Bud - OmicsDI

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Unknown (3392)
Genomics (1872)
Transcriptomics (919)
Proteomics (97)
Metabolomics (21)
Other (16)
Models (4)
Methylation profiling (3)

Organisms

Mus musculus (416)
Arabidopsis thaliana (93)
Homo sapiens (93)
Danio rerio (33)
Gallus gallus (33)
Vitis vinifera (22)
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Saccharomyces cerevisiae (16)
Xenopus laevis (15)
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Rattus norvegicus (11)
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Ambystoma mexicanum (10)
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Populus tremula x Populus alba (7)
Medicago truncatula (6)
Picea glauca (6)
Citrus sinensis (6)
Solanum tuberosum (6)
Drosophila melanogaster (6)
Populus deltoides (6)
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Bos taurus (4)
Prunus mume (4)
Schizophyllum commune (3)
Ciona intestinalis (3)
Coprinopsis cinerea (3)
Schizosaccharomyces pombe (2)
Saccharomycetales (1)

Organisms

Populus trichocarpa (259)
Mus musculus (233)
Homo sapiens (60)
Arabidopsis thaliana (37)
Populus tremula x Populus alba (31)
Vitis vinifera (27)
Saccharum sp. (27)
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Yucca aloifolia (16)
Gallus gallus (16)
Brassica napus (14)
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root metagenome (12)
Malus domestica (12)
Erythranthe guttata (8)
Prunus persica (8)
Prunus avium (7)
Paeonia suffruticosa (7)
Xenopus laevis (7)
Thlaspi arvense (6)
Eriobotrya japonica (6)
Glycine max (6)
Sus scrofa (6)
Euphorbia esula (5)
Citrus sinensis (5)

Repository

ENA (1757)
biostudies-arrayexpress (540)
geo (495)
pride (80)
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ExpressionAtlas (17)
iProX (6)
MassIVE (6)
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EGA (3)
PAXDB (3)
jPOST (2)
GNPS (1)

Tissue

Flower bud (38)
Leaf (15)
Root (13)
Flower (13)
Seed (10)
Shoot (7)
Carpel (5)
Whole organism (4)
Floral bud (3)
Rosette (3)
Aerial part (2)
Stem (2)
Metanephric mesenchyme (1)
Ureteric bud (1)
Tail bud (1)
Anterior limb (1)
Posterior limb (1)
Protonema meristematic apical cell (1)
Gametophore bud (1)
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3 cm fruit (1)
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1 cm fruit (1)
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Fruit at 10 days after the breaker stage (1)
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Milk grain (1)
Plant callus (1)
Receptacle (1)
Mixed leaf and apical meristem (1)

Disease

Disease free (5)
Normal (4)
E. lata infected plant without symptoms (1)
Non-infected (1)
Human cytomegalovirus infection (1)
Malaria (1)
Osteoarthritis (1)
Viral infectious disease (1)

Technology Type

Mass Spectrometry (80)
Bottom-up proteomics (30)
Shotgun proteomics (28)
Data-dependent acquisition (16)
Mass spectrometry (15)
Gel-based experiment (9)
Affinity purification coupled with mass spectrometry proteomics (7)
SWATH MS (6)
Mass spectrometry assay (5)
Chemical cross-linking coupled with mass spectrometry proteomics (2)
Data-independent acquisition (2)
HDMSE (2)
All-ion fragmentation (1)
Proteogenomics (1)
SRM/MRM (1)
Top-down proteomics (1)

Instrument Platform

Illumina HiSeq 2000 (17)
Illumina NovaSeq 6000 (14)
NextSeq 500 (11)
Illumina HiSeq 2500 (10)
Illumina HiSeq 4000 (10)
HiSeq X Ten (4)
Q Exactive (4)
Illumina Genome Analyzer II (3)
DNBSEQ-G400 (3)
ScanArray Lite [PerkinElmer] (2)
Axon- GenePix4000B (2)
Illumina NovaSeq X (2)
NextSeq 2000 (2)
UPLC-MS/MS (2)
G2505B scanner (Agilent) (1)
Agilent scanner G2505B (1)
Affymetrix GeneChip Scanner 3000 7G (1)
Illumina Genome Analyzer (1)
AB SOLiD 4 System (1)
ScanArray 5000 [PerkinElmer] (1)
ArrayWoRx Biochip Reader [Applied Precision] (1)
Illumina Genome Analyzer IIx (1)
G2565BA DNA microarray scanner [Agilent] (1)
Affymetrix Fluidics Station 400 (1)
NA (1)
BGISEQ-500 (1)
Illumina MiSeq (1)
NextSeq 550 (1)
Illumina HiSeq 3000 (1)
Impact II (1)

