Difference between revisions of "Preview for Transcriptomics"
imported>Jaehyeok Shin (Created page with "<p><span style="font-size:medium">1. What is transcriptomics?</span></p> <p><span style="font-size:medium">2. Relationship between genomics and transcriptomics</span></p> <p><s...") |
imported>Jaehyeok Shin |
||
| Line 1: | Line 1: | ||
<p><span style="font-size:medium">1. What is transcriptomics?</span></p> | <p><span style="font-size:medium">1. What is transcriptomics?</span></p> | ||
| + | |||
| + | <p><span style="font-size:medium">First, we should know about the transcriptome. Transcriptome is from the transcription by RNA polymerase II to make messenger RNA and those messenger RNA will be translated into polypeptide to function in the individual cell. The transcriptome is the set of all messenger RNA molecules in one cell or a population of cells. The study of transcriptome is transcriptomics, which is the analysis of sequence of RNA molecules.</span></p> | ||
<p><span style="font-size:medium">2. Relationship between genomics and transcriptomics</span></p> | <p><span style="font-size:medium">2. Relationship between genomics and transcriptomics</span></p> | ||
| + | |||
| + | <p><span style="font-size:medium">The common feature of genomics and transcriptomics is that figure out the specific sequence of DNA or RNA. However, in terms of central dogma of biology field, the DNA has storing the information of protein-coding intact sequence, but it cannot express protein by itself. To express protein, it need to be transcribed first by RNA polymerase. Therefore I guess that the genomics is the basement of transcriptome to understand how biological phenomenon works.</span></p> | ||
<p><span style="font-size:medium">3. What are mRNAs?</span></p> | <p><span style="font-size:medium">3. What are mRNAs?</span></p> | ||
| + | |||
| + | <p><span style="font-size:medium">There are 3 types of coding RNA. mRNA is the one of those coding RNA, and it is called messenger RNA because when it transcribed, it can transfer its gene information to translation complex to express its protein.</span></p> | ||
<p><span style="font-size:medium">4. How to measure RNA expression?</span></p> | <p><span style="font-size:medium">4. How to measure RNA expression?</span></p> | ||
| + | |||
| + | <p><span style="font-size:medium">Measuring RNA expression is available in two parts. One is qPCR(quantitative PCR or real-time PCR) with cDNA synthesis. First, synthesis the complement DNA from mRNA or other RNA sequence by using oligo-dT or random hexamer to bind with the tip of the RNA structure which is play a primer action during the synthesis of cDNA by reverse transcriptase. Reverse transcriptase is the enzyme that convert RNA to DNA strand.</span></p> | ||
| + | |||
| + | <p><span style="font-size:medium">After synthesis of cDNA, it should be analyzed by qPCR using cDNA as a template. qPCR is the method that detect the quantity by measuring probe intensity which is combined with primer. When it is reached to certain level, then it caculate back with cycle number. </span></p> | ||
<p><span style="font-size:medium">5. Relationship between Transcriptome and Proteome.</span></p> | <p><span style="font-size:medium">5. Relationship between Transcriptome and Proteome.</span></p> | ||
| Line 31: | Line 41: | ||
<p><a href="http://www.biomedcentral.com/1471-2164/13/473">http://www.biomedcentral.com/1471-2164/13/473</a></p> | <p><a href="http://www.biomedcentral.com/1471-2164/13/473">http://www.biomedcentral.com/1471-2164/13/473</a></p> | ||
| − | <p>https://www.youtube.com/watch?v=UYJfM2-Y7y8 (Youtube by Illumina Gary Schroth)</p> | + | <p><a href="https://www.youtube.com/watch?v=UYJfM2-Y7y8">https://www.youtube.com/watch?v=UYJfM2-Y7y8</a> (Youtube by Illumina Gary Schroth)</p> |
Revision as of 16:23, 31 May 2016
1. What is transcriptomics?
First, we should know about the transcriptome. Transcriptome is from the transcription by RNA polymerase II to make messenger RNA and those messenger RNA will be translated into polypeptide to function in the individual cell. The transcriptome is the set of all messenger RNA molecules in one cell or a population of cells. The study of transcriptome is transcriptomics, which is the analysis of sequence of RNA molecules.
2. Relationship between genomics and transcriptomics
The common feature of genomics and transcriptomics is that figure out the specific sequence of DNA or RNA. However, in terms of central dogma of biology field, the DNA has storing the information of protein-coding intact sequence, but it cannot express protein by itself. To express protein, it need to be transcribed first by RNA polymerase. Therefore I guess that the genomics is the basement of transcriptome to understand how biological phenomenon works.
3. What are mRNAs?
There are 3 types of coding RNA. mRNA is the one of those coding RNA, and it is called messenger RNA because when it transcribed, it can transfer its gene information to translation complex to express its protein.
4. How to measure RNA expression?
Measuring RNA expression is available in two parts. One is qPCR(quantitative PCR or real-time PCR) with cDNA synthesis. First, synthesis the complement DNA from mRNA or other RNA sequence by using oligo-dT or random hexamer to bind with the tip of the RNA structure which is play a primer action during the synthesis of cDNA by reverse transcriptase. Reverse transcriptase is the enzyme that convert RNA to DNA strand.
After synthesis of cDNA, it should be analyzed by qPCR using cDNA as a template. qPCR is the method that detect the quantity by measuring probe intensity which is combined with primer. When it is reached to certain level, then it caculate back with cycle number.
5. Relationship between Transcriptome and Proteome.
6. What is a UTR?
7. What is ncRNA ?
8. What is poly A ?
What to do:
1. Apply Biology learning procedure
Reference
http://www.biomedcentral.com/1471-2164/13/473
https://www.youtube.com/watch?v=UYJfM2-Y7y8 (Youtube by Illumina Gary Schroth)
