Top mrna - OmicsDI

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Transcriptomics (1588)
Unknown (1478)
Genomics (566)
Proteomics (488)
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Organisms

Homo sapiens (864)
Mus musculus (342)
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mixed sample (3)
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Oikopleura dioica (2)
Arabidopsis (1)

Organisms

Homo sapiens (216)
Mus musculus (135)
Rattus norvegicus (16)
Drosophila melanogaster (13)
Sus scrofa (5)
Bos taurus (5)
Canis lupus familiaris (4)
Danio rerio (4)
Arabidopsis thaliana (4)
Halobacterium salinarum NRC-1 (3)
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Sciaenops ocellatus (1)
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Mus musculus musculus (1)

Repository

biostudies-arrayexpress (1392)
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pride (463)
geo (300)
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Tissue

Cell culture (133)
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Blood (7)
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Disease

Normal (10)
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Rheumatoid arthritis (2)
Neuroblastoma (2)
B-precursor acute lymphoblastic leukemia (1)
Psoriasis vulgaris (1)
Oropharynx squamous-cell carcinoma in DiseaseLocation oropharynx has DiseaseStaging lymph node negative (N0) (1)
Not applicable (1)
Phyllodes tumor (1)
Embryonic lethal at day 8.5 to 9.5 (1)
No lesions (1)
Challenged with Pieris rapae larvae (1)
Invasive Ductal Carcinoma (1)
Refractory cytopenia with multilineage dysplasia and ringed sideroblasts (1)
Infiltrating ductal carcinoma (1)
Infected (1)
Myeloma (1)
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Oligodendroglioma (1)
Colon cancer metastasis (1)
IRAK-4 Q293X mutation (1)
Infected (1)
Invasive lobular carcinoma (1)
Squamous cell carcinoma (1)
IBDV infected (1)
Familial adenomatous polyposis (FAP) (1)
Cervical carcinoma (1)
Barrett's esophagus (1)

Technology Type

Mass Spectrometry (463)
Shotgun proteomics (243)
Bottom-up proteomics (71)
Affinity purification coupled with mass spectrometry proteomics (67)
Top-down proteomics (49)
Data-dependent acquisition (43)
Gel-based experiment (23)
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Mass spectrometry assay (13)
Chemical cross-linking coupled with mass spectrometry proteomics (13)
SWATH MS (13)
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RNA mass spectrometry (6)
SRM/MRM (6)
HDMSE (2)
Mass spectrometry imaging (2)
Illumina HiSeq 4000, Illumina HiSeq 2500, ILLUMINA (1)
Illumina HiSeq 3000 (1)
HiSeq X Ten, Illumina HiSeq 2500, ILLUMINA (1)
Illumina HiSeq 2500 (1)
NMR spectroscopy (1)
All-ion fragmentation (1)
Immunopeptidomics (1)

Instrument Platform

Illumina NovaSeq 6000 (46)
Illumina HiSeq 2500 (37)
NextSeq 500 (31)
Illumina HiSeq 4000 (28)
Illumina HiSeq 2000 (15)
Axon GenePix 4000B scanning hardware (7)
G2565AA DNA microarray scanner [Agilent] (6)
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MA900, Sony (2)
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GenePix Professional 4200A [Axon Instruments] (2)
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418 [Affymetrix] (2)
G2565BA DNA microarray scanner [Agilent] (2)
GenePix 4000B [Axon Instruments] (2)
None (2)
Illumina HiSeq 1500 (2)
NextSeq 550 (2)
Illumina HiSeq 3000 (2)
IPK PhenoSphere (1)
Agilent 2100 Bioanalyzer (Agilent Technologies); Qubit Fluorometer (Thermo Fisher Scientific); standard electrophoresis system (1)
NanoDrop spectrophotometer, Agilent 2100 Bioanalyzer (1)
PromethION (1)

Publication Date

2010 (165)
2015 (154)
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2013 (125)
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2014 (110)
2011 (106)
2020 (101)
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2008 (94)
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2005 (79)
2009 (61)
2018 (60)
2019 (57)
2007 (57)
2006 (51)
2017 (42)
2004 (16)
2003 (7)
2002 (6)

UNIPROT ID/AC

Q9LKL2 (1)
O81713 (1)

