Franke M M - OmicsDI

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Unknown (1520)
Transcriptomics (48)
Proteomics (43)
Genomics (19)
Genomic (1)
Metabolomics (1)

Organisms

Homo sapiens (59)
Mus musculus (29)
Pseudomonas aeruginosa UCBPP-PA14 (2)
Dehalococcoides mccartyi BTF08 (2)
Rattus norvegicus (2)
Methanobacteria (1)
Drosophila simulans (1)
Bacillus subtilis (1)
Pseudomonas aeruginosa (1)
Bacteria (1)
Callitrichinae sp. (1)
Desulfofundulus kuznetsovii DSM 6115 (1)
Exiguobacterium sp. 10(2011) (1)
Methylomonas sp. LL1 (1)
Microbacterium oxydans (1)
Pseudomonas aeruginosa PA14 (1)
gut metagenome (1)

Repository

biostudies-arrayexpress (54)
pride (30)
EGA (14)
MassIVE (13)
dbGaP (1)
MetaboLights (1)

Tissue

Cell culture (10)
Embryonic stem cell (3)
Blood cell (2)
Colon (2)
Ileum (2)
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Disease

Normal (2)
Marsh 3 (1)
Acute leukemia (1)
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Crohn's disease (1)
Disease free (1)
Inflammatory bowel disease (1)
Irritable bowel syndrome (1)
Ulcerative colitis (1)

Technology Type

Mass Spectrometry (30)
Shotgun proteomics (18)
Affinity purification coupled with mass spectrometry proteomics (5)
Bottom-up proteomics (5)
Data-dependent acquisition (3)
Gel-based experiment (3)
Data-independent acquisition (2)
Illumina (various), Illumina (Various) (1)
Mass spectrometry (1)
DiaPASEF (1)
SWATH MS (1)

Instrument Platform

Illumina HiSeq 2500 (6)
NextSeq 550 (4)
Illumina HiSeq 4000 (4)
GC MS (4)
LTQ Orbitrap Velos (4)
Illumina NovaSeq 6000 (3)
GC-MS (3)
NextSeq 2000 (2)
NextSeq 500 (2)
NA (1)
Illumina HiSeq 2000 (1)
Agilent 7890A GC with 5975C inert XL MSD (1)
LTQ Orbitrap (1)
Flow injection analysis MS - (1)

Publication Date

2021 (13)
2023 (10)
2016 (10)
2015 (10)
2018 (10)
2012 (7)
2014 (6)
2026 (5)
2020 (5)
2025 (4)
2024 (3)
2017 (3)
2013 (3)
2011 (3)
2022 (2)
2019 (1)
2010 (1)
2007 (1)
2005 (1)

CHEBI ID

CHEBI:10022 (1)
CHEBI:10075 (1)
CHEBI:10137 (1)
CHEBI:10366 (1)
CHEBI:10368 (1)
CHEBI:10432 (1)
CHEBI:121564 (1)
CHEBI:12427 (1)
CHEBI:125536 (1)
CHEBI:12777 (1)
CHEBI:131691 (1)
CHEBI:131692 (1)
CHEBI:131743 (1)
CHEBI:132966 (1)
CHEBI:132983 (1)
CHEBI:133086 (1)
CHEBI:133094 (1)
CHEBI:133343 (1)
CHEBI:133348 (1)
CHEBI:133478 (1)
CHEBI:133512 (1)
CHEBI:133515 (1)
CHEBI:133617 (1)
CHEBI:133763 (1)
CHEBI:134126 (1)
CHEBI:134254 (1)
CHEBI:134287 (1)
CHEBI:134442 (1)
CHEBI:134515 (1)
CHEBI:134548 (1)

