Difference between revisions of "Talk:2015 Group 2 Project"

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--[[User:Z3459592|Z3459592]] ([[User talk:Z3459592|talk]]) 14:00, 11 May 2015 (EST) Is that graph better? / is my drawn picture okay? i just did a quick job considering peer review is soon
 
--[[User:Z3459592|Z3459592]] ([[User talk:Z3459592|talk]]) 14:00, 11 May 2015 (EST) Is that graph better? / is my drawn picture okay? i just did a quick job considering peer review is soon
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--[[User:Z3415735|Z3415735]] ([[User talk:Z3415735|talk]]) 17:25, 13 May 2015 (EST) the graph is great, and so is the drawing! its very clear and easy to understand
  
 
==References==
 
==References==
 
<references/>
 
<references/>

Revision as of 17:26, 13 May 2015

2015 Projects: Group 1 | Group 2 | Group 3 | Group 4 | Group 5 | Group 6 | Group 7

--Mark Hill (talk) 08:42, 21 May 2015 (EST) Your Group Project will now have peer feedback from the class, use this feedback to improve your project before submission.


Group Assessment Criteria

  1. The key points relating to the topic that your group allocated are clearly described.
  2. The choice of content, headings and sub-headings, diagrams, tables, graphs show a good understanding of the topic area.
  3. Content is correctly cited and referenced.
  4. The wiki has an element of teaching at a peer level using the student's own innovative diagrams, tables or figures and/or using interesting examples or explanations.
  5. Evidence of significant research relating to basic and applied sciences that goes beyond the formal teaching activities.
  6. Relates the topic and content of the Wiki entry to learning aims of cell biology.
  7. Clearly reflects on editing/feedback from group peers and articulates how the Wiki could be improved (or not) based on peer comments/feedback. Demonstrates an ability to review own work when criticised in an open edited wiki format. Reflects on what was learned from the process of editing a peer's wiki.
  8. Evaluates own performance and that of group peers to give a rounded summary of this wiki process in terms of group effort and achievement.
  9. The content of the wiki should demonstrate to the reader that your group has researched adequately on this topic and covered the key areas necessary to inform your peers in their learning.
  10. Develops and edits the wiki entries in accordance with the above guidelines.

Group 2: Z3466260 | Z3415735 | Z3459592 | Z5049401

Does anyone have any ideas for a topic?

--Z3466260 (talk) 18:45, 24 March 2015 (EST) hi guys, hope everyone is ready for this assignment :) just wondering, did we have any preferences as to what part of the ECM we will be doing our assignment on? maybe we can do something like...communication of cells? im not sure what Mark is looking for :P]

--Z3459592 (talk) 14:23, 25 March 2015 (EST) Im not sure if we can do communication of cells although it would be good. From what i've read only other topics i can think of are


- cell migration

- formation of the ECM

- Why is the ECM essential for healing


Only problem with these is im not sure if there would be enough information for this assignment. Any other suggestions?

--Z5049401 (talk) 16:43, 25 March 2015 (EST) In lecture he mentioned the topic of collagen, I wonder if the topic of elastin would be too broad or too popular?

--Z3466260 (talk) 20:47, 25 March 2015 (EST)oh, im really really interested in the "why ECM is essential for healing" ! that sounds like an awesome topic to do! does anyone else agree, or can suggest any other? im keen with anything really :)

--Z5049401 (talk) 13:12, 26 March 2015 (EST)That topic sounds good to me.

--Z3466260 (talk) 14:35, 26 March 2015 (EST)cool, how do we let mark know then? and see you guys in the lab :P

--Z5049401 (talk) 17:44, 26 March 2015 (EST)What about integrins?

--Z3466260 (talk) 17:23, 27 March 2015 (EST)hey guys, ive encountered a pretty big problem in terms of disease for integrins, there arent any diseases that are directly related to it, or any diseases caused by a loss of function between integrins and the ECM, i need a new topic asap to research....

