Modified bases - OmicsDI

Show results for

Transcriptomics (1280)
Genomics (606)
Unknown (527)
Proteomics (38)
Other (13)
Metabolomics (6)
Methylation profiling (4)
Models (2)

Organisms

Homo sapiens (817)
Mus musculus (533)
Saccharomyces cerevisiae (39)
Danio rerio (35)
Drosophila melanogaster (29)
Arabidopsis thaliana (29)
Rattus norvegicus (26)
Caenorhabditis elegans (14)
Gallus gallus (13)
Sus scrofa (11)
Zea mays (10)
Oryza sativa (8)
Escherichia coli (8)
Biomphalaria glabrata (7)
Cryptococcus neoformans (7)
Ovis aries (6)
synthetic construct (6)
Brassica napus (5)
Daphnia magna (5)
Schistosoma mansoni (5)
Bos taurus (5)
Chlamydomonas reinhardtii (5)
Erwinia amylovora (4)
Macaca mulatta (4)
Schizosaccharomyces pombe (4)
Campylobacter jejuni (4)
Oncorhynchus mykiss (4)
Oryza sativa Japonica Group (4)
Lepidium sativum (3)
Vitis vinifera (3)

Organisms

Homo sapiens (19)
Mus musculus (8)
Adineta vaga (3)
Caenorhabditis elegans (2)
Saccharomyces cerevisiae (2)
synthetic construct (2)
Pseudomonas phage PaP1 (1)
Adenoviridae (1)
Zobellia galactanivorans (1)
fossil metagenome (1)
Enterococcus faecalis OG1RF (1)
Canis lupus (1)
Drosophila melanogaster (1)
Severe acute respiratory syndrome coronavirus 2 (1)
Bacillus subtilis (1)
Bacteria (1)
Rattus norvegicus (1)

Repository

biostudies-arrayexpress (1783)
ENA (88)
geo (37)
pride (30)
MassIVE (6)
MetaboLights (6)
BioModels (2)

Tissue

Cell culture (6)
Blood plasma (4)
Blood cell (2)
Skin (2)
Bone marrow (1)
Brain (1)
Embryonic stem cell (1)
Epithelial cell (1)
Epithelial cell of cervix (1)
Fungal cell (1)
HaCaT cell (1)
Heart (1)
Liver (1)
Lung (1)
Macrophage (1)
Plant cell (1)
Root (1)
Striated muscle cell (1)

Disease

Normal (8)
Glioblastoma multiforme (2)
Breast cancer (2)
Disease free (2)
T. circumcincta infection (1)
Not applicable (1)
EAE-resistant (1)
No tendon xanthomas (1)
Infected (1)
Heterodera schachtii nematode infection (1)
Familial dysautonomia (1)
Mock infected (1)
Acute monoblastic leukaemia (1)
Rheumatoid arthritis (1)
Colon carcinoma (1)
Pre-diabetic (1)
Papillary thyroid carcinoma (1)
Resistant (1)
Mastitis (1)
Chicken Anaemia Virus infected (1)
N/a (1)
Colorectal adenocarcinoma (1)
Cervix carcinoma (1)
Sepsis (1)
Severe acute respiratory syndrome (1)
Type 2 diabetes mellitus (1)

Technology Type

Mass Spectrometry (30)
Shotgun proteomics (17)
Mass spectrometry (5)
Gel-based experiment (3)
Affinity proteomics (2)
Affinity purification coupled with mass spectrometry proteomics (2)
Data-dependent acquisition (2)
SWATH MS (2)
SomaScan affinity proteomics (2)
Mass spectrometry assay (1)
Bottom-up proteomics (1)
Chemical cross-linking coupled with mass spectrometry proteomics (1)
RNA mass spectrometry (1)
Top-down proteomics (1)

