Thomas Anna A - OmicsDI

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Unknown (89)
Transcriptomics (81)
Genomics (76)
Proteomics (50)
Metabolomics (7)
Models (3)
Multiomics (2)
Genomic (1)

Organisms

Homo sapiens (118)
Fusarium sinicum (29)
Mus musculus (24)
Alphavirus (9)
Anemia (9)
Betaherpesvirinae (9)
Brassica oleracea var. oleracea (9)
Cowpox virus (9)
Coxsackievirus (9)
Cytomegalovirus (9)
Dengue virus (9)
EFO:0001352 (9)
Filoviridae (9)
Hepatitis B virus (9)
Human alphaherpesvirus 1 (9)
Human betaherpesvirus 5 (9)
Zea mays (3)
Bos taurus (2)
Escherichia coli str. K-12 substr. MG1655 (2)
Rattus norvegicus (2)
Aurelia aurita (1)
Skeletonema marinoi (1)
Plasmodium falciparum (1)
Plasmodium falciparum 7G8 (1)
Candida albicans (1)
Sus scrofa (1)
Drosophila melanogaster (1)
Danio rerio (1)
Arabidopsis thaliana (1)
Halobacterium salinarum NRC-1 (1)

Organisms

Mus musculus (1)

Repository

biostudies-arrayexpress (85)
EGA (71)
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pride (9)
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Tissue

Others (1)
Cell culture (1)
Dental plaque (1)

Disease

Lymphoma (1)
Multiple myeloma (1)
Normal (1)
Breast cancer (1)

Technology Type

Mass Spectrometry (9)
Illumina 15K (8)
Bottom-up proteomics (8)
Mass spectrometry (6)
Data-independent acquisition (5)
Data-dependent acquisition (3)
Illumina HiSeq 2000 (2)
Illumina CytoSNP, Illumina HumanOmni2.5, ILLUMINA, Illumina 450k, Illumina HiSeq 2000 (1)
Affymetrix 6.0, Illumina Genome Analyzer II (1)
Illumina_670k - Illuminus, Affymetrix 6.0, Illumina 1.2M (1)
Illumina Genome Analyzer II (1)
Shotgun proteomics (1)

Instrument Platform

Illumina NovaSeq 6000 (9)
Illumina HiSeq 2500 (5)
Illumina HiSeq 2000 (4)
Q Exactive HF (3)
IScan (2)
Illumina HiSeq 3000 (2)
Orbitrap Fusion Lumos (2)
Q Exactive HF-X (2)
STAR v2.5.3a, rpkmforgenes, RSeQC 2.6.1 (1)
Illumina Nextera XT index kits (Set A–D) (1)
Oligo(dT) primer and SuperScript II reverse transcriptase (ThermoFisher Scientific), TapeStation 4200 or 2100 Bioanalyzer with a DNA High Sensitivity chip (Agilent Biotechnologies) (1)
Aria III (BD Biosciences) (1)
Mastercycler pro S Thermocyler (Eppendorf); 2100 Bioanalyzer (Agilent) (1)
2100 Bioanalyzer (Agilent); Axio Imager.Z2 (ZEISS) (1)
CryoStar NX70 Cryostat (Epredia) (1)
ArrayWoRx Biochip Reader [Applied Precision] (1)
G2565BA DNA microarray scanner [Agilent] (1)
NA (1)
DNBSEQ-G400 (1)
Illumina HiSeq 1500 (1)
Illumina HiSeq 4000 (1)
NextSeq 500 (1)
LTQ FT (1)
MaXis (1)
Orbitrap Eclipse (1)
Orbitrap Exploris 480 (1)
Orbitrap Fusion (1)
Q Exactive Plus (1)
6530 Q-TOF LC/MS (Agilent) (1)
Flow injection analysis MS - negative (1)

Publication Date

2019 (32)
2024 (12)
2015 (12)
2010 (9)
2022 (8)
2014 (8)
2008 (8)
2025 (8)
2026 (7)
2020 (6)
2018 (6)
2016 (4)
2012 (4)
2011 (4)
2007 (4)
2021 (3)
2013 (3)
2009 (3)
2006 (2)
2005 (1)
2023 (1)