--Z3459592 (talk) 10:02, 29 March 2015 (EST) hmmm maybe synthesis? im thinking we are going to need a whole new topic all together since it is going to be hard to link it to the ECM

--Z3466260 (talk) 13:13, 29 March 2015 (EST)well 1, people aren't really checking this as often as I am at least lol...and even if we change topic we can't let them know efficiently enough. I could try synthesis..ill let you know

--Z5049401 (talk) 14:20, 30 March 2015 (EST)hey, I've found a couple of articles that talk about how integrins are a contributing factor to epidermolysis bullosa in humans and mice, http://www.ncbi.nlm.nih.gov/pubmed/8673141

--Z3466260 (talk) 11:20, 1 April 2015 (EST) Hey guys just an update for you - unless I find definitive info on diseases related to integrins, I'll be submitting the lab assessment as an intro - so I'll be doing general research and also connecting the function of integrins with the ECM :) hope thats okay - though a warning is that we may need to change topics depending on if I can find something to do...its hardly fair if i just do an intro, so we'll discuss this tomorrow in the lab :)

--Z3459592 (talk) 17:59, 1 April 2015 (EST) sounds like a plan, this article seems decent for structure of integrins from what i've read skimming through it <pubmed>10961914 </pubmed>

--Z5049401 (talk) 14:16, 2 April 2015 (EST)

Integrin traffic – the Update

A5B1&a2B1 Integrin Trafficking.jpg

This article [1]discusses the complex topic of integrin trafficking and the important role it plays in the endocytic and exocytic maintenance and recycling of integrin-ECM adhesions that anchor the ECM to the plasma membrane. It also identifies the role that focal adhesions play in maintaining connections to the ECM. The role that cholesterol plays in regulating these focal adhesions is also discussed.


Static stretch affects neural stem cell differentiation in an extracellular matrix-dependent manner

This article[2] tackles the role that integrin-laminin interactions play in the ECM and how external mechanotransduction influences the fate of stem cell differentiation. It also discusses the role that integrin play as mechanosensors for the cell, and how static stretch plays a influential role in the differentiation of stem cells. The paper concludes with stating that further research into the role that laminin integrin and laminin serve as a mechanosensor.


Vascular Smooth Muscle Cell Stiffness and Adhesion to Collagen I Modified by Vasoactive Agonists

This article[3] discusses how integrins, specifically collagen binding integrins, play a key role in the contraction of vascular smooth muscle cells. Furthermore, the researchers hypothesize that integrin-collagen adhesion is regulated by the initiation of contraction within vascular smooth muscle cells. The paper’s findings suggest that it is the integrin adhesion sites that provide sound stability for the contraction of vascular cells.


Tumor Angiogenesis in the Absence of Fibronectin or Its Cognate Integrin Receptors

This article[4]discusses the possible role that integrin and fibroconectin binding to the ECM could contribute to cell growth, and cancer growth specifically. The researchers studied the critical roles that integrin and their association with ECM fibronectin proteins play in mouse embryo development. The researchers concluded that integrin interactions are completely necessary for tumor angiogenesis in mice.

  1. <pubmed>25663697</pubmed>
  2. <pubmed>25686615</pubmed>
  3. <pubmed>25745858</pubmed>
  4. <pubmed>25807551</pubmed>

--Z3466260 (talk) 12:35, 3 April 2015 (EST)nice work :) i found something to do with integrins and their interactions with the ECM to determine the movements of cancer :D sound good? Integrins and cancer: regulators of cancer stemness, metastasis, and drug resistance.[1]

--Z3466260 (talk) 14:52, 3 April 2015 (EST)====Role of Integrins in Disease: Case Study====

Integrins and cancer: regulators of cancer stemness, metastasis, and drug resistance (Review) [2]

This article shows the interactions between the integrins on cell surfaces with the environment - the extracellular matrix and their role in cancer and their metastasis. Integrins have multiple types of receptors derived from various combinations of their alpha and beta units, and tumour initiating cells present integrins like alpha 6, beta 1 and 3 on their cells, which are usually only present on stem cells. This means that they can self regulate proliferation and even differentiation. However different integrins being expressed on the cancer cells also allow them to survive in areas which are usually out of bounds, i.e. outside of the ECM, and this provides some understanding as to how cancer cells survive and proliferate during dissemination in the blood and metastasis. Integrins assist in tumour progression and drug resistance through their interaction with the ECM, where the ECM can regulate cell sensitivity to therapies.