Instrument Platform

Illumina NovaSeq 6000 (40)
Illumina HiSeq 2000 (39)
Illumina HiSeq 2500 (38)
Illumina HiSeq 4000 (37)
NextSeq 500 (36)
NextSeq 550 (8)
NextSeq 2000 (7)
Illumina MiSeq (6)
Illumina NovaSeq X (5)
Illumina HiSeq 1500 (5)
ScanArray 5000 [PerkinElmer] (4)
Illumina Genome Analyzer IIx (4)
Illumina Genome Analyzer II (4)
GenePix 4000B [Axon Instruments] (3)
DNBSEQ-G400 (3)
Illumina HiSeq 3000 (3)
PromethION (2)
G2565BA DNA microarray scanner [Agilent] (2)
Ion Torrent Proton (2)
Chromium Controller, 10x Genomics and Chromium X, 10x Genomics (1)
Chromium Controller, 10x Genomics and Chromium X, 10x Genomics (1)
Cell culture (1)
Sequel II (1)
QuantSeq 3’ mRNA-Seq Library Prep Kit FWD (Lexogen Gmbh, Vienna, Austria) (1)
DNA 7500 Bioanalyzer Chips (1)
10X Genomics Chromium (1)
Agilent Scanner (1)
Solexa 2G Genome Analyzer (1)
Axon GenePix 4000 (1)
Maxwell 16 Instrument (1)

Publication Date

2014 (251)
2015 (240)
2013 (240)
2012 (233)
2010 (167)
2016 (165)
2011 (140)
2008 (51)
2009 (47)
2021 (39)
2024 (36)
2025 (34)
2022 (33)
2023 (26)
2020 (26)
2019 (26)
2018 (23)
2017 (22)
2026 (20)
2007 (16)
2006 (14)
2005 (13)
2004 (2)

CHEBI ID

CHEBI:16027 (4)
CHEBI:28681 (3)
CHEBI:16680 (3)
CHEBI:16457 (2)
CHEBI:18066 (2)
CHEBI:4167 (1)
CHEBI:16551 (1)
CHEBI:28087 (1)
CHEBI:15978 (1)
CHEBI:16084 (1)
CHEBI:29052 (1)
CHEBI:28013 (1)
CHEBI:18367 (1)
CHEBI:28602 (1)
CHEBI:17754 (1)
CHEBI:30031 (1)
CHEBI:16236 (1)
CHEBI:15343 (1)
CHEBI:15361 (1)
CHEBI:17835 (1)
CHEBI:17794 (1)
CHEBI:16001 (1)
CHEBI:17665 (1)
CHEBI:15422 (1)
CHEBI:16761 (1)
CHEBI:16908 (1)
CHEBI:16526 (1)
CHEBI:15846 (1)
CHEBI:16108 (1)
CHEBI:18021 (1)

Metabolite Name

S-adenosyl-L-homocysteine (2)
L-citrulline (2)
L-aspartic acid (2)
L-asparagine (2)
L-glutamic acid (2)
L-glutamine (2)
L-proline (2)
L-histidine (2)
L-lysine (2)
L-arginine (2)
Betaine homarine (1)
DAG 36:5 (1)
DAG 36:4 (1)
DAG 36:3 (1)
DAG 34:3 (1)
DAG 34:2 (1)
DAG 34:1 (1)
N-methylnicotinate (1)
S,S-dimethyl-beta-propiothetin (1)
LysoPC 18:1 (1)
LysoPC 16:0 (1)
Bryotoxin A (1)
PC 38:4 (1)
PE 36:4 (1)
Dimethylsulfoniopropionate (1)
TAG 60:7 (1)
TAG 60:6 (1)
TAG 60:5 (1)
TAG 60:4 (1)
TAG 60:3 (1)

IsPrivate

False (2)

First Public Date

2024 (17)
2023 (11)
2026 (7)
2025 (7)
2021 (7)
2020 (7)
2013 (7)
2022 (6)
2017 (5)
2019 (4)
2014 (4)
2018 (3)
2015 (2)
2016 (1)

Classification

viruses (3)
bacteria (1)

Modelling Approach

Ordinary differential equation model (2)