UNIPROT ID/AC

1433B_HUMAN (29)
1433E_HUMAN (29)
1433F_HUMAN (29)
1433G_HUMAN (29)
1433S_HUMAN (29)
1433T_HUMAN (29)
1433Z_HUMAN (29)
2A5A_HUMAN (29)
2A5B_HUMAN (29)
2A5D_HUMAN (29)
2A5E_HUMAN (29)
2A5G_HUMAN (29)
2AAA_HUMAN (29)
2AAB_HUMAN (29)
2ABA_HUMAN (29)
2ABD_HUMAN (29)
3BP1_HUMAN (29)
3HAO_HUMAN (29)
3HIDH_HUMAN (29)
3MG_HUMAN (29)
41_HUMAN (29)
4EBP1_HUMAN (29)
4EBP2_HUMAN (29)
4F2_HUMAN (29)
5NT3A_HUMAN (29)
5NT3B_HUMAN (29)
5NTC_HUMAN (29)
5NTD_HUMAN (29)
6PGD_HUMAN (29)
6PGL_HUMAN (29)

ENSEMBL ID

ENSG00000147251 (1)
ENSG00000170477 (1)

CHEBI ID

CHEBI:16737 (2)
CHEBI:57589 (2)
CHEBI:229948 (1)
CHEBI:139313 (1)
CHEBI:86637 (1)
CHEBI:139294 (1)
CHEBI:139293 (1)
CHEBI:86944 (1)
CHEBI:139281 (1)
CHEBI:139241 (1)
CHEBI:139282 (1)
CHEBI:86632 (1)
CHEBI:86635 (1)
CHEBI:86593 (1)
CHEBI:28726 (1)
CHEBI:172865 (1)
CHEBI:29449 (1)
CHEBI:18318 (1)
CHEBI:89778 (1)
CHEBI:45304 (1)
CHEBI:89427 (1)
CHEBI:90029 (1)
CHEBI:172824 (1)
CHEBI:172823 (1)
CHEBI:170696 (1)
CHEBI:90009 (1)
CHEBI:90479 (1)
CHEBI:172815 (1)
CHEBI:170382 (1)
CHEBI:89428 (1)

Metabolite Name

Creatinine (2)
N,N,N-Trimethyl-L-alanyl-L-proline betaine (TMAP) (1)
MGDG(36:6) (1)
G(unknown)-G(t8–O–4)G(8–5)G′ (1)
G(e8–O–4)S(8–5)G' (1)
G(8-O-4)S(8-8)S(8-O-4)G (1)
G(8–O–4)S(8–O–4)S(8–8)S (1)
G(8–O–4)SP(8–8)S (1)
SP(8-8)S (1)
G(t8-O-4)S(8-8)G (1)
(4xi)-2-O-(4-Hydroxybenzoyl)-6-O-(3,4,5-trihydroxybenzoyl)-D-ribo-hexopyranose (1)
Iso-erythritol (1)
7-deoxyloganin (1)
G(8–O–4)S(8–O–4)S(8–5)G (1)
G(e8–O–4)S(8–5)G (1)
G(8–O–4)S(8–8)S (1)
MGDG(36:5) (1)
(+/-)5-HEPE / 5(S)-HEPE (1)
(+/-)5-HEPE (1)
7-Hydroxyflavone (1)
9(Z),11(E)-Conjugated Linoleic Acid (1)
Salirepin (1)
3-Oxotetradecanoyl-CoA (1)
TG(20:0/20:1(11Z)/20:1(11Z)) (1)
Sulfatide (1)
Lyciumin A (1)
Cyanidin 3-(6-caffeoylglucoside) 5-glucoside (1)
Trabectedin (1)
Licoagrodin (1)
PA(14:1(9Z)/22:2(13Z,16Z)) (1)

First Public Date

2023 (1)

Modelling Approach

Ordinary differential equation model (2)

Lab affiliation

Imperial College London (7)
CCRI – St. Anna Children's Cancer Research Institute, Vienna, Austria Labdia - Labordiagnostik GmbH, Vienna, Austria Department of Pediatrics, Medical University of Vienna, Austria (1)
Section for Evolutionary Genomics, Globe Insitute, University of Copenhagen (1)

IsPrivate

False (2)

Submitter Keywords

Immuno-oncology (1)

Study type

Transcription profiling by array (44)
RNA-seq of coding RNA (19)
Methylation profiling by array (5)
RNA-seq of coding RNA from single cells (5)
Spatial transcriptomics by high-throughput sequencing (2)
ChIP-seq (2)
Unknown experiment type (1)
One-color microarray (1)
Cell line - High-throughput sequencing (1)
Comparative genomic hybridization by array (1)
Other (1)
DNA-seq (1)
Methylation profiling by high throughput sequencing (1)
RNA-seq of non coding RNA (1)

