (70)
Methylation profiling by array (60)
RNA-seq of coding RNA from single cells (58)
Unknown experiment type (54)
Transcription profiling by tiling array (49)
Comparative genomic hybridization by array (36)
Other (32)
Methylation profiling by high throughput sequencing (21)
ChIP-chip by array (13)
Proteomic profiling by array (13)
Transcription profiling by SAGE (12)
Animal - High-throughput sequencing (10)
Cell line - High-throughput sequencing (9)
DNA-seq (8)
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Human - High-throughput sequencing (3)
Capture-C (3)
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Bisulfite-seq (3)
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Baseline (2)
RNAi profiling by array (2)
CUT&RUN (2)

Release Date

2022 (2001)
2025 (1887)
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2023 (1762)
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2020 (1424)
2019 (1103)
2018 (1052)
2017 (883)
2015 (873)
2016 (855)
2014 (818)
2013 (721)
2010 (618)
2012 (593)
2011 (484)
2026 (312)
2008 (312)
2009 (282)
2007 (133)
2006 (54)
2005 (43)
2004 (29)
2002 (15)
2003 (14)
2001 (12)
2000 (4)
1998 (4)
1999 (2)
1997 (1)

Location

Poland (1)
Netherlands (1)
United Kingdom (1)

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Exploration of age-dependent changes of phospholipid profiles in C. elegans depleted of tif-IA and ncl-1

Not available

ORGANISM(S): Caenorhabditis elegans

ST002324 | MetabolomicsWorkbench

Analysis of age-dependent changes of triacylglycerol species in C. elegans depleted of tif-IA and ncl-1

Not available

ORGANISM(S): Caenorhabditis elegans

ST002326 | MetabolomicsWorkbench

Lipidomic profiling reveals age-dependent changes in complex plasma membrane lipids that regulate neural stem cell aging (Part 2)

Not available

ORGANISM(S): Mus musculus

ST002258 | MetabolomicsWorkbench

Lipidomic profiling reveals age-dependent changes in complex plasma membrane lipids that regulate neural stem cell aging (Part 1)

Not available

ORGANISM(S): Mus musculus

ST002257 | MetabolomicsWorkbench

Lipidomic profiling reveals age-dependent changes in complex plasma membrane lipids that regulate neural stem cell aging (Part 4)

Not available

ORGANISM(S): Mus musculus

ST002260 | MetabolomicsWorkbench

Lipidomic profiling reveals age-dependent changes in complex plasma membrane lipids that regulate neural stem cell aging (Part 3)

Not available

ORGANISM(S): Mus musculus

ST002259 | MetabolomicsWorkbench

miRNAs in age-dependent renal impairment

PRJNA816716 | ENA

Intrinsic age-dependent changes and cell-cell contacts regulate nephron progenitor lifespan

Purpose: To use single-cell RNA-Seq analysis of nephron progenitors in order to determine transcrptional differences as nephron progenitors age. Methods: Using a combination of FACS sorting and a Fluidigm Single-cell auto-prep system, we generated high-throughput RNA-SEQ data of nephron progenitors ...

ORGANISM(S): Mus musculus

2015-12-23 | E-GEOD-66202 | biostudies-arrayexpress

Calorie restriction suppresses age-dependent hippocampal transcriptional signatures.

Calorie restriction (CR) enhances longevity and mitigates aging phenotypes in numerous species. Physiological responses to CR are cell-type specific and variable throughout the lifespan; however, the mosaic of molecular changes responsible CR benefits remain unclear, particularly in brain regions su...

ORGANISM(S): Mus musculus

2015-07-14 | E-GEOD-69952 | biostudies-arrayexpress

MiR-29 coordinates age-dependent plasticity brakes in the adult visual cortex

Visual cortical circuits show profound plasticity during early life and are later stabilized by molecular "brakes" limiting excessive circuit rewiring beyond a critical period. How the appearance of these factors is coordinated during the transition from development to adulthood remains unknown. We ...

ORGANISM(S): Mus musculus (Mouse)

2020-11-04 | PXD016358 | Pride

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