CHEBI ID

CHEBI:16027 (6)
CHEBI:30915 (6)
CHEBI:30769 (6)
CHEBI:18257 (5)
CHEBI:16708 (5)
CHEBI:25017 (5)
CHEBI:6650 (5)
CHEBI:28044 (5)
CHEBI:16335 (5)
CHEBI:15891 (5)
CHEBI:18050 (5)
CHEBI:16704 (5)
CHEBI:16015 (5)
CHEBI:17596 (5)
CHEBI:17368 (5)
CHEBI:24266 (4)
CHEBI:30805 (4)
CHEBI:22660 (4)
CHEBI:22652 (4)
CHEBI:28875 (4)
CHEBI:15428 (4)
CHEBI:16610 (4)
CHEBI:17268 (4)
CHEBI:16566 (4)
CHEBI:16393 (4)
CHEBI:27266 (4)
CHEBI:7916 (4)
CHEBI:16010 (4)
CHEBI:16449 (4)
CHEBI:33699 (1)

Metabolite Name

Taurine (7)
Citric acid (7)
Azelaic acid (7)
Uridine (7)
Inosine (7)
Hexadecanedioic acid (6)
Dodecanedioic acid (6)
Leucine (5)
Glycine (5)
Succinic acid (5)
Allantoin (5)
Choline (5)
Adenosine (5)
Alanine (5)
Tetradecanedioic acid (5)
Suberic acid (5)
Palmitic acid (5)
Xanthine (5)
Guanosine (5)
Pseudouridine (5)
Creatine (5)
Hypoxanthine (5)
N-Acetyl-L-methionine (4)
Phenol (4)
Phthalic acid (4)
Pyroglutamic acid (4)
O-Succinyl-L-homoserine (4)
Glutathione (4)
Citrinin (4)
Undecanedioic acid (4)

First Public Date

2024 (60)
2022 (56)
2023 (51)
2020 (46)
2025 (43)
2014 (43)
2021 (41)
2019 (32)
2026 (26)
2015 (22)
2018 (20)
2017 (19)
2016 (18)
2013 (13)

Modelling Approach

Ordinary differential equation model (1)

Lab affiliation

EDyP (4)
Chair of Proteomics and Bioanalytics, Technische Universität München, Germany (3)
Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, Munich, Germany (3)
Genomics Research Center, Academia Sinica, Taipei, Taiwan (3)
Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology, 08028 Barcelona, Spain Institució Catalana de Recerca i Estudis Avançats (ICREA), 08010 Barcelona, Spain (3)
University of Cologne (3)
Yale University (3)
BK21 FOUR Community-Based Intelligent Novel Drug Discovery Education Unit, College of Pharmacy and Research Institute of Pharmaceutical Sciences, Kyungpook National University, Daegu 41566, Republic of Korea (2)
Biology department, Washington University in Saint Louis, Saint Louis, MO, USA (2)
Boston University Goldman School of Dental Medicine Boston MA, 02118, USA (2)
CSIR-Centre for Cellular and Molecular Biology, Hyderabad, India (2)
Carnegie MS Facility (2)
Centre for Cancer Cell and Molecular Biology, Barts Cancer Institute, Queen Mary University of London, Charterhouse square, London EC1M 6BQ, The United Kingdom. (2)
Centre for Genomic Regulation (CRG) (2)
Centre of New Technology University of Warsaw Banacha 2C 02-097 Warsaw, Poland (2)
Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, United States (2)
Department of Molecular, Cellular and Developmental Biology. Yale University, 260 Whitney Ave, New Haven, CT. 06520, USA (2)
Director, Centre for Proteome Research Department of Biochemistry & Systems Biology Institute of Systems, Molecular & Integrative Biology University of Liverpool Crown Street, Liverpool L69 7ZB +44 151 795 4424 (2)
Division of Molecular and Cellular Biology, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD (2)
Faculty of Pharmacy, Hubei University of Chinese Medicine (2)
Functional Proteomics, ICR (2)
Harvard Medical School (2)
Icahn School of Medicine at Mount Sinai (2)
Peking University (2)
Proteomics Core Facility and Research Group Proteomics, CEITEC-MU, Masaryk University, Brno, Czech Republic (2)
Sun yat-sen university cancer center (2)
Tongji University (2)
University of Colorado-Anschutz Campus (2)
University of Maryland, College Park (2)
-Harry Perkins Institute of Medical Research, QEII Medical Centre, Nedlands, Western Australia 6009, Australia -Centre for Medical Research, The University of Western Australia, QEII Medical Centre, Nedlands, Western Australia 6009, Australia -School of Molecular Sciences, The University of Western Australia, Crawley, Western Australia 6009, Australia (1)

IsPrivate

False (1)

Classification

bacteria (2)
helminths (1)

Modification

N6-dimethyl-L-lysine (1)

