Draft genome - OmicsDI

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Genomics (10952)
Unknown (6447)
Transcriptomics (141)
Proteomics (123)
Models (12)
Metabolomics (7)
Methylation profiling (4)
Multiomics (4)
Other (3)
Genomic (2)

Organisms

Homo sapiens (81)
Mus musculus (14)
Zea mays (10)
Drosophila melanogaster (10)
Daphnia pulex (9)
Sus scrofa (5)
Eucalyptus grandis x Eucalyptus urophylla (4)
Equus caballus (4)
Macaca fascicularis (3)
Oryza rufipogon (2)
Tetradesmus obliquus (2)
Vitis vinifera (2)
Saccharomyces cerevisiae (2)
Tremella fuciformis (2)
Littorina compressa (2)
Alternaria brassicicola (2)
Triticum timopheevii (1)
Dunaliella tertiolecta (1)
Panagrellus redivivus (1)
Bacillus anthracis str. Ames (1)
Drosophila ficusphila (1)
Nannochloropsis oceanica (1)
Lagenaria siceraria (1)
Micrococcus luteus NCTC 2665 (1)
Bos grunniens (1)
Ruminococcus flavefaciens FD-1 (1)
Bifidobacterium bifidum (1)
Brassica oleracea (1)
Ascaris suum (1)
Triticum turgidum subsp. durum (1)

Organisms

Escherichia coli (135)
Populus trichocarpa (60)
Eucalyptus grandis (50)
Staphylococcus aureus (49)
Bacillus velezensis (46)
Lactiplantibacillus plantarum (43)
Pseudomonas aeruginosa (42)
Klebsiella pneumoniae (41)
Sorghum bicolor (36)
soil metagenome (27)
Fusarium oxysporum (25)
Bacillus subtilis (21)
Bacillus cereus (20)
Enterococcus faecalis (20)
Mycobacterium tuberculosis (20)
Bacteria (19)
Legionella pneumophila (19)
Fusarium vanettenii (17)
Salmonella enterica subsp. enterica serovar Typhi (17)
Streptococcus agalactiae (15)
Enterococcus faecium (15)
Bacillus safensis (14)
Capra hircus (14)
Listeria monocytogenes (14)
Coxiella burnetii (13)
Photobacterium damselae subsp. damselae (13)
Streptococcus pneumoniae (13)
Neisseria meningitidis (13)
Aeromonas hydrophila (13)
Camelina sativa (13)

Repository

ENA (10924)
biostudies-arrayexpress (121)
PeptideAtlas (59)
pride (56)
geo (51)
BioModels (12)
MassIVE (4)
MetaboLights (4)
GNPS (3)
dbGaP (2)
EGA (2)
iProX (2)
NODE (2)
EVA (1)
GPMDB (1)

Tissue

Others (25)
Digestive System (8)
Male Reproductive System (8)
Female Reproductive System (7)
Midgut (6)
Whole body (5)
Liver (3)
Spleen (3)
Brain (3)
Leaf (3)
Liver (3)
Feces (2)
Adrenal gland (2)
Cell culture (2)
Colon (2)
Heart (2)
Kidney (2)
Lung (2)
Nematocyst (2)
Ovary (2)
Pancreas (2)
Plant cell (2)
Spinal cord (2)
Testis (2)
Adrenal Gland (1)
Brain (1)
Kidney (1)
Lung (1)
Pancreas (1)
Airway fluid (1)

Disease

Not Available (1)
Cystic fibrosis (1)
Disease free (1)

Technology Type

Mass Spectrometry (56)
Shotgun proteomics (41)
Bottom-up proteomics (6)
Gel-based experiment (4)
Top-down proteomics (4)
Mass spectrometry (3)
Mass spectrometry assay (1)
Affinity purification coupled with mass spectrometry proteomics (1)
Chemical cross-linking coupled with mass spectrometry proteomics (1)
Data-dependent acquisition (1)
DiaPASEF (1)
Metaproteomics (1)
SWATH MS (1)