Variety in the tumor microenvironment: integrin splicing regulates stemness [3]

This article focuses on the findings of expression in integrin subunits α6B and α6A and its relationship with the development of triple negative breast cancer. It is implied that ESRP1 (epithelial splicing regulatory protein) levels affect the expression of integrin α6B, which possibly promotes anchorage independent growth of tumours, resulting in metastases. The important of integrin expression is reinforced in this article, and current research targets the genes that make TICs or the general population express TIC like features.

Tissue mechanics modulate microRNA-dependent PTEN expression to regulate malignant progression. [4]

MiRNA affects integrin dependent adhesion, and the stiffness of the ECM subsequently affects the levels of mature MiRNA in a cell. In particular, it is discussed the MiRNAs play an essential role in tumour mechanics, where integrins are the facilitators of change in expression. Specifically in mouse breast cancer, we see that miR-18a regulates the maligancy of breast cancer by targetting the tumour suppressor PTEN. The effect of the ECM in regards to the metastatic potential of a tumour can be seen to interact with the actions of integrins on cancer cells.

Integrin activation controls metastasis in human breast cancer. [5]

It is seen in breast cancer cells that integrins can bind to platelets in the bloodstream, therefore alluding to the possibility of metastasis. The activated αvβ3 integrin allows for breast cancer cells to do so, and therefore the expression of this integrin on cancer cells indicate the potential for metastasis. It is not however a definitive factor for metastasis, but has an essential role in cancer cells metastasising through blood dissemination.

ECM tissue stiffness affecting MiRNA and malignancy.jpg

Structure of Integrins

<pubmed>25606594</pubmed> This article discusses the influence of Integrins in the development of mammary tissue, and particular, its role in the co-functioning with the ECM.


<pubmed>25837254</pubmed> Integrins are involved in the identification of RGD motifs, which are essential for ECM function. The article discusses the clincal relevance of this in relation to Helicobacter Pylori infection in the stomach.


<pubmed>25754646</pubmed> This article discusses how Talin (an intracellular protein) is an important factor in the linkage of Integrins and ECM to the actin cytoskeleton.


<pubmed>25368556</pubmed> Discussion of how Integrins (and other proteins) interact with ECM to influence synaptic plasticity in neurons.


--Z3459592 (talk) 12:46, 16 April 2015 (EST)

The Role of integrins in the trabecular meshwork

This paper[6] is about the role of integrins and how they can control the function of the trabecular meshwork. Integrins are known to promote adhesion to the ECM however they are not just adhesion receptors they act as conduits to convey information about the ECM. This signalling regulates many processes of the trabecular meshwork such as growth factor and cell death. There are many different types of integrins in the trabecular meshwork, and this paper found that they are likely to have unique and specialised functions.


Molecular Biology of the Cell. 4th edition.

This book [7] talks in general about what integrins are, structure, signalling and how they interact with the cytoskeleton.


RGD and other recognition sequences for integrins (review)

This review [8] looks at how the discovery RGD by ruoslahti has lead to a large number of pharmaceutical applications explaining how it binds and the importance of cell adhesion.


The emergence of integrins: a personal and historical perspective

This article [9] discusses what lead to the discovery of intergrins. Serveral investigations help lead to its discovery including; the investigation of fibronectin structure, monocolonal antibodies that had been raised against chicken myoblasts. The investigation of the fibronectn lead to a small fragment of fibronectin that promotes cell adhesion which is RGDS. The monocolonal antibodies lead to CSAT and JG22 being discovered which interfered with myoblast adhering to the matrix. From this Hynes deduced that the CSAT and JG22 antigen was the molecule which links the myoblast to the matrix.


http://sciencewatch.com/nobel/predictions/cell-adhesion This article is on the history of integrins. It states that Richard Hynes and his group discovered and named the protein 'intergrin' which connected fibronectin to actin in the cell wall. While Ruoslahti identified RGD peptide (a small fragment containing a sequence of 3 amino acids) which is a vital recognition sequence in the integrin family. Both are accredited for its discovery.


intergrins (review)

This review [10] which provides the basic facts about integrins hence why I dot pointed for future reference when we do the actual page :)

- cell adhesion receptors

- The name integrin was given to indicate the importance of these receptors for maintaining the integrity of the ECM.

