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OAS accession Detail for 0277284, meta_version: 1. Current meta_version is: 1
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| accessions_id: | 0277284 | archive |
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| Title: | Results of cluster analysis and gene ontology: cross-phyla clustering of non-redundant carbonate organic matrix proteins from coral, mollusk, and sea urchin grouped by hierarchical clustering; analyzed in the Falkowski lab at Rutgers from 2010-2014 (NCEI Accession 0277284) |
| Abstract: | This dataset contains biological and survey - biological data collected at Rutgers_New_Brunswick during deployment lab_Falkowski at New Brunswick, NJ on 2014-10-27. These data include species. The instruments used to collect these data include Mass Spectrometer. These data were collected by Oscar M.E. Schofield, Paul G. Falkowski, Robert M. Sherrell, and Yair Rosenthal of Rutgers University as part of the "The Molecular Basis of Ocean Acidification Effects on Calcification in Zooxanthellate Corals (CROA)" project and "Science, Engineering and Education for Sustainability NSF-Wide Investment (SEES): Ocean Acidification (formerly CRI-OA) (SEES-OA)" program. The Biological and Chemical Oceanography Data Management Office (BCO-DMO) submitted these data to NCEI on 2023-01-23. The following is the text of the dataset description provided by BCO-DMO: Cross-phyla clustering of non-redundant carbonate organic matrix proteins grouped by hierarchical clustering. Dataset Description: Cluster analysis and gene ontology to compare ~1500 proteins, from over 100 studies, extracted from calcium carbonates in stony corals, bivalve and gastropod mollusks, and adult and larval sea urchins. This dataset includes information presented in Supplemental Table S1 from Drake et al. 2014. Refer to Drake, et al. (2014) for more information on methodology and results. |
| Date received: | 20230123 |
| Start date: | 20141027 |
| End date: | 20141027 |
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| Submitting institution: | Biological and Chemical Oceanography Data Management Office |
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| Supplementary information: | Acquisition Description: Methodology described in Drake et al. 2014: Sequences from over 100 biomineral proteome studies were grouped by hierarchical clustering using the CD-HIT suite web server (Li and Godzik, 2006; Huang et al., 2010; http://weizhong-lab.ucsd.edu/cd-hit/ ) and assigned gene ontology (GO) terms using Blast2Go software (Conesa et al., 2005). Although 1531 proteins reduced to 1051 clusters at 30% similarity, only 64 clusters showed sequence similarity across phyla. Studies published from the 1990s through June 2013, using N-terminal and mass spectrometry COM sequencing, RT-PCR, or GO and KEGG annotation of genomic and transcriptomic data sets are included. Mass spectrometry sequences were excluded if the experimental data were compared with gene models from a different species. This dataset includes information presented in Supplemental Table S1 from Drake et al. 2014: Cross-phyla clustering of non-redundant carbonate organic matrix proteins from N-terminal and mass spectrometry COM sequencing, RT-PCR, or GO and KEGG annotation of genomic and transcriptomic data sets (from over 100 studies) grouped by hierarchical clustering using the CD-HIT suite web server ( http://weizhong-lab.ucsd.edu/cd-hit/ ). The gene accession numbers are included. 1531 proteins reduced to 1051 clusters at 30% or greater similarity, although only 64 clusters showed sequence similarity across phyla. Studies published from the 1990s through June 2013 are included. Clusters with the same name have been combined. Note: Mass spectrometry sequences were excluded if the experimental data were compared with gene models from a different species. * indicates that non-homologous proteins with similar function were also observed. See Table 2 in Drake et al. 2014. ** indicates a likely cellular contaminant due to location based on cellular component GO term. |
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| Metadata version: | 1 |
| Keydate: | 2023-03-30 20:52:45+00 |
| Editdate: | 2023-03-30 20:53:04+00 |