Metabolite Name

(+)-(1R,2R)-1,2-Diphenylethane-1,2-diol (1)
(+)-Isoxanthochymol (1)
(+)-O-Methylarmepavine (1)
(+)-Setoclavine (1)
(+)-Zeylenol (1)
(+-)-(Z)-2-(5-Tetradecenyl)cyclobutanone (1)
(+-)-3-Hydroxynonanoic acid (1)
(+-)-Anisoxide (1)
(+-)-threo-1-(p-Hydroxyphenyl)propylene glycol 4'-glucoside (1)
(+/-)-3-[(2-methyl-3-furyl)thio]-2-butanone (1)
(-)-Epiafzelechin 3-gallate (1)
(-)-Gossypol (1)
(-)-Nopol (1)
(-)-erythro-Anethole glycol 1-glucoside (1)
(-)-trans-Carveol (1)
(-)-trans-Carveol glucoside (1)
(10S,11S)-Pterosin C (1)
(12S,15S)-15-O-Demethyl-10,29-dideoxy-11,12-dihydro-striatin C (1)
(1R,3R,4R,5S,6S,8x)-1-Acetoxy-8-angeloyloxy-3,4-epoxy-5-hydroxy-7(14),10-bi... (1)
(1R,3S,4S,6R)-6,9-Dihydroxyfenchone 6-O-b-D-glucoside (1)
(1Z,4Z)-1,5-bis(4-hydroxyphenyl)-1,4-pentadiene (1)
(1xi,3xi)-1,2,3,4-Tetrahydro-1-methyl-beta-carboline-3-carboxylic acid (1)
(2-Naphthalenyloxy)acetic acid (1)
(20R)-Ginsenoside Rh2 (1)
(2R,2'S)-Isobuteine (1)
(2R,3R,4R)-2-Amino-4-hydroxy-3-methylpentanoic acid (1)
(2R,3S)-Piscidic acid (1)
(2S,4R,6S)-2-[2-(4-Hydroxy-3-methoxyphenyl)ethyl]tetrahydro-6-(4-hydroxy-3,5-dimethoxyphenyl)-2H-pyran-4-ol (1)
(2S,4S,6S)-2-[2-(4-Hydroxy-3-meyhoxyphenyl)ethyl]tetrahydro-6-(4,5-dihydroxy-3-methoxyphenyl)-2H-pyran-4-ol (1)
(2xi,6xi)-7-Methyl-3-methylene-1,2,6,7-octanetetrol (1)

Study type

Transcription profiling by array (17)
RNA-seq of coding RNA (14)
Methylation profiling by array (6)
ChIP-seq (5)
RNA-seq of non coding RNA (3)
Cell line - High-throughput sequencing (2)
RNA-seq of coding RNA from single cells (2)
GRO-seq (1)
Translation profiling (1)
Comparative genomic hybridization by array (1)
RIP-seq (1)

Release Date

2021 (171)
2023 (148)
2022 (144)
2024 (128)
2025 (120)
2020 (117)
2019 (109)
2017 (100)
2018 (92)
2015 (87)
2016 (80)
2014 (50)
2012 (49)
2013 (36)
2011 (36)
2010 (36)
2026 (28)
2009 (10)
2008 (10)
2007 (7)
2004 (4)
2005 (2)
2006 (2)
2002 (2)
2001 (2)
2000 (1)
1999 (1)
1997 (1)
1995 (1)

Lab affiliation

Medical University of Vienna, Austria (3)
Department Isotope Biogeochemistry, Helmholtz Centre for Environmental Research – UFZ, Permoserstrasse 15, 04107 Leipzig, Germany (2)
Max Delbrück Center for Molecular Medicine in the Helmholtz Association (2)
University of Konstanz, Department of Biology, Biophysics & Structural Biology, Germany (2)
3 Division of Molecular Genetics, Netherlands Cancer Institute, Amsterdam, The Netherlands (1)
Aalborg University (1)
Department of Experimental and Clinical Medicine, Magna Graecia University of Catanzaro, Italy (1)
Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, Los Angeles, CA, USA Institute for Quantitative and Computational Biosciences, University of California, Los Angeles, Los Angeles, CA, USA (1)
Department of Molecular and Cellular Neurobiology, Center for Neurogenomics and Cognitive Research, Amsterdam Neuroscience, Vrije Universiteit Amsterdam, The Netherlands (1)
Department of Systems Immunology, Weizmann Institute of Science, Rehovot, Israel (1)
German Cancer Research Center (DKFZ), 69120 Heidelberg, Germany (1)
Gladstone Institutes (1)
Helmholtz Centre for Infection Research, Institute Molecular Bacteriology (1)
Institute for Cellular Chemistry, Hannover Medical School, Germany (1)
Institute for Systems Biology (1)
Institute of Experimental Medicine, Kiel University (1)
Leibniz-Forschungsinstitut für Molekulare Pharmakologie (FMP)Berlin (1)
MDC (1)
Max Delbruck Center for Molecular Medicine, BIH at Charite, Proteomics Core Facility, Robert-Roessle-Str. 10, 13125 Berlin (1)
Max Perutz Labs, Vienna, Austria (1)
Max Planck Institute for Terrestrial Microbiology Karl-von-Frisch Str. 10 35043 Marburg Germany (1)
Musculoskeletal Development and Regeneration Group, Institute of Chemistry and Biochemistry, Freie Universität Berlin, Berlin, Germany (1)
Non-coding RNAs and mechanisms of cytoplasmic gene regulation, Max Delbrück Center for Molecular Medicin, Berlin (1)
Research Core Unit Proteomics and Institute of Toxicology, Hannover Medical School, Hannover, Germany (1)
Wageningen University (1)

