Difference between revisions of "GiJeong Kim"
From Biolecture.org
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| − | <p> <b> | + | <p> <b>TRANSCRIPTOMICS</b></p> |
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<li>what is transcriptomics? transcript + omics. it is study of all set of RNAs including mRNA, rRNA, tRNA, so on. </li> | <li>what is transcriptomics? transcript + omics. it is study of all set of RNAs including mRNA, rRNA, tRNA, so on. </li> | ||
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<li>how to measure mRNA expression?</li> | <li>how to measure mRNA expression?</li> | ||
<li>relationship between trasncriptome & proteome. to cell function, a set of proteins are needed. Due to the fact that mRNA translates proteins it is easy to consider that linear correlation bewteen transcriptome and proteome, low correlation sometimes come up with the post translational modification[3]. but still transcriptomic is the middle step of understanding bewteen genetic code and the functioning molecule.</li> | <li>relationship between trasncriptome & proteome. to cell function, a set of proteins are needed. Due to the fact that mRNA translates proteins it is easy to consider that linear correlation bewteen transcriptome and proteome, low correlation sometimes come up with the post translational modification[3]. but still transcriptomic is the middle step of understanding bewteen genetic code and the functioning molecule.</li> | ||
| − | <li>what is UTR? UTR is abbreviation for untranslated region. it is the portion of mRNA which is not translated. there are two UTR - one is on the 5' end(5'-UTR), another on the 3' end(3'-UTR). those UTRs are related to modification and lifespan of mRNA. for example, polyadenylation is an addition of 200 ~ 300 adenine to 3' end of mRNA making poly A tail. this process depends on AATAAA sequence on the 3'-UTR.</li> | + | <li>what is UTR[4]? UTR is abbreviation for untranslated region. it is the portion of mRNA which is not translated. there are two UTR - one is on the 5' end(5'-UTR), another on the 3' end(3'-UTR). those UTRs are related to modification and lifespan of mRNA. for example, polyadenylation is an addition of 200 ~ 300 adenine to 3' end of mRNA making poly A tail. this process depends on AATAAA sequence on the 3'-UTR.</li> |
<li>what is ncRNA?</li> | <li>what is ncRNA?</li> | ||
| − | <li>what is poly A? poly A is the long A sequence on the 3' end of mRNA. it is important for mRNA to fully function as genetic code for protein synthesis. there are 3 roles of poly A tail. 1) providing stability to mRNA, 2)recognizing mRNA for exporting from the nucleus or ribosome binding. 3)involving posttranscriptional modification by interacting with PABP(poly A binding protein), maskin, RISC, and so on.</li> | + | <li>what is poly A[4]? poly A is the long A sequence on the 3' end of mRNA. it is important for mRNA to fully function as genetic code for protein synthesis. there are 3 roles of poly A tail. 1) providing stability to mRNA, 2)recognizing mRNA for exporting from the nucleus or ribosome binding. 3)involving posttranscriptional modification by interacting with PABP(poly A binding protein), maskin, RISC, and so on.</li> |
</ol> | </ol> | ||
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<p>[2] http://www.nature.com/scitable/topicpage/transcriptome-connecting-the-genome-to-gene-function-605#</p> | <p>[2] http://www.nature.com/scitable/topicpage/transcriptome-connecting-the-genome-to-gene-function-605#</p> | ||
<p>[3] http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3637682/</p> | <p>[3] http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3637682/</p> | ||
| − | <p>[4] | + | <p>[4] Gilbert, Scott F. <i>Developmental Biology</i>. Sunderland, MA: Sinauer Associates, 2010. Print.</p> |
<p> </p> | <p> </p> | ||
Revision as of 17:58, 19 May 2015
BIOPROGRAMMING
- what is programming? programming is a process of making series of instuction enabling computer to do particular task. program gives logical flow of instructions to computer and also provides ease to handle and readability to user. programming is progressive work, it needs consistant reforming, editing, and correction. it is the reason why program should be user-friendly.
- How to make a compiler? compiler translates programming languages into executive instructions for computer. for making compiler, compiler must involves functions such as interpreting programming languages, matching interprted programming languages with set of instructions what computer could be acceptable.
- what is a language? computer is basically operated according to arrangement of 1 and 0. so, it is hard for programmer to impart instruction(programm) directly. programming languages mediate languages of 0 and 1(low-level language), and real human language(high-level language) to make easy to programming. there are lots of languages having different levels according to its purpose and property, such as C, java, R, python, so on.