Study type

Transcription profiling by array (467)
RNA-seq of coding RNA (466)
ChIP-seq (416)
Methylation profiling by high throughput sequencing (86)
RNA-seq of non coding RNA (74)
Other (53)
Unknown experiment type (35)
Methylation profiling by array (24)
Comparative genomic hybridization by array (22)
RNA-seq of coding RNA from single cells (22)
RNA-seq of total RNA (15)
DNA-seq (12)
Animal - High-throughput sequencing (11)
Cell line - High-throughput sequencing (11)
ChIP-chip by tiling array (7)
ChIP-chip by array (7)
Transcription profiling by SAGE (5)
MicroRNA profiling by array (5)
High-throughput sequencing (4)
Transcription profiling by tiling array (4)
MicroRNA profiling by high throughput sequencing (4)
Genotyping by array (3)
CUT&RUN (3)
GRO-seq (2)
Plant - High-throughput sequencing (2)
RNAi profiling by array (2)
Bisulfite-seq (2)
RIP-seq (2)
Proteomic profiling by array (2)
PRO-seq (1)

Release Date

2014 (273)
2015 (258)
2013 (258)
2012 (255)
2010 (182)
2016 (178)
2011 (152)
2022 (74)
2020 (68)
2023 (66)
2021 (63)
2009 (63)
2025 (59)
2008 (59)
2024 (58)
2019 (49)
2018 (48)
2017 (44)
2007 (26)
2006 (20)
2026 (19)
2005 (14)
2004 (7)
2002 (6)
2003 (4)
2001 (4)
2000 (2)
1998 (1)

Lab affiliation

EDyP (3)
Alkahest Inc. (2)
1 Université Paris Cité, Centre National de la Recherche Scientifique, Institut National de la Santé et de la Recherche Médicale, Institut Cochin 2 Equipe labellisée par la Fondation pour la Recherche Médicale, Paris, France 3 Laboratoire d’excellence du Globule Rouge GR-Ex, Université Paris Cité, Paris, France 4 Assistance Publique-Hôpitaux de Paris.Centre-Université Paris Cité, Hôpital Cochin, Laboratory of Hematology, Paris, France (1)
1 Université Paris Cité, Centre National de la Recherche Scientifique, Institut National de la Santé et de la Recherche Médicale, Institut Cochin 2 Equipe labellisée par la Fondation pour la Recherche Médicale, Paris, France 3 Laboratoire d’excellence du Globule Rouge GR-Ex, Université Paris Cité, Paris, France 4 Assistance Publique-Hôpitaux de Paris.Centre-Université Paris Cité, Hôpital Cochin, Laboratory of Hematology, Paris, France (1)
Aalborg University (1)
CEA Grenoble, iRTSV/CBM, Laboratory of Chemistry and Biology of Metals, Grenoble, France (1)
Cell Biology Department, Harvard Medical School (1)
Center for Systems Biology and Molecular Medicine, Yenepoya Research Center, Yenepoya(Deemed to be University) (1)
Center of Regenerative Medicine in Barcelona (CMRB) 3rd Floor Hospital Duran i Reynals Avinguda de la Gran Via, 199-203 08908 Hospitalet de Llobregat (Barcelona), Spain (1)
Centre de Recherche en Cancérologie de Marseille Inserm UMR1068, CNRS UMR7258, Aix-Marseille Université UM105,Institut Paoli-Calmettes 13273 MARSEILLE FRANCE (1)
College of Life Sciences, Nanjing Agricultural University, Nanjing, 210095, China (1)
Coordenadora do laboratório de espectrometria de massas, LNBio, CNPEM, Brasil. (1)
Department of Biological Regulation, Weizmann Institute of Science, Rehovot 76100, Israel (1)
Department of Biology II and Center for Integrated Protein Science Munich (CIPSM), Ludwig-Maximilians-Universität München, Planegg-Martinsried, Germany (1)
Department of Cancer Research and Molecular Medicine Faculty of Medicine Laboratory Centre, 5th floor. Erling Skjalgssons gt. 1 Norwegian University of Science and Technology NTNU 7006 Trondheim, Norway Tel: +47 72573076; Fax: +47 72576400 Cell. phone: +47 91825455 (1)
Department of Chemistry University of Texas at Austin (1)
Department of Chemistry and Bioscience, Aalborg University, Fredrik Bajers Vej 7H, DK-9220, Aalborg East, Denmark (1)
Department of Molecular Biophysics & Biochemistry, Yale School of Medicine, PO Box 208114, New Haven, CT, 06520 (1)
LMU Muenchen (1)
Laboratory of Molecular Bases of Aging Nencki Institute of Experimental Biology (1)
Malopolska Centre of Biotechnology (MCB), Jagiellonian University, Krakow, Poland (1)
Mass Spectometry and Protemics Core Facility, Institute for Research in Biomedicine (1)
Plant Biochemistry, PG Poetsch, Ruhr-University Bochum, Germany (1)
Professor and Deputy Director Center for systems biology and molecular medicine Yenepoya Research Center Yenepoya (Deemed to be University) Mangalore, India (1)
Roskilde University, Denmark Institute for Science and Environment Molecular and Medical Biology (1)
Underwood-Prescott Professor, Department of Biological Engineering, Massachusetts Institute of Technology, 77 Massachusetts Avenue, 56-731 Cambridge, MA 02139-4307 (1)
University of Oslo (1)