Instrument Platform

LTQ Orbitrap Elite (28)
LTQ Orbitrap Velos (28)
Illumina HiSeq 2000 (10)
QExactive (6)
Illumina Genome Analyzer II (3)
Liquid Chromatography MS - positive - reverse phase (3)
Flat panel airlift-loop reactor with a 1.7 L working volume (2)
Maxwell® 16 LEV simplyRNA Tissue kit (Promega) (2)
Illumina Genome Analyzer (2)
Illumina HiSeq 2500 (2)
Illumina HiSeq 4000 (2)
6520A Quadrupole Time-of-Flight LC/MS (2)
AB SOLiD 4 System (1)
NextSeq 2000 (1)
Illumina MiSeq (1)
Illumina HiSeq 1500 (1)
- (1)
LCQ Fleet (1)
Instrument (1)
LTQ Orbitrap XL (1)
Q Exactive (1)
Direct infusion MS - (1)
MS Imaging - (1)
Liquid Chromatography MS - negative - reverse phase (1)
LTQ Orbitrap (1)
ESI-ION-TRAP (1)

Publication Date

2014 (69)
2012 (34)
2010 (26)
2015 (24)
2018 (20)
2016 (19)
2011 (19)
2019 (16)
2013 (15)
2026 (10)
2024 (9)
2023 (9)
2017 (8)
2022 (7)
2020 (6)
2025 (5)
2009 (5)
2021 (5)
2008 (4)
2007 (1)
2004 (1)
2002 (1)

UNIPROT ID/AC

A5A3E0 (59)
B3KML9 (59)
B4E3A4 (59)
I3L4N8 (59)
M0QY37 (59)
O43707 (59)
P04264 (59)
P04350 (59)
P04792 (59)
P05787 (59)
P07900 (59)
P08238 (59)
P08729 (59)
P0DMV8 (59)
P11021 (59)
P11142 (59)
P11216 (59)
P11217 (59)
P12814 (59)
P12814-3 (59)
P13645 (59)
P17066 (59)
P30153 (59)
P34931 (59)
P35609 (59)
P35609-2 (59)
P35908 (59)
P54652 (59)
P55072 (59)
P60709 (59)

ENSEMBL ID

ENSG00000170477 (52)
ENSG00000229353 (44)
ENSG00000147251 (21)
ENSG00000247315 (10)
ENSG00000176092 (3)
ENSG00000204131 (3)

CHEBI ID

CHEBI:62010 (2)
CHEBI:11993 (2)
CHEBI:20375 (2)
CHEBI:36148 (2)
CHEBI:20374 (2)
CHEBI:1838 (2)
CHEBI:2798 (2)
CHEBI:24763 (2)
CHEBI:14780 (2)
CHEBI:25980 (2)
CHEBI:8086 (2)
CHEBI:14173 (2)
CHEBI:41993 (2)
CHEBI:12426 (2)
CHEBI:58251 (2)
CHEBI:7077 (2)
CHEBI:21455 (2)
CHEBI:2100 (2)
CHEBI:44141 (2)
CHEBI:20615 (2)
CHEBI:12768 (2)
CHEBI:12738 (2)
CHEBI:8940 (2)
CHEBI:22029 (2)
CHEBI:352 (2)
CHEBI:44863 (2)
CHEBI:18705 (2)
CHEBI:52381 (2)
CHEBI:10728 (2)
CHEBI:27047 (2)

Metabolite Name

Hexadecanoic acid (2)
Tryptamine (2)
Decanoic acid (2)
Pentadecanoic acid (2)
D-Glucose (2)
Adenine (2)
Pyruvate (2)
L-Valine (2)
L-Leucine (2)
N6-acetyl-L-lysine (1)
Delta-Gluconolactone (1)
Uridine-5'-phosphoric acid (1)
Stearic Acid methyl ester (1)
(Sodium) taurochenodeoxycholate (1)
(Sodium) L-lactate (1)
(Sodium) 2-(hydroxymethyl)butanoate (1)
Sn-glycero-3-phosphocoline (1)
Riboflavin 5'-Monophosphate (1)
Propionyllevocarnitine (1)
Phenethyl cinnamate (1)
O-Phosphoryl-ethanolamine (1)
N-Iso valerylglycine (1)
N-Butyric acid (1)
N-alpha-Acetyl-L-glutamine (1)
N-Acetyl-L-cysteine (monomer) (1)
N-Acetyl-L-cysteine (dimer) (1)
N-Acetyl-L-arginine dihydrate (1)
N-(5-Aminopentyl) acetamide (1)
L-Hydroorotic acid (1)
L-Gulonic acid gamma-lactone (1)

