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Data from: Enabling proteomic studies with RNA-Seq: the proteome of tomato pollen as a test case

The data set included here is the supporting material to the article, "Enabling proteomic studies with RNA-Seq: The proteome of tomato pollen as a test case." 2012.

Researchers conducted a quantitative analysis of the proteomes of pollen from domesticated tomato (Solanum lycopersicum) and two wild relatives that exhibit differences in mating systems and in inter-specific reproductive barriers.

Using a custom tomato RNA-Seq database created through 454 pyrosequencing, more than 1200 proteins were identified, with subsets showing expression differences between genotypes or in the accumulation of the corresponding transcripts.

Importantly, no major qualitative or quantitative differences were observed in the characterized proteomes when mass spectra were used to interrogate either a highly curated community database of tomato DNA sequences generated through traditional sequencing technologies, or the RNA-Seq database.

They conclude that RNA-Seq provides a cost-effective and robust platform for protein identification and will be increasingly valuable to the field of proteomics.

This dataset consists of 10 tables containing protein, peptides, and spectral data.

Dataset Info

These fields are compatible with DCAT, an RDF vocabulary designed to facilitate interoperability between data catalogs published on the Web.
FieldValue
Authors
Lopez-Casado, Gloria
Covey, Paul A.
Bedinger, Patricia A.
(ORCID)
Mueller, Lukas A.
(ORCID)
Thannhauser, Theodore W.
(ORCID)
Zhang, Sheng
Fei, Zhangjun
(ORCID)
Giovannoni, James J.
(ORCID)
Rose, Jocelyn K.C.
(ORCID)
Product Type
Genome/Genetics Data
Temporal Coverage
2009-06
Publisher
PROTEOMICS
Contact Name
Rose, Jocelyn
Contact Email
Public Access Level
Restricted
Primary Article

Lopez-Casado, G., Covey, P., Bedinger, P., Mueller, L., Thannhauser, T., & Zhang, S. et al. (2012). Enabling proteomic studies with RNA-Seq: The proteome of tomato pollen as a test case. Proteomics, 12(6), 761-774.

AgID: 10113/60482
License
Funding Source(s)
National Science Foundation
DBI-0605200
National Science Foundation
DBI-0606595
Dataset DOI (digital object identifier)
10.15482/USDA.ADC/1177461
Modified Date
2018-12-11
Release Date
2015-03-09
Ag Data Commons Keywords: 
  • Genomics & Genetics
  • Genomics & Genetics
  • Expression analysis
  • Genomics & Genetics
  • Expression analysis
  • RNA Seq
  • Genomics & Genetics
  • Proteomes
  • Genomics & Genetics
  • Transcriptome
  • Genomics & Genetics
  • Transcriptome
  • Transcriptome assembly
National Agricultural Library Thesaurus Term: 
ISO Topic(s):