ArticlePlant physiology2005
Combining experimental and predicted datasets for determination of the subcellular location of proteins in Arabidopsis.
Article in Plant physiology, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 62 papers.
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Who cites it
62 citing papers in PubMed, 120 citations in OpenAlex.
- Membrane Profiling by Free Flow Electrophoresis and SWATH-MS to Characterize Subcellular Compartment Proteomes inInternational journal of molecular sciences · 2021Article
- Subcellular Proteomics as a Unified Approach of Experimental Localizations and Computed Prediction Data for Arabidopsis and Crop Plants.Advances in experimental medicine and biology · 2021Article
- Genome-Scale Characterization of Predicted Plastid-Targeted Proteomes in Higher Plants.Scientific reports · 2020Article
- Rapid Affinity Purification of Tagged Plant Mitochondria (Mito-AP) for Metabolome and Proteome Analyses.Plant physiology · 2020Article
- Multiple marker abundance profiling: combining selected reaction monitoring and data-dependent acquisition for rapid estimation of organelle abundance in subcellular samples.The Plant journal : for cell and molecular biology · 2017Article
- SUBA4: the interactive data analysis centre for Arabidopsis subcellular protein locations.Nucleic acids research · 2017Article
- Review
- Comprehensive Analysis of the Membrane Phosphoproteome Regulated by Oligogalacturonides in Arabidopsis thaliana.Frontiers in plant science · 2016Article
- Developmentally regulated HEART STOPPER, a mitochondrially targeted L18 ribosomal protein gene, is required for cell division, differentiation, and seed development in Arabidopsis.Journal of experimental botany · 2015Article
- A Meloidogyne incognita effector is imported into the nucleus and exhibits transcriptional activation activity in planta.Molecular plant pathology · 2015Article
- Protein subcellular relocalization of duplicated genes in Arabidopsis.Genome biology and evolution · 2014Article
- Using the SUBcellular database for Arabidopsis proteins to localize the Deg protease family.Frontiers in plant science · 2014Article
- Rice DB: an Oryza Information Portal linking annotation, subcellular location, function, expression, regulation, and evolutionary information for rice and Arabidopsis.The Plant journal : for cell and molecular biology · 2013Article
- Redundant and non-redundant roles of the trehalose-6-phosphate phosphatases in leaf growth, root hair specification and energy-responses in Arabidopsis.Plant signaling & behavior · 2013Article
- SUBA3: a database for integrating experimentation and prediction to define the SUBcellular location of proteins in Arabidopsis.Nucleic acids research · 2013Article
- Fluorescent protein tagging as a tool to define the subcellular distribution of proteins in plants.Frontiers in plant science · 2013Article
- Plant cell wall proteomics: the leadership of Arabidopsis thaliana.Frontiers in plant science · 2013Article
- The rice mitochondria proteome and its response during development and to the environment.Frontiers in plant science · 2013Article
- A novel approach to dissect the abscission process in Arabidopsis.Plant physiology · 2012Article
- A previously unknown oxalyl-CoA synthetase is important for oxalate catabolism in Arabidopsis.The Plant cell · 2012Article
2 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
4 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Substantial experimental datasets defining the subcellular location of Arabidopsis (Arabidopsis thaliana) proteins have been reported in the literature in the form of organelle proteomes built from mass spectrometry data (approximately 2,500 proteins). Subcellular location for specific proteins has also been published based on imaging of chimeric fluorescent fusion proteins in intact cells (approximately 900 proteins). Further, the more diverse history of biochemical determination of subcellular location is stored in the entries of the Swiss-Prot database for the products of many Arabidopsis genes (approximately 1,800 proteins). Combined with the range of bioinformatic targeting prediction tools and comparative genomic analysis, these experimental datasets provide a powerful basis for defining the final location of proteins within the wide variety of subcellular structures present inside Arabidopsis cells. We have analyzed these published experimental and prediction data to answer a range of substantial questions facing researchers about the veracity of these approaches to determining protein location and their interrelatedness. We have merged these data to form the subcellular location database for Arabidopsis proteins (SUBA), providing an integrated understanding of protein location, encompassing the plastid, mitochondrion, peroxisome, nucleus, plasma membrane, endoplasmic reticulum, vacuole, Golgi, cytoskeleton structures, and cytosol (www.suba.bcs.uwa.edu.au). This includes data on more than 4,400 nonredundant Arabidopsis protein sequences. We also provide researchers with an online resource that may be used to query protein sets or protein families and determine whether predicted or experimental location data exist; to analyze the nature of contamination between published proteome sets; and/or for building theoretical subcellular proteomes in Arabidopsis using the latest experimental data.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.