First Public Date

2019 (1135)
2013 (1099)
2024 (894)
2025 (861)
2016 (848)
2020 (847)
2017 (803)
2026 (793)
2018 (780)
2021 (660)
2022 (566)
2023 (546)
2015 (539)
2014 (518)
2012 (26)
2010 (7)
2011 (2)

Modelling Approach

Constraint-based model (7)
Metabolic network (5)

Lab affiliation

Department of Entomology,Institute of Vegetables and Flowers,Chinese Academy of Agriculture Sciences,Beijing,100081,China (6)
1 School of Pharmacy, University of Wisconsin-Madison, Madison, WI 53705, United States 2 Department of Chemistry, University of Wisconsin-Madison, Madison, WI 53706, United States (1)
Analytics Core Facility Essen (ACE), Chemische Biologie, Universität Duisburg-Essen, ZMB, Germany (1)
CINDEFI-CONICET-UNLP (1)
Center for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark. The Bioinformatics Centre, Department of Biology, University of Copenhagen, Copenhagen, Denmark. (1)
Center for Microbial Communities Department of Chemistry and Bioscience Aalborg University (1)
Center for Neuroscience and Cell Biology (1)
Centre for Advanced Imaging, the University of Queensland (1)
Chair in Infection and Global Health, Department of Infection Biology, Institute of Infection and Global Health, University of Liverpool, ic2 Building, Liverpool, L3 5RF, UK. (1)
Chair, Department of Environmental and Global Health, College of Public Health and Health Professions, University of Florida (1)
College of Fisheries, Huazhong Agricultural University (1)
College of life science,Fujian agriculture and forestry university (1)
Department of Biochemistry and Molecular Biology and Agricultural Chemistry and Soil science University of Alicante SPAIN (1)
Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, 8093, Switzerland (1)
Department of Genome Sciences Department of Computer Science and Engineering University of Washington (1)
Department of Infection Biology, Institute of Infection and Global Health, University of Liverpool, UK (1)
Department of Zoology, School of Natural Sciences, National University of Ireland, Galway. (1)
Dr. Andreas Otto Institute for Microbiology Department of Microbial Proteomics Ernst-Moritz-Arndt-University Greifswald F.-L.-Jahn-Str. 15 17489 Greifswald (1)
Head of School, Senior Lecturer, School of Biotechnology, Fundamental and Translational Immunology Group Leader Dublin City University, Dublin 9. Ireland (1)
Helmholtz-Centre for Environmental Research - UFZ GmbH Department of Molecular Systems Biology Permoserstrasse 15 04318 Leipzig, Germany (1)
ICGEB (1)
Institute of Bioinformatics, Discoverer-7th Floor, Unit-1, International Technology Park, Whitefield, Bangalore - 560066, India (1)
Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Prague, Czech Republic (1)
Institute of Zoology, University of Innsbruck, Innsbruck, Austria (1)
International Centre for Genetic Engineering and Biotechnology Aruna Asaf Ali Marg 110 067 New Delhi, India (1)
LIST-ERIN-ERTP-Green Tech platform Belvaux, LUXEMBOURG (1)
Laboratory of Toxinology, Oswaldo Cruz Institute, Fiocruz, Rio de Janeiro, RJ, Brazil (1)
Li2D (1)
Lundbeck Foundation GeoGenetics Centre, Natural History Museum of Denmark, University of Copenhagen, Denmark (1)
MRC Centre for Molecular Bacteriology and Infection, Department of Life Sciences, Imperial College London, UK (1)