- what is a computer? computer is programmable machine. It consists of hardware and software. hardwares are physical components of computer, which process instructions, receive and reperesent informations, and store what it did. software is program. it falls into two types - operating system and application software. Operating system controls hardware of computers to optimize its functionality. application software is so called program, making computer "work".
- what is a grammer? grammer is rule making order of sentence of language. it indicates the position of key word, punctuation of sentence. programming languages also has grammer, which is especially called syntax.
-in the class
- ppt from DoYeon Lim and YeonSoo Jun - programmable C.elegans. there was debate about the C.elegans is living thing. some poeple rejects that the C.elegans can't reproduce or evolution, it turns out that it is also programmable. in my opinion, it is kind of life. although it is confined virtual dimension, it metabolizes, moves, responses to stimuli, reproduces, evolves, and makes decision in the universe for "virtual" C.elegans. Who knows? it is same as human being. we also confined dimension, and "coded" by physical rules. it may be helpful to answer "What is real?". Reality is the program. it repeats same procedure under the same input - reproducibility. it is amenable and flexable under the determined algorithms still one cannot reform that algorith itself. living things on earth seems to be programmed with natural selection. According to its environment, living things regulates its gene expression(biological switch) by turning on and off. Such decision making is the set of insturction engraved over billion years and enables living things to be "real" thing
What is lecture?
- what is lecture? lecture is a talk or speech givne to a group to teach them about a particular subject[1].
- from the ancient to the information-orieted age, teaching methods changes and are invented. Among them, lecture provides the best way to transfer the knowledge and information in terms of personal contact. according to the definition of lecture, it is essential for lecturer and student to be in same place and time. Book, for example, is widely used material for storage knowledge, however, it is poor at teaching alone. because it requires for reader to stand on the author's position. lots of factors printed with knowledge, such as nuance, traditional background, and even historical background of author oneself. another poor example for teaching may be "online lecture". it has no communication between lecturer and student in realtime. it is possible to ask e-mail to the lecturer, however, it deprives the opportunity to discuss fresh and thoughtful question in prompt from both lecturer and student. Lecture resolves such problems by placing all members together. such arrangement could enable student to reach the basis of knowledge and penetrate the center of understanding - giving insight.
GENOMICS
TRANSCRIPTOMICS
- what is transcriptomics? transcript + omics. it is study of all set of RNAs including mRNA, rRNA, tRNA, so on.
- relationship bewteen genomics. genome is the basis for the transcriptome. although only small portion of gene is transcribed (less than 5%[2]), it is useful to figure out the pattern of gene expression. especially multicellular organism, there are different type of cells having same genome, which is called genomic equivalence. transcription of genes is the first stage of gene expression, transcriptomic is the valuable source for understanding the gene expression of genome.
- what is mRNA? mRNA is the molecule carrying genetic information for protein synthesis. it is trasncripted from nucleus, exported to cytosol, and recognized by ribosome with its unique modification moiety such as 5'-cap and poly A tail.
- how to measure mRNA expression?
- relationship between trasncriptome & proteome. to cell function, a set of proteins are needed. Due to the fact that mRNA translates proteins it is easy to consider that linear correlation bewteen transcriptome and proteome, low correlation sometimes come up with the post translational modification[3]. but still transcriptomic is the middle step of understanding bewteen genetic code and the functioning molecule.
- what is UTR[4]? UTR is abbreviation for untranslated region. it is the portion of mRNA which is not translated. there are two UTR - one is on the 5' end(5'-UTR), another on the 3' end(3'-UTR). those UTRs are related to modification and lifespan of mRNA. for example, polyadenylation is an addition of 200 ~ 300 adenine to 3' end of mRNA making poly A tail. this process depends on AATAAA sequence on the 3'-UTR.
- what is ncRNA?
- what is poly A[4]? poly A is the long A sequence on the 3' end of mRNA. it is important for mRNA to fully function as genetic code for protein synthesis. there are 3 roles of poly A tail. 1) providing stability to mRNA, 2)recognizing mRNA for exporting from the nucleus or ribosome binding. 3)involving posttranscriptional modification by interacting with PABP(poly A binding protein), maskin, RISC, and so on.
REFERENCES
[1] http://www.merriam-webster.com/dictionary/lecture
[2] http://www.nature.com/scitable/topicpage/transcriptome-connecting-the-genome-to-gene-function-605#
[3] http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3637682/
[4] Gilbert, Scott F. Developmental Biology. Sunderland, MA: Sinauer Associates, 2010. Print.