Publication Date

2014 (90)
2013 (90)
2025 (78)
2015 (74)
2012 (70)
2020 (68)
2011 (66)
2023 (65)
2010 (65)
2024 (56)
2021 (56)
2016 (54)
2008 (51)
2019 (47)
2026 (44)
2022 (44)
2017 (41)
2009 (38)
2018 (30)
2007 (21)
2005 (18)
2006 (5)
2004 (2)

UNIPROT ID/AC

P38634 (3)
P11746 (3)
P53197 (3)
P24869 (3)
P26309 (3)
P20438 (3)
P20437 (2)
P33306 (2)
P13365 (2)
P30283 (2)
P08153 (2)
P11938 (2)
P23748 (1)
P32944 (1)
Q08471 (1)
Q10752 (1)
P38987 (1)
P38698 (1)
P40316 (1)
P47035 (1)
P40958 (1)
P07866 (1)
Q03018 (1)
P09119 (1)
P27636 (1)
Q00684 (1)
P32943 (1)
P24868 (1)
P26448 (1)
P06700 (1)

CHEBI ID

CHEBI:17992 (7)
CHEBI:16112 (6)
CHEBI:15741 (5)
CHEBI:69657 (4)
CHEBI:75491 (4)
CHEBI:28044 (4)
CHEBI:16704 (4)
CHEBI:17533 (4)
CHEBI:16958 (4)
CHEBI:16015 (4)
CHEBI:16750 (4)
CHEBI:30915 (4)
CHEBI:16199 (4)
CHEBI:16414 (4)
CHEBI:16828 (4)
CHEBI:70255 (3)
CHEBI:75643 (3)
CHEBI:31742 (3)
CHEBI:136561 (3)
CHEBI:15937 (3)
CHEBI:1945 (3)
CHEBI:18026 (3)
CHEBI:15584 (3)
CHEBI:30200 (3)
CHEBI:42255 (3)
CHEBI:15864 (3)
CHEBI:28527 (3)
CHEBI:90 (3)
CHEBI:22660 (3)
CHEBI:18186 (3)

Metabolite Name

Trigonelline (4)
L-Histidine (4)
Adenosine (4)
Uridine (4)
Luteolin (3)
Thr-Leu (3)
5-Methylcytosine (3)
Allantoin (3)
Caffeic acid (3)
Methionine (3)
L-Proline (3)
L-Tryptophan (3)
Guanosine (3)
Creatinine (3)
Creatine (3)
L-Valine (3)
Inosine (3)
Noruron (2)
(-)-Myrtenol (2)
Cis-[8]-Shogaol (2)
Cis-Jasmone (2)
Eucatropine (2)
Fenchone (2)
P-Coumaric acid (2)
Cedrol (2)
2-Oxopentanedioic acid (2)
3-Furancarboxylic acid (2)
6,7-Dihydroxycoumarin (2)
Diplodiatoxin (2)
4-tert-Butylcyclohexyl acetate (2)

First Public Date

2025 (248)
2018 (233)
2019 (209)
2024 (190)
2023 (145)
2014 (132)
2026 (127)
2020 (105)
2017 (99)
2022 (89)
2021 (85)
2015 (32)
2013 (32)
2016 (31)

Modelling Approach

Ordinary differential equation model (4)