IsPrivate

False (12)

Model Flag

Non Kinetic (2)

Submitter Keywords

FROG (2)
Not Peer Reviewed (1)

Classification

bacteria (1483)
fungi (494)
helminths (41)
protozoa (26)
viruses (14)

Modification

Not available (1)

Study type

RNA-seq of coding RNA (50)
Transcription profiling by array (30)
Comparative genomic hybridization by array (10)
RNA-seq of non coding RNA (9)
ChIP-seq (6)
Unknown experiment type (4)
Transcription profiling by tiling array (4)
Other (2)
Animal - High-throughput sequencing (1)
Proteomic profiling by mass spectrometer (1)
Antigen profiling (1)
DNA-seq (1)
Genotyping by high throughput sequencing (1)
Methylation profiling by high throughput sequencing (1)

Release Date

2020 (765)
2019 (684)
2022 (581)
2021 (553)
2018 (543)
2017 (511)
2016 (467)
2015 (454)
2023 (392)
2014 (352)
2013 (283)
2024 (220)
2012 (200)
2025 (160)
2011 (136)
2010 (71)
2008 (36)
2009 (33)
2026 (21)
2002 (19)
2007 (16)
2006 (15)
2005 (15)
2004 (15)
2003 (15)
2001 (8)
2000 (3)

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A draft genome sequence of the elusive giant squid, Architeuthis dux

We present a draft genome assembly that includes 200 Gb of Illumina reads, 4 Gb of Moleculo synthetic long-reads and 108 Gb of Chicago libraries, with a final size matching the estimated genome size of 2.7 Gb, and a scaffold N50 of 4.8 Mb. We also present an alternative assembly including 27 Gb raw ...

ORGANISM(S): Architeuthis dux

2019-12-16 | PXD016522 | Pride

Expression profiling in Macaca fascicularis liver samples

The long-tailed macaque, also referred to as cynomolgus monkey (Macaca fascicularis), is one of the most important non-human primate animal models in basic and applied biomedical research. To improve the predictive power of primate experiments for humans, we determined the genome sequence of a Macac...

ORGANISM(S): Macaca fascicularis

2011-08-24 | E-GEOD-30184 | biostudies-arrayexpress

Draft genome sequencing of Lactuca. sativa cv. Tizian

The draft genome of L. sativa (lettuce) cv. Tizian was sequenced in two Illumina sequencing runs, mate pair and shotgun. This entry contains the RAW sequencing data.

ORGANISM(S): Lactuca sativa

2018-02-09 | E-MTAB-6347 | biostudies-arrayexpress

Draft Genome Sequence of Rhizobium rhizogenes Strain ATCC 15834.

Not available

S-EPMC4214992 | biostudies-literature

Draft Genome Sequences of 1,183 Salmonella Strains from the 100K Pathogen Genome Project.

Not available

S-EPMC5511902 | biostudies-literature

Draft Genome Sequence of Porphyrobacter mercurialis (sp. nov.) Strain Coronado.

Not available

S-EPMC4653769 | biostudies-literature

Draft Genome Sequence of Curtobacterium flaccumfaciens Strain UCD-AKU (Phylum Actinobacteria).

Not available

S-EPMC3656209 | biostudies-literature

Draft Genome Sequence of Leucobacter sp. Strain UCD-THU (Phylum Actinobacteria).

Not available

S-EPMC3675516 | biostudies-literature

Draft Genome Sequence of Dietzia sp. Strain UCD-THP (Phylum Actinobacteria).

Not available

S-EPMC3650439 | biostudies-literature

Reanalysis of Pandey lab's draft of the human proteome

The availability of human genome sequence has transformed biomedical research over the past decade. However, an equivalent map for the human proteome with direct measurements of proteins and peptides was lacking. To this end, Akhilesh Pandey's lab reported a draft map of the human proteome based on...

ORGANISM(S): Homo sapiens

2015-03-10 | E-PROT-1 | biostudies-arrayexpress

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