Previous page
1 / 248
You're on page 1
page 2
page 3
page 4
page 5
page ...
page 248
Next page

Sort by:

Relevance

Page size

Identification of direct targets and modified bases of RNA cytosine methyltransferases

We report development of a mechanism-based technique, Aza-IP, that utilizes the stable covalent linkage formed in vivo between an RNA methyltransferase (m5C-RMT) and 5-azacytidine (5-aza-C) incorporated within the target RNA to enable specific target enrichment, coupled with high-throughput sequenci...

ORGANISM(S): Homo sapiens

2013-04-21 | E-GEOD-38957 | biostudies-arrayexpress

Fingerprints of Modified RNA Bases from Deep Sequencing Profiles.

Not available

S-EPMC5819333 | biostudies-literature

Chemical modifications mark alternatively spliced and actively degrading messenger RNAs in Arabidopsis and humans

Post-transcriptional chemical modification of RNA bases is a widespread and physiologically relevant regulator of RNA maturation, stability, and function. While modifications are best characterized in short, noncoding RNAs such as transfer RNAs (tRNAs), growing evidence indicates that messenger RNAs...

ORGANISM(S): Homo sapiens

2015-10-31 | E-GEOD-66224 | biostudies-arrayexpress

Modbed track: Visualization of modified bases in single-molecule sequencing.

Not available

S-EPMC10726485 | biostudies-literature

Sequencing of modified bases in bacteriophage CAJan

PRJNA633876 | ENA

Characterization of synthetic oligonucleotides containing biologically important modified bases by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry.

Not available

S-EPMC3985270 | biostudies-literature

Stable gene targeting in human cells using single-strand oligonucleotides with modified bases.

Not available

S-EPMC3351460 | biostudies-literature

Base and acid resistance of B. subtilis associated with transcriptomic responses

Gene expression profiles of Bacillus subtilis strain AG174 were compared as a function of steady-state external pH during growth with aeration. Aerated overnight cultures were diluted 1:500 and incubated in 250 mL baffled flasks containing potassium-modified Luria-Bertani medium (LBK) buffered with ...

ORGANISM(S): Bacillus subtilis

2009-01-12 | E-GEOD-11810 | biostudies-arrayexpress

Molecular dynamics simulations of human tRNA Lys,3 UUU: the role of modified bases in mRNA recognition.

Not available

S-EPMC1636460 | biostudies-literature

Efficient synthesis, liquid chromatography purification, and tandem mass spectrometric characterization of estrogen-modified DNA bases.

Not available

S-EPMC2656942 | biostudies-literature

Previous page
1 / 248
You're on page 1
page 2
page 3
page 4
page 5
page ...
page 248
Next page

Sort by:

Relevance

Page size

2479 Results

Show results for

Organisms

Organisms

Repository

Tissue

Disease

Technology Type

Instrument Platform

Publication Date

CHEBI ID

Metabolite Name

IsPrivate

First Public Date

Classification

Modelling Approach

Study type

Release Date

Lab affiliation

Tags

OmicsDI is part of the ELIXIR infrastructure

Tweets