Lab affiliation

Department of Plant and Environmental Sciences, Aharoni lab, Weizmann Institute of Science (2)
Institute of Plant Science (2)
MRC Laboratory of Molecular Biology Division of Cell Biology Francis Crick Avenue Cambridge CB2 0QH, UK (2)
TUM (2)
USDA-ARS (2)
1) Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London, United Kingdom 2) Institute of Structural and Molecular Biology, Birkbeck College, University of London, London, United Kingdom (1)
1. Department of Integrative Plant Biology, Institute of Plant Genetics, Polish Academy of Sciences, Poznań, Poland. 2. Associação CECOLAB, Rua Nossa Sra. da Conceição2, 3405-155 Oliveira do Hospital, Portugal (1)
733 N. Broadway Miller Research Building room 527 Johns Hopkins University Baltimore, MD 21205 (1)
Associate Professor & Co-Chair, Biology Division Indian Institute of Science Education and Research (IISER Pune) Dr. Homi Bhabha Road, Pashan, Pune-411008. Maharashtra, India. (1)
Associate Professor of Genetics Stanford University USA (1)
BSRC, University of St Andrews, UK (1)
Beijing University of Agriculture (1)
Biochemistry and Molecular Biology (1)
Biological Chemistry (1)
Biomedical Sciences Research Complex, University of St Andrews (1)
Boston College, Department of Biology, MA, USA (1)
CGSI - University of Wisconsin Madison. Sussman lab. (1)
Center for Research in Agricultural Genomics (CRAG), Spain (1)
Centre for Research in Agricultural Genomics (CRAG) CSIC-IRTA-UAB-UB, Campus UAB, 08193 Cerdanyola del Vallès, Barcelona, Spain. Institució Catalana de Recerca i Estudis Avançats (ICREA), 08010 Barcelona, Spain. (1)
Centro Nacional de Biotecnología (CNB-CSIC) (1)
Centro de Referencia para Lactobacilos (CERELA)-CCT NOA Sur- CONICET (1)
College of Biomedical Engineering & Instrument Science, Zhejiang University (1)
College of Life Sciences and Medicine, Zhejiang Sci-Tech University, Hangzhou, 310018, China (1)
DIADE, IRD, CIRAD, Université de Montpellier, Montpellier, France (1)
David O. Morgan PhD Professor, Department of Physiology Vice Dean for Research, School of Medicine University of California, San Francisco Genentech Hall Room N312B 600 16th Street San Francisco CA 94143 415-476-6695 (1)
Department of Chemistry, University of Michigan, Ann Arbor, MI 48109 Department of Biological Chemistry, University of Michigan, Ann Arbor, MI 48109 (1)
Department of Environment and Biodiversity, University of Salzburg, Hellbrunnerstraße 34, 5020 Salzburg, Austria (1)
Department of Experimental Parasitology LMU München Lena-Christ-Str. 48 82152 Planegg-Martinsried Telefon: +49 (0) 89 2180 - 3622 Fax: +49 (0) 89 2180 - 3623 E-Mail: markus.meissner@lmu.de (1)
Department of Genetics & Biochemistry Eukaryotic Pathogens Innovation Center Clemson University (1)
Department of Plant Sciences Tårnbygningen T229 Norwegian University of Life Sciences (NMBU) 1433-Ås, Norway (1)

IsPrivate

False (4)

Classification

viruses (2)
protozoa (1)
bacteria (1)

Modification

15.994915 (3)
57.021464 (2)
Not available (2)
-17.026549 (1)
42.010565 (1)

Study type

Transcription profiling by array (337)
RNA-seq of coding RNA (97)
ChIP-seq (21)
RNA-seq of non coding RNA (19)
RNA-seq of coding RNA from single cells (17)
Other (9)
Unknown experiment type (8)
ChIP-chip by tiling array (5)
ATAC-seq (5)
Transcription profiling by SAGE (4)
ChIP-chip by array (3)
Transcription profiling by tiling array (2)
RNA-seq of total RNA (2)
MNase-seq (1)
Human - Single-cell sequencing (1)
MicroRNA profiling by high throughput sequencing (1)
Spatial transcriptomics by high-throughput sequencing (1)
Bisulfite-seq (1)
Comparative genomic hybridization by array (1)
ScATAC-seq (1)
MicroRNA profiling by array (1)
DNA-seq (1)

Release Date

2022 (341)
2021 (317)
2025 (277)
2023 (276)
2020 (261)
2024 (258)
2019 (222)
2014 (212)
2018 (192)
2017 (187)
2015 (186)
2016 (177)
2013 (172)
2012 (147)
2011 (135)
2010 (110)
2009 (100)
2008 (79)
2007 (64)
2026 (40)
2006 (36)
2005 (26)
2002 (22)
2004 (20)
2003 (18)
2001 (15)
2000 (12)
1997 (11)
1998 (9)
1999 (7)

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Metabolomic and physiological analysis of bud differentiation in dense apple (Malus × domestica Borkh.) orchards following thinning and reshaping

BACKGROUND: In China, a majority of apple orchards were initially planted under arboriculture. Noteworthy, as the trees age, there is an increase in the number of branches and the degree of orchard depression and deterioration of the canopy light conditions. This phenomenon results in in blockage...