Study type

Transcription profiling by array (813)
RNA-seq of coding RNA (247)
Unknown experiment type (113)
Other (32)
ChIP-seq (26)
RNA-seq of coding RNA from single cells (24)
RNA-seq of non coding RNA (17)
Cell line - High-throughput sequencing (14)
Comparative genomic hybridization by array (11)
RNA-seq of total RNA (10)
ChIP-chip by array (9)
Methylation profiling by array (9)
Transcription profiling by RT-PCR (7)
MicroRNA profiling by array (5)
Transcription profiling by SAGE (4)
Human - High-throughput sequencing (4)
Proteomic profiling by array (4)
Methylation profiling by high throughput sequencing (4)
High-throughput sequencing (3)
Animal - High-throughput sequencing (3)
Transcription profiling by tiling array (3)
Single nucleus RNA sequencing (3)
ChIP-chip by tiling array (2)
Plant - High-throughput sequencing (2)
Translation profiling (2)
RNAi profiling by array (2)
Genotyping by array (2)
CUT&TAG (1)
RNA-seq of non coding RNA from single cells (1)
Proteomic profiling by mass spectrometer (1)

Release Date

2022 (242)
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2010 (176)
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2015 (164)
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2013 (141)
2014 (140)
2011 (118)
2019 (117)
2008 (98)
2018 (97)
2017 (92)
2005 (78)
2009 (70)
2007 (58)
2006 (51)
2026 (25)
2004 (19)
2003 (10)
2002 (6)
1999 (2)
1997 (1)

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GCN2 suppresses TOP mRNA translation via LARP1

PRJNA701320 | ENA

Human RNase 4 Improves mRNA Sequence Characterization by LC-MS/MS.

With the rapid growth of synthetic messenger RNA (mRNA)-based therapeutics and vaccines, the development of analytical tools for characterization of long, complex RNAs has become essential. Tandem liquid chromatography-mass spectrometry (LC-MS/MS) permits direct assessment of the mRNA primary sequen...

ORGANISM(S): synthetic RNA

2022-07-26 | PXD033334 | Pride

Mrna human rnase4

Lsp2 links mTORC1 to TOP mRNA translation and lifespan in Drosophila

PRJNA1256379 | ENA

The global downregulation of protein synthesis observed during hepatogenic maturation is associated with a decrease in TOP mRNA translation The global downregulation of protein synthesis observed during hepatogenic maturation is associated with a decrease in TOP mRNA translation

Translational regulation is of paramount importance for proteome remodeling during stem cell differentiation both at the global and transcript-specific levels. In this study, we characterized translational remodeling during hepatogenic differentiation of induced pluripotent stem cells (iPSCs) by pol...

ORGANISM(S): Homo sapiens (Human)

2022-12-26 | PXD038204 | Pride

Translational regulation Top mrna Hepatocyte differentiation Stem cells

Lsp2 links mTORC1 to TOP mRNA translation and lifespan in Drosophila

PRJNA1265223 | ENA

GCN2 suppresses TOP mRNA translation via LARP1

La-related protein 1 (LARP1) has been identified as a key translational inhibitor of terminal oligopyrimidine tract (TOP) mRNAs downstream of the nutrient sensing protein kinase complex, mTORC1. LARP1 exerts this inhibitory effect on TOP mRNA translation by binding to the mRNA cap and the adjacent 5...

ORGANISM(S): Mus musculus

2022-08-31 | GSE166590 | GEO

mTOR- and LARP1-dependent regulation of TOP mRNA poly(A) tail and ribosome loading [polysome fractionation]

PRJNA608096 | ENA

Circadian and feeding rhythms differentially affect rhythmic mRNA transcription and translation in mouse liver [RNASeq]

Diurnal oscillations of gene expression are a hallmark of rhythmic physiology across most living organisms. Such oscillations are controlled by the interplay between the circadian clock and feeding rhythms. While rhythmic mRNA accumulation has been extensively studied, comparatively less is known ab...

ORGANISM(S): Mus musculus

2015-11-10 | E-GEOD-73552 | biostudies-arrayexpress

A unifying model for mTORC1-mediated regulation of mRNA translation

Ribsome profiling analysis of mRNA translation in mouse cells under conditions of mTOR activiation or inhibition. embryonic fibroblasts from 4EBP1/2 p53 mutants treated with Torin1

ORGANISM(S): Mus musculus

2012-05-02 | E-GEOD-36892 | biostudies-arrayexpress

mTOR- and LARP1-dependent regulation of TOP mRNA poly(A) tail and ribosome loading [LARP1 KD, Torin1]

PRJNA573100 | ENA

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