Release Date

2024 (17)
2022 (14)
2020 (12)
2015 (12)
2014 (12)
2026 (11)
2025 (11)
2023 (11)
2016 (9)
2010 (8)
2008 (8)
2021 (7)
2018 (7)
2012 (7)
2019 (6)
2013 (4)
2011 (4)
2007 (4)
2009 (3)
2017 (3)
2006 (1)
2005 (1)

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Response of Escherichia coli to acetate concentration during growth on glucose

E. coli MG1655 was grown on M9 minimal medium supplemented with 15mM glucose and either 0, 10, 50 or 100 mM acetate. Transcriptomic analysis from exponential growing cells was performed using Agilent microarray A-MEXP-2232. This work was done with the help of students during practicals. Consequentl...

ORGANISM(S): Escherichia coli str. K-12 substr. MG1655

2020-08-21 | E-MTAB-9086 | biostudies-arrayexpress

A multi-omics approach reveals functions of Secretory Carrier-Associated Membrane Proteins in wood formation of Populus trees

Secretory Carrier-Associated Membrane Proteins (SCAMPs) are highly conserved proteins that are involved in membrane trafficking. An integrated approach was taken to elucidate function of SCAMPs in wood formation of Populus trees. The metabolomics analyses were performed in woody tissues of transgeni...

2018-01-08 | MTBLS478 | MetaboLights

Molecular dissection and testing of PRSS37 function through LC-MS/MS and the generation of a PRSS37 humanized mouse model

LC-MS/MS of Prss37 WT and KO mice male reproductive tract. Title: Molecular dissection and testing of PRSS37 function through LC-MS/MS and the generation of a PRSS37 humanized mouse model Authors: Courtney Sutton1,2, Kaori Nozawa1,2, Katarzyna Kent1,2, Alexander Saltzman3, Mei Leng3, Sureshbabu Na...

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

2023-04-07 | MSV000091662 | MassIVE

Jarrett2018 - trastuzumab-induced immune response in murine HER2+ breast cancer model

The paper describes a model on the trastuzumab-induced immune response in murine(mouse) HER2+ breast cancer. Created by COPASI 4.25 (Build 207) This model is described in the article: Mathematical modelling of trastuzumab-induced immune response in an in vivo murine model of HER2+ breast cancer A...

2024-09-02 | BIOMD0000000745 | BioModels

Immuno-oncology

Cardiac magnetic resonance in patients with ARVC and family members: the potential role of native T1 mapping.

Not available

S-EPMC8255264 | biostudies-literature

Internalization of therapeutic antibodies into Dendritic cells as a risk factor for immunogenicity

The appended raw files, csv files and other documents were deposited into the public domain in support for the publication "Internalization of therapeutic antibodies into Dendritic cells as a risk factor for immunogenicity" by Michel Siegel, Anna-Lena Bolender, Axel Ducret, Johannes Fraidling, Katha...

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

2024-08-26 | MSV000095695 | MassIVE

Phase I/II study of the antibody-drug conjugate glembatumumab vedotin in patients with advanced melanoma.

Not available

S-EPMC4879709 | biostudies-literature

Chulian2021 - feedback signalling in B lymphopoeisis

Salvador Chulián, Álvaro Martínez-Rubio, Anna Marciniak-Czochra, Thomas Stiehl, Cristina Blázquez Goñi, Juan Francisco Rodríguez Gutiérrez, Manuel Ramírez Orellana, Ana Castillo Robleda, Víctor M. Pérez-García & María Rosa. Dynamical properties of feedback signalling in B lymphopoiesis: A mathematic...

2024-09-02 | BIOMD0000001056 | BioModels

Integrative phenotypic and transcriptomic validation of an alveolar-like macrophage model reveals early host–pathogen dynamics during Aspergillus fumigatus infection

The saprophytic mold Aspergillus fumigatus produces small (2-3 µm) airborne spores (conidia) that can reach the lung alveoli upon inhalation. There, they encounter the surfactant-rich environment of the alveolar epithelium and initiate swelling and germination. Primary alveolar macrophages are essen...

ORGANISM(S): Homo sapiens

2026-10-02 | E-MTAB-17130 | biostudies-arrayexpress

Development and qualification of a dendritic cell internalization assay contributing to the immunogenicity risk evaluation of biotherapeutics

The appended raw files, csv files and other documents were deposited into the public domain in support for the publication "Development and characterization of a dendritic cell internalization assay contributing to the immunogenicity risk evaluation of biotherapeutics" by Michel Siegel, Aman Padamse...

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

2024-08-12 | MSV000095578 | MassIVE

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