https://padlet.com/rmjones10/98v61hkmht7tlxio en-us 2021-02-08 23:48:05 UTC 2021-04-21 02:55:14 UTC hello@padlet.com https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1392227663 You mention that ion torrent technology has some limitations and sequencing errors, and I'm curious whether the researchers in this study encountered such errors (and if so, how did they address them?). How does this limitation affect the accuracy of next-generation sequencing (NGS) in regards to Parkinson's? 
-Alli Knowles]]> 2021-04-07 16:17:52 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1392227663 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1392302792 I found your original figure appropriately concise and very easy to follow. It was helpful in understanding the process used by the researchers to determine the concentration and overall phenotype of the lipid and diterpene content. Your detailed caption allows it to stand by itself, so well done.
-Alli Knowles]]> 2021-04-07 16:33:03 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1392302792 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1392352091 I think a little more detail about the methodologies would have created a more comprehensive summary of the study. One of the methods used by the researchers to analyze the influences of different habitats on Betula ermanii was amiplified fragment length polymorphism (AFLP). What exactly is this type of test? What sort of techniques does it employ to identify genetic diversity among the trees? Are there any downsides/limitations to this method that the researchers encountered?
-Alli Knowles]]> 2021-04-07 16:43:00 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1392352091 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1397593167 I think it is really interesting how next gen sequencing can be used to study and better understand PD. Was there a specific genome that they used a a reference genome for the GWAS?
- Maura Lake]]> 2021-04-08 20:09:30 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1397593167 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1397604963 This paper seems really interesting! I though it was really cool how they had figured out the OI is due to mutations on genes that encode for collagen. Also nice job on your original figure! I think it looks super professional and is helpful fro understanding the genetic mutations relating to OI. I also thought it was cool how this related to how we are talking about lethal mutations in class. 
- Maura Lake]]> 2021-04-08 20:13:32 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1397604963 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1402007387 I thought this was a great look at what genes controlling DNA repair affect different cancers, and I particularly enjoyed how in Figure 2 there was a look at what DNA repair pathways were mutated and how much that affects cancers. Did they, or has someone else, look into why some mechanisms (like translesion synthesis) seem to have less of an effect on cancers than others? 
-Georgia Karwhite]]> 2021-04-10 04:21:07 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1402007387 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1402042195 I think that article sounds absolutely fascinating! Were they able to determine this study if the miR-621 was just a predictor of how patients responded to PTX/CBP treatment or could they confirm that it was actually interacting with the drugs (either directly or indirectly) and is the cause of the different responses?
-Georgia Karwhite]]> 2021-04-10 05:17:47 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1402042195 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1402054755 I think this is a fascinating use of genetic analysis! I am wondering if the article raised any environmental concerns over the possibility of genetically modifying coffee trees, if the intent is to modify the proteins, sugars, and lipids of the beans? In other words, would these trees have any problems surviving in the environments?