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MuRF1 mediated ubiquitination of M-line Titin

MuRF1 mediated ubiquitination of titin promotes autophagy machinery recruitment onto titin. Titin ubiquitination appears dynamically regulated by myofibrillar stretch via the unfolding of an NL linker sequence, leading to different ubiquitination patterns of the chain. This mechanism might be compro...

ORGANISM(S): Homo sapiens (Human)

2021-06-23 | PXD015340 | Pride

MuRF1 mediated ubiquitination of M-line Titin D24728V

ORGANISM(S): Homo sapiens (Human)

2021-06-23 | PXD015339 | Pride

Murf1 Ubiquitination Snp Titin

Genomic hybridization of Methanobacteria to identify the diversity in strains on manure and olive mill waste.

Population dynamics of methanogenic genera was investigated in pilot anaerobic digesters. Cattle manure and two-phase olive mill wastes were codigested at a 3:1 ratio in two reactors operated at 37 ï¾°C and 55 ï¾°C. Other two reactors were run with either residue at 37 ï¾°C. Sludge DNA extracted fro...

ORGANISM(S): Methanobacteria

2010-11-10 | E-MEXP-2453 | biostudies-arrayexpress

A retrotransposon-driven Dicer variant enhances endogenous RNAi in mouse oocytes

Mammals have one Dicer gene required for biogenesis of small RNAs in microRNA (miRNA) and RNA interference (RNAi) pathways. Yet, endogenous RNAi is highly active in oocytes but not in somatic cells. Here, we provide a mechanistical explanation for high RNAi activity in mouse oocytes. The main Dicer ...

ORGANISM(S): Mus musculus

2013-11-07 | E-GEOD-41207 | biostudies-arrayexpress

Striatin is a novel modulator of cell adhesion.

Not available

S-EPMC6988865 | biostudies-literature

Integration of metabolomics, genomics and immune phenotypes reveals the causal roles of metabolites in disease

BACKGROUND: Recent studies highlight the role of metabolites in immune diseases, but it remains unknown how much of this effect is driven by genetic and non-genetic host factors.

RESULT: We systematically investigate circulating metabolites in a cohort of 5...

2021-06-14 | MTBLS2633 | MetaboLights

Identification of the alternative sigma factor SigX regulon and its implications for Pseudomonas aeruginosa pathogenicity

We analyzed a deletion mutant of the ECF M-OM-^C factor SigX and applied mRNA profiling to define the SigX dependent regulon in P. aeruginosa in response to low osmolarity medium conditions. Furthermore, the combination of transcriptional data with chromatin immunoprecipitation (ChIP) followed by hi...

ORGANISM(S): Pseudomonas aeruginosa UCBPP-PA14

2013-11-11 | E-GEOD-50937 | biostudies-arrayexpress

Actinomyces denticolens as a causative agent of actinomycosis in animals.

Not available

S-EPMC6261818 | biostudies-literature

Gene expression of T follicular helper (TFH) cells 6 h after ICOS-L blockade

The maintenance of the TFH phenotype depends on continuous signals via ICOS. For a global assessment of differences in gene expression after interruption of the ICOS pathway a genome wide transcriptome analysis was performed. We used the OT-II adoptive transfer system to isolate antigen-specific TFH...

ORGANISM(S): Mus musculus

2015-01-19 | E-GEOD-49314 | biostudies-arrayexpress

AP-MS of helicase Upf1 in PC12 cells

DNA/RNA helicase Upf1 seems to interact with axonal transcripts in response to nerve growth factor (NGF, A. Ludanyi, M. Gaspari and A. Riccio, unpublished data). In order to shed light on Upf1 mechanism of action and to identify potential associations with molecules having cleavage activity, we perf...

ORGANISM(S): Rattus norvegicus (Rat)

2021-09-10 | PXD023586 | Pride

Protein complex Hud Ago2 Impa1

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