Pereira A A - OmicsDI

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Unknown (10726)
Proteomics (200)
Transcriptomics (160)
Metabolomics (60)
Genomics (54)
Models (8)

Organisms

Homo sapiens (84)
Mus musculus (31)
Saccharomyces cerevisiae (18)
Arabidopsis thaliana (10)
Oryza sativa Japonica Group (6)
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cellular organisms (1)
Ardisia guianensis (1)

Organisms

Homo sapiens (4)
Mus musculus (4)
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Tigriopus californicus (1)
Micrococcus luteus NCTC 2665 (1)
Drosophila melanogaster (1)
Bacillus subtilis (1)
Saccharomyces cerevisiae (1)
soil metagenome (1)

Repository

pride (169)
biostudies-arrayexpress (163)
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Disease

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Normal (1)
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Becker muscular dystrophy (1)
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Cardiovascular system disease (1)
Chagas disease (1)
Duchenne muscular dystrophy (1)

Technology Type

Mass Spectrometry (169)
Shotgun proteomics (97)
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Mass spectrometry (11)
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Mass spectrometry imaging (1)

Instrument Platform

LTQ Orbitrap Velos (35)
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GC MS (10)
Illumina NovaSeq 6000 (5)
Liquid Chromatography MS - positive - reverse phase (4)
Illumina HiSeq 2500 (3)
LTQ Orbitrap (3)
LTQ Orbitrap Elite (3)
Gas Chromatography MS - (3)
Gas Chromatography MS - positive (3)
Liquid Chromatography MS - negative - reverse phase (3)
G2565AA DNA microarray scanner [Agilent] (2)
NextSeq 500 (2)
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Illumina HiSeq 4000 (1)
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Agilent GC-MS (1)
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Microflex (1)
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Publication Date

2016 (41)
2023 (30)
2018 (29)
2024 (28)
2021 (28)
2015 (28)
2013 (28)
2019 (27)
2022 (26)
2026 (25)
2014 (22)
2025 (20)
2010 (19)
2012 (18)
2017 (17)
2020 (14)
2008 (12)
2011 (9)
2009 (6)
2007 (2)
2006 (1)
2004 (1)

UNIPROT ID/AC

P47113 (3)
P38987 (3)
89462.XP_006040351.1 (1)
89462.XP_006040625.1 (1)
89462.XP_006041235.1 (1)
89462.XP_006041616.1 (1)
89462.XP_006041942.1 (1)
89462.XP_006041949.1 (1)
89462.XP_006042170.1 (1)
89462.XP_006042233.1 (1)
89462.XP_006042264.1 (1)
89462.XP_006042334.1 (1)
89462.XP_006042420.1 (1)
89462.XP_006042628.1 (1)
89462.XP_006042816.1 (1)
89462.XP_006042870.1 (1)
89462.XP_006042923.1 (1)
89462.XP_006043252.1 (1)
89462.XP_006043597.1 (1)
89462.XP_006044210.1 (1)
89462.XP_006044367.1 (1)
89462.XP_006045039.1 (1)
89462.XP_006045164.1 (1)
89462.XP_006045255.1 (1)
89462.XP_006045325.1 (1)
89462.XP_006045573.1 (1)
89462.XP_006045767.1 (1)
89462.XP_006046028.1 (1)
89462.XP_006046104.1 (1)
89462.XP_006046159.1 (1)

CHEBI ID

CHEBI:18012 (10)
CHEBI:30769 (9)
CHEBI:6650 (8)
CHEBI:15428 (7)
CHEBI:30915 (7)
CHEBI:15741 (7)
CHEBI:15756 (7)
CHEBI:15996 (6)
CHEBI:17234 (6)
CHEBI:16958 (6)
CHEBI:29016 (6)
CHEBI:32816 (6)
CHEBI:17568 (6)
CHEBI:22660 (5)
CHEBI:17754 (5)
CHEBI:17154 (5)
CHEBI:17822 (5)
CHEBI:16335 (5)
CHEBI:28300 (5)
CHEBI:25094 (5)
CHEBI:7916 (5)
CHEBI:26271 (5)
CHEBI:28875 (5)
CHEBI:16027 (5)
CHEBI:18183 (5)
CHEBI:17992 (5)
CHEBI:28716 (5)
CHEBI:29019 (4)
CHEBI:17552 (3)
CHEBI:33282 (1)

