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Genomics

 Genomics is discipline of genetics for sequencing, assembling and analyzing the function and structure of entire genomes, not single genes.

Genome analysis

DNA sequencing

 First of all, select an organism of interest. Then sequence DNA fragments. There are several ways for sequencing DNA fragments; shotgun sequencing[1], high-throughout sequencing, illumina sequencing[2] and ion torrent[3].

Sequence assembly

 After sequencing DNA fragments, next step is assembling DNA fragments to rebuild original chromosome. There are two ways; de-novo assembly[4] which assemble without any reference sequences, and comparative assembly which use sequences of similar organism for reference.

Annotation

 Genome annotation is giving some biological information to sequences. Main aspects for genome annotation is finding non-protein coding portion, identifying elements on genome and giving information to elements.

Fields of genomics

Functional genomics

 Functional genomics is a field for studying gene function and interactions. They want to find the relationship between the genome and its phenotype.

Structural genomics

 Structural genomics is a field for studying the three dimensional structure of proteins encoded by genome.

Epigenomics

 Epigenomics is a study about the complete set of epigenetic modifications, such as DNA methylation and histone modification, in the cell.

Metagenomics

 Metagenomics is a study of genetic material of environmental samples.

Transcriptomics 

 Transcriptomics is a study on RNAs, such as mRNA, rRNA, tRNA and non-coding RNA. Usually transcriptomics examine the expression level of RNA and study the function of RNA.

Analyzing methods

 There is two analyzing methods; microarrarys and RNA-seq.

Microarrays

 Microarrays is a method which collect RNA fragments on solid surface. On solid surface, DNAs are fragmented and attached. When RNAs are introduced in surface, RNA is attached to its anti-sense DNA fragments. So people can see which part of DNA(gene) is highly expressed and figure out the function.[5]

RNA-seq

 RNA-seq, also known as RNA sequencing, is a recently method to analyze the amount of RNA in a specific time by using next-generation sequencing. Fore details, see here;[6][7]