2025-01-20 | MTBLS11951 | MetaboLights

Nodal Root Bud Development - Transcriptome Analysis

Bioenergy sorghum’s large and deep nodal root system and associated microbiome enables uptake of water and nutrients from and deposition of soil organic carbon into soil profiles, key contributors to the crop’s resilience and sustainability. The goal of this study was to increase our understanding o...

ORGANISM(S): Sorghum bicolor

2025-05-10 | E-MTAB-15090 | biostudies-arrayexpress

Gene expression profiling of grape-bud response to two alternative dormancy-release stimuli.

A grape-bud-oriented genomic platform was produced for a large-scale comparative analysis of bud responses to two stimuli of grape-bud dormancy release, hydrogen cyanamide (HC) and heat shock (HS). The results suggested considerable similarity in bud response to the stimuli, both in the repertoire o...

ORGANISM(S): Vitis vinifera

2010-05-19 | E-GEOD-16173 | biostudies-arrayexpress

Analysis of transcriptome sequences from two flower types of C. vulgaris

The production of heather (Calluna vulgaris) in Germany is highly dependent on cultivars with mutated flower morphology, the so-called diplocalyx bud bloomers. So far, this unique flower type of C. vulgaris has not been reported in any other plant species. The flowers are characterised by an extreme...

ORGANISM(S): Calluna vulgaris

2015-01-26 | E-GEOD-60105 | biostudies-arrayexpress

Transcription profiling of initial stages of metanephric development in mouse and rat

In this study we identify molecules with highly restricted expression patterns during the initial stages of metanephric development, when the ureteric bud has entered the metanephric mesenchyme and initiated branching morphogenesis. Using the Affymetrix Mouse Genome 430 2.0 Array, we compare gene ex...

ORGANISM(S): Mus musculus

2007-07-24 | E-GEOD-1983 | biostudies-arrayexpress

Transcription profiling of Xenopus Dorsal Ventral Pancreatic Bud Comparison

During embryogenesis, the pancreas develops from separate dorsal and ventral buds, which fuse to form the mature pancreas. Little is known about the functional differences between these two buds or the relative contribution of cells derived from each portion to the pancreas after fusion. To follow t...

ORGANISM(S): Xenopus laevis

2009-06-01 | E-GEOD-13603 | biostudies-arrayexpress

Characterization of the mid-foregut transcriptome identifies genes regulated during lung bud induction.

To identify genes expressed during initiation of lung organogenesis, we generated transcriptional profiles of the prospective lung region of the mouse foregut (mid-foregut) microdissected from embryos at three developmental stages between embryonic day 8.5 (E8.5) and E9.5. This period spans from lun...

ORGANISM(S): Mus musculus

2010-01-14 | E-GEOD-19873 | biostudies-arrayexpress

Transcription profiling of wild type and HoxA11 metenephric mesenchyme and ureteric bud from embryonic day 11.5 mice

E11.5 metanephric mesenchyme and ureteric bud were dissected from the E11.5 kidney rudiment using fine manual microdissection (ureteric bud only) or both fine manual microdissection and laser capture microdissection (metanephric mesenchyme) to define the gene expression profiles of these structures....

ORGANISM(S): Mus musculus

2007-12-07 | E-GEOD-3822 | biostudies-arrayexpress

Transcription profiling of Arabidopsis axillary bud dormancy in wild type and branching mutants

Study of axillary bud dormancy in wildtype and branching mutants of Arabidopsis thaliana.

ORGANISM(S): Arabidopsis thaliana

2004-12-31 | E-MEXP-148 | biostudies-arrayexpress

Transcription profiling of blackcurrant (Ribes nigrum cv Ben Hope) bud tissue during dormancy and bud-break.

Transcriptional analysis of staged leaf bud tissue during dormancy and bud-break in blackcurrant using SCRI custom Ribes 4k arrays

ORGANISM(S): Ribes nigrum

2010-05-01 | E-TABM-807 | biostudies-arrayexpress

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