Metabolite Name

Citric acid (4)
Succinic acid (4)
Malic acid (4)
Fumaric acid (4)
Taurodeoxycholic acid (3)
Pyruvic acid (3)
Glycine (3)
Ursodeoxycholic acid (3)
Taurocholic acid (3)
Cholic acid (3)
Methyl oleate (2)
Ribitol (2)
Phenol (2)
Arginine (2)
Glycodeoxycholic acid (2)
Phosphoric acid (2)
Sucrose (2)
Glycolic acid (2)
Myo-inositol (2)
Glycerol (2)
Adenosine (2)
Sphingosine 1-phosphate (2)
Chenodeoxycholic acid (2)
Indoxyl sulfate (2)
Ornithine (2)
2-Methylglutaric acid (2)
2-Hydroxyhexadecanoic acid (2)
Elaidic acid (2)
Deoxycholic acid (2)
Glycocholic acid (2)

First Public Date

2026 (4)
2014 (4)
2019 (2)
2018 (2)
2015 (2)
2025 (1)
2024 (1)
2021 (1)
2020 (1)
2017 (1)
2013 (1)

Modelling Approach

Ordinary differential equation model (5)
Computational model (1)
Agent-based model (1)

Lab affiliation

Federal University of Goias (3)
Goethe-Universität Frankfurt, Georg-Speyer-Haus, Paul-Ehrlich-Str. 42-44, Frankfurt am Main, GERMANY (3)
AQUACEN - National Reference Laboratory for Aquatic Animal Diseases (2)
Biochemistry and molecular biology department, Universidade Federal de Goias, Brazil (2)
CRUK -CRUK Scotland nstitute for Cancer Research - Switchback Rd, Bearsden, Glasgow G61 1BD - United Kingdom (2)
Department of Nutrition, Center for Proteomics and Bioinformatics, School of Medicine, Case Western Reserve University, Cleveland, Ohio, USA; Case Center for Synchrotron Biosciences, Brookhaven National Laboratory, Upton, New York, USA (2)
Department of Oncology-Pathology, Karolinska Institutet and Science for Life Laboratory, Stockholm, Sweden (2)
ITQB-NOVA, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa, Av. Da República, 2780-157 Oeiras, Portugal;iBET, Instituto de Biologia Experimental e Tecnológica, Apartado 12, 2780-901, Oeiras , Portugal (2)
Instituto de Investigaciones Sanitarias de Santiago de Compostela (2)
PI in de Department of Molecular Biology in Centro de Biología Molecular ‘“Severo Ochoa’” (CBMSO)- Universidad Autónoma de Madrid (UAM), leading the project "Role of mitochondrial bioenergetics in skeletal muscle secretrome during exercise and pathology". (2)
Professor, Department of Biology and Biological Engineering, Chalmers University of Technology, SE-41296 Gothenburg, Sweden; Wallenberg Center for Protein Research, Chalmers University of Technology, SE-41296 Gothenburg, Sweden; Novo Nordisk Foundation Center for Biosustainability, Chalmers University of Technology, SE-41296 Gothenburg, Sweden; Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, DK-2800 Lyngby, Denmark (2)
The University of Melbourne (2)
1 Department of Genetics, Harvard Medical School, Boston, MA 02115 (1)
1- i3S - Instituto de Investigação e Inovação em Saúde, Universidade do Porto, Portugal 2- IBMC - Instituto de Biologia Celular e Molecular, Universidade do Porto, Portugal 3- ICBAS - Instituto de Ciências Biomédicas Abel Salazar, Universidade do Porto, Portugal (1)
1- i3S - Instituto de Investigação e Inovação em Saúde,Universidade do Porto, Portugal 2- IBMC - Instituto de Biologia Celular e Molecular, Universidade do Porto, Portugal 3- ICBAS - Instituto de Ciências Biomédicas Abel Salazar, Universidade do Porto, Portugal (1)
1. Departamento de Biología Molecular, Centro de Biología Molecular ‘“Severo Ochoa’” (CBMSO), c/ Nicolás Cabrera 1, Universidad Autónoma de Madrid, Madrid, Spain. 2. Centro de Investigación Biomédica en red de Enfermedades Raras (CIBERER), ISCIII, Madrid, Spain. 3. Instituto de Investigación Hospital 12 de Octubre, i+12, Universidad Autónoma de Madrid, Madrid, Spain. (1)
1. Departamento de Biología Molecular, Centro de Biología Molecular ‘“Severo Ochoa’” (CBMSO), c/ Nicolás Cabrera 1, Universidad Autónoma de Madrid, Madrid, Spain. 2. Centro de Investigación Biomédica en red de Enfermedades Raras (CIBERER), ISCIII, Madrid, Spain. 3. Instituto de Investigación Hospital 12 de Octubre, i+12, Universidad Autónoma de Madrid, Madrid, Spain. (lab head) (1)
1. Garvan Institute of Medical Research, Cancer Ecosystems Program, and The Kinghorn Cancer Centre, Darlinghurst, Sydney, New South Wales, Australia. 2. School of Clinical Medicine, Faculty of Medicine and Health, University of New South Wales (UNSW), Kensington, Sydney, New South Wales, Australia. (1)
1Center for Advanced Vision Science, University of Virginia School of Medicine, Charlottesville, Virginia, USA (1)
1Neonatal Research, Murdoch Children’s Research Institute, Parkville, Australia 2Department of Paediatrics, University of Melbourne, Melbourne, Australia (1)
AQUACEN - National Reference Laboratory for Aquatic Animals Diseases, Ministry of Agriculture, Livestock and Food Supply, Brazil (1)
Analytical Biochemistry and Proteomics Unit (1)
Analytical Biochemistry and Proteomics Unit, Institut Pasteur de Montevideo & Instituto de Investigaciones Biológicas Clemente Estable. (1)
Analytical Chemistry Lab Fondazione Istituto Italiano di Tecnologia Via Morego 30, 16163 Genova Italy (1)
Associate Professor of Oncological Sciences Huntsman Cancer Institute at the University of Utah (1)
Astrazeneca (1)
Australian Research Council Centre of Excellence in Plant Energy Biology, School of Molecular Sciences, The University of Western Australia, Crawley, WA 6009, Australia (1)
Baker Heart & Diabetes Institute and Murdoch Childrens Research Institute (pmpf@unimelb.edu.au) (1)
Biology Departament. Federal University of Ceara. Brasil, Ceara. (1)
CNC-Center for Neuroscience and Cell Biology, University of Coimbra, 3004-517 Coimbra, Portugal; Biocant, Biotechnology Innovation Center, 3060-197 Cantanhede, Portugal; (1)