-Georgia Karwhite]]> 2021-04-10 05:39:08 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1402054755 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1402067685 This blog post was great! I appreciated that everything/all parts were labeled where as the other blogs I saw were not. Each section was thorough and well thought out as well as well explained. I'd be fascinated to see where this research goes in the future! - Max Merrill]]> 2021-04-10 06:02:02 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1402067685 tlcranford123 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1403087876 I love the organization you put into your blog post! The original figure is very professional, and your writing is clear and understandable! Did the article talk about any possibilities for future studies? ]]> 2021-04-10 20:06:00 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1403087876 tlcranford123 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1403094934 I'm curious as to the significance of the genetic makeups of the alpine and subalpine trees and how that came about and how it benefits the trees. Additionally, are there any ethical issues with studying these trees? Maybe in regards to preserving that genetic diversity or even thinking about the animals in the area? I'd love to learn more about the methods, which would then illustrate whether there are ethical problems with the study. ]]> 2021-04-10 20:12:23 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1403094934 tlcranford123 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1403103274 This blog post is amazing! Very understandable, and you take great care in defining terms (like pCR vs. PCR! Love it!). Your original figure is very well-drawn and easy to understand, even more so after reading the caption for it. As someone who has been affected by breast cancer, I'm excited to see where this research goes and what it produces!]]> 2021-04-10 20:19:43 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1403103274 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1410427924 I think your blog post was very well-organized and I thought your figure was a good way to display the information on the chromosomal level. I had some trouble following all the language and methodology, but I realize the researchers performed many tests on the genomic information and pathways. In the blog post you talk about how in the modeling that they used they found significant interactions with just a few of the cancers they studied. I was curious how the researchers distinguished "overall" vs "aggressive" cancers. What is the criteria for this and is this criteria similar through other cancer studies?- Alli Reviglio]]> 2021-04-13 05:01:32 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1410427924 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1410479820 I think your blog post was organized really well and the original figure did a good job of explaining the study. I would be curious to know if expression of other genes (possibly similar to miR21) are also capable of increasing sensitivity to various chemotherapeutic agents for different cancers.- Alli Reviglio]]> 2021-04-13 05:28:08 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1410479820 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414105117 I enjoyed reading this blogpost, especially since it is on cancer technology development in recent years. The figure was very lear to understand and very well drawn. I would love to see a figure representing the mechanism of miR-21. I think it would be help to mention earlier in the blogpost the definition of PCR since I assumed it was polymerase chain reaction. It would also be interesting to see the progress since this was in 2016.
-Tina Nguyen

]]> 2021-04-13 21:52:03 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414105117 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414111655 I really enjoyed reading your blog post. I especially loved the figure, it was very easy to to understand the processes and it had good illustrations accompanying it. Were the researchers able to identify that that the miR-621 is actually an indicator of sensitivity or is it possible that it is a by-product of the PTX/CBP regimen? 
-Courtney Cox]]> 2021-04-13 21:55:29 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414111655 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414126219 Toward the beginning of the article, it was mentioned that Osteogenesis imperfecta is caused from mutations and that not all of the genes that are mutated that cause OI are yet discovered. Is mutation of just 1 of the genes lead to the disease or all of them need to be mutated?
-Tina Nguyen]]> 2021-04-13 22:03:16 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414126219 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414143834 Like Georgia said, this was a very interesting use of genetic testing. This article also talks about the ethical implications of "having the best coffee" but I think it would be fine since eventually many other places would be using it if it is truly better and would not totally eradicate other forms of coffee. This study aims to look at cafestol and kahweol to determine the quality of coffee but what exactly are they looking at? 
-Tina Nguyen

]]> 2021-04-13 22:12:06 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414143834 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414144645 This was a very interesting topic, I never thought about the genetic engineering of coffee beans for better tastes. I am wondering more of how they identify "superior" tastes in coffee and how coffee turns out better?
-Courtney Cox]]> 2021-04-13 22:12:32 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414144645 https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414158187 I really liked Figure 1 illustrating the steps to identify the sequences. I am also shocked that there is a method with a 100% accuracy rate. I was wondering how this study suggests that PD stems from genetic anomalies, did the researchers include any information on why PD isn't environmentally caused?
-Courtney Cox]]> 2021-04-13 22:18:58 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414158187 ttanatrah https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414234841 Wow what an interesting topic. I always find it really cool when newish research like this is being undertaken especially when it comes to something as important as breast-cancer. One question that I had was if the researchers were able to identify miR-621 as an indicator for breast cancer or if it is can predict how sensitive an individual might be to breast cancer.-Tahseen Tanatrah]]> 2021-04-13 23:02:50 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414234841 ttanatrah https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414350303 This has to be hands down the best GWAS ever conducted in history! I find the technique lipid content and concentration analysis to an interesting way to measure results as it allows the research to be applied to the comparison of deferent strains of coffee to find the "best" coffee-Tahseen Tanatrah]]> 2021-04-14 00:00:34 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414350303 ttanatrah https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414377093 I wonder if you guys found anything on how next gen sequencing can be adapted/fixed to better study and understand PD, especially to eliminate things like sequence errors? -Tahseen Tanatrah]]> 2021-04-14 00:12:56 UTC https://padlet.com/rmjones10/98v61hkmht7tlxio/wish/1414377093