scholarly journals SUPFAM--a database of potential protein superfamily relationships derived by comparing sequence-based and structure-based families: implications for structural genomics and function annotation in genomes

2002 ◽  
Vol 30 (1) ◽  
pp. 289-293 ◽  
Author(s):  
S. B. Pandit
Keyword(s):  
Structural Genomics ◽  
Function Annotation ◽  
Protein Superfamily ◽  
And Function

Identification and function annotation of long intervening noncoding RNAs

2016 ◽  
pp. bbw046 ◽  
Author(s):  
Haitao Luo ◽  
Dechao Bu ◽  
Liang Sun ◽  
Shuangsang Fang ◽  
Zhiyong Liu ◽  
...  
Keyword(s):  
Noncoding Rnas ◽  
Function Annotation ◽  
And Function

scholarly journals Analysis of Ficus hirta Fig Endosymbionts Diversity and Species Composition

Diversity ◽  
2021 ◽  
Vol 13 (12) ◽  
pp. 636
Author(s):  
Yifeng Liu ◽  
Songle Fan ◽  
Hui Yu
Keyword(s):  
High Throughput Sequencing ◽  
Biological Database ◽  
Fig Wasp ◽  
Fig Wasps ◽  
Function Annotation ◽  
History Of ◽  
Ficus Hirta ◽  
Bacteria And Fungi ◽  
And Function ◽  
Confined Environment

Endosymbionts living in plants and insects are pervasive. Ficus (Moraceae) has very special inflorescences (which we also call figs) enclosed like an urn, and such inflorescence is usually parasitized by fig wasps. Ficus breeds fig wasp larvae in its figs and adult fig wasps pollinate for Ficus, Ficus and its obligated pollinator formed fig-fig wasp mutualism. Previous studies have found that this confined environment in figs may have provided protection for fig wasps and that this has left some imprints on the genome of fig wasps during the coevolution history of figs and fig wasps. Research on the diversity of both bacteria and fungi in figs are fewer. Our study explored the diversity of endosymbionts in Ficus hirta figs. We utilized high-throughput sequencing and biological database to identify the specific microorganism in figs, then conducted microorganism communities’ diversity analysis and function annotation analysis. As a result, we identified the dominant endosymbionts in figs, mainly some insect internal parasitic bacteria and fungi, plant pathogen, endophytes, and saprotroph. Then we also found bacteria in Ficus hirta figs were more diversified than fungi, and bacteria communities in female figs and functional male figs were different. These findings may give us more insight into the coevolution and interaction among endosymbiont, fig, and fig wasp.

scholarly journals Advances in long noncoding RNAs: identification, structure prediction and function annotation

2015 ◽  
Vol 15 (1) ◽  
pp. 38-46 ◽  
Author(s):  
Xingli Guo ◽  
Lin Gao ◽  
Yu Wang ◽  
David K. Y. Chiu ◽  
Tong Wang ◽  
...  
Keyword(s):  
Structure Prediction ◽  
Noncoding Rnas ◽  
Long Noncoding Rnas ◽  
Function Annotation ◽  
And Function

Genomics, Proteomics, and Metabolomics

2021 ◽  
pp. 328-400
Keyword(s):  
Functional Genomics ◽  
Gene Product ◽  
Structural Genomics ◽  
Dna Sequences ◽  
Structure And Function ◽  
Nucleotide Sequences ◽  
Metabolomics Data ◽  
Practical Utilization ◽  
Basic Concepts ◽  
And Function

Genomics could be viewed as the study of the randomness of DNA sequences. It may be possible to predict the structure of a gene product from the nucleotide sequences and thereby predict its function. The terms “structural genomics” and “functional genomics” were coined to denote the assignment of structure and function to a gene product, respectively. Proteomics focuses on the products of gene, which are basically proteins. Proteins are responsible for the development of phenotype, and proteomics is the bridge between genotype and phenotype. The transcribed mRNAs and their abundance are called transcriptome. Proteomics also deals with the interaction between proteins called intractomics. Metabolomics is concerned with identification, abundance, and localization of all the molecules excluding lipids and polysaccharides in the cell. In this chapter, the basic concepts and analysis of the genomic, proteomic, and metabolomics data for their practical utilization are discussed.

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