IsPrivate

False (8)

Model Flag

Non Kinetic (1)

Submitter Keywords

Ersilia (1)
Machine Learning Model (1)
Manuscript Accepted (1)

Modification

4-tetrahydrothiazine-3-carboxylic acid (1)

Study type

Transcription profiling by array (98)
RNA-seq of coding RNA (22)
Unknown experiment type (7)
Comparative genomic hybridization by array (7)
ChIP-seq (6)
RNA-seq of non coding RNA (4)
ChIP-chip by tiling array (3)
ChIP-chip by array (3)
Methylation profiling by array (3)
Transcription profiling by SAGE (1)
High-throughput sequencing (1)
Genotyping by array (1)
Spatial transcriptomics by high-throughput sequencing (1)
Other (1)
Single nucleus RNA sequencing (1)
MicroRNA profiling by array (1)
RNA-seq of coding RNA from single cells (1)
RNA-seq of total RNA (1)

Release Date

2022 (1416)
2023 (1298)
2025 (1228)
2021 (1197)
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2020 (910)
2019 (722)
2018 (595)
2017 (453)
2016 (373)
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2013 (191)
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2012 (147)
2011 (114)
2010 (94)
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2008 (59)
2007 (30)
2006 (23)
2004 (16)
2005 (11)
2000 (8)
2002 (6)
1999 (6)
2001 (5)
2003 (4)
1998 (1)
1997 (1)

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Deep functional analysis of synII, a 770 kb synthetic yeast chromosome

Here we report the design, construction and characterization of a 770 Kb synthetic yeast chromosome II (synII). With the UPLC-MS method, we demonstrated synII maintains a nearly wild-type phenotype and fitness despite hundreds of designer editing to it. Our phenomics, transcriptomics, proteomics dat...

2016-10-13 | MTBLS296 | MetaboLights

Operation of a TCA cycle subnetwork in the mammalian nucleus

Nucleic acid and histone modifications critically depend on tricarboxylic acid (TCA) cycle for substrates and co-factors. Although a few TCA cycle enzymes have been reported in the nucleus, the corresponding pathways are considered to operate in mitochondria. Here, we show that a part of the...

2022-06-15 | MTBLS2235 | MetaboLights

Genomic insights into the antimicrobial resistance and virulence of Helicobacter pylori isolates from gastritis patients in Pereira, Colombia.

Not available

S-EPMC11382513 | biostudies-literature

Antimicrobial susceptibility of clinical Helicobacter pylori isolates and its eradication by standard triple therapy: a study in west central region of Colombia.

Not available

S-EPMC11302661 | biostudies-literature

Analyses of familial chylomicronemia syndrome in Pereira, Colombia 2010-2020: a cross-sectional study.

Not available

S-EPMC10045250 | biostudies-literature

Characterization and effectiveness of a Fracture Liaison Services program in Colombia.

Not available