- RGDS peptides enabled us to see that functional receptors of intergrins are heterodimers

- composed of alpha and beta subunits which are non-colvalently associated

- grouped based on ligand binding properties

- alpha subunit determines which ligand it binds

- alphaI domain - inserted domain ~200 amino acids

- Beta subunit connects to cytoskeleton

- integrins can exist in a compact bent conformation

- links ECM and cytoskeleton, mostly actin cytoskeleton

- by-directional signaling receptors

--Z3459592 (talk) 13:34, 16 April 2015 (EST)

Integrin structure.png

[11]

This picture shows the structure of an integrin on both sides

--Z3459592 (talk) 11:21, 22 April 2015 (EST) we need to start doing work for this assignment guys, pretty sure he is checking it either this week or next week and he can't really check it if nothing is there :/


--Z3459592 (talk) 12:29, 22 April 2015 (EST) does anyone know the coding of how to manually enter the reference? one of my references is a book on pubmed and the pmid doesn't work

--Z5049401 (talk) 17:23, 22 April 2015 (EST) We might be able to use this is our last section on cancer. https://youtu.be/fwhpfv2JUCM

--Z3415735 (talk) 17:52, 23 April 2015 (EST) Hey guys, sorry I could not make it to the lab today. I did go to my morning classes, but I've been sick the past few days and had to go home early today. I uploaded work on the structure of Integrins last week before our last lab. I will definitely be there next week, and I'll keep updating my section of the wiki page over the weekend.

--Z3459592 (talk) 18:06, 23 April 2015 (EST)

what mark said in lab 6

- something interesting at top of page

- balance between text/visuals (videos,pictures,tables)

- when you use references on project page - it must refer to the research article, you can use review just ensure you say "in the review" but the original research article is preferable

- graphical rep. of number of research on the topic comparing years of how many

- timeline

- where research is going - read current research

- all text about a figure does not need to be on the page, he will go through all photos to make sure you have all the correct information

- request for reuse

- lots of pretty pictures

--Z3415735 (talk) 19:40, 26 April 2015 (EST) Here's a great article I found on Integrin structure and function. I'll have a read of it tomorrow and will see if we can use any of the info on it for our page http://www.springer.com/cda/content/document/cda_downloaddocument/9781441908131-c1.pdf?SGWID=0-0-45-867678-p173905705

--Z3466260 (talk) 11:30, 28 April 2015 (EST)well, we really got to get a wriggle on guys. I hope by next lab (please check this page every day) that we get some substantial work done - im going to be spending my day doing this, so i would REALLY like to see more in the function and structure area >< especially the one with just a picture...

--Z3459592 (talk) 20:14, 28 April 2015 (EST) does anyone know how to use the same reference without adding an extra refence down the bottom because atm 3 and 4 are the same

--Z3459592 (talk) 13:08, 29 April 2015 (EST) guys if you find any major events which has happened for integrins such as integrins discovered, structure understood post it under timeline and i can make a picture for it :)

--Z3459592 (talk) 14:01, 29 April 2015 (EST) does anyone have any ideas why the structure subheading and its picture is going underneath the two graphs i just posted? i tried to increase the gap between but its still not happy :( thoughts?

--Z3459592 (talk) 18:00, 29 April 2015 (EST) he said he wanted us to use a table in lab 6 im pretty sure so maybe we should put a glossary in of terms at the end?

--Z3415735 (talk) 22:16, 29 April 2015 (EST) Hey guys, I've updated my section (Structure). I've put the image on the right in a thumbnail which makes the section a bit clearer and easier to navigate. I've also added some basic textual information on the structure and interactions of Integrin. I still need to add the reference for this information (http://www.ncbi.nlm.nih.gov/books/NBK6259/#A64068). I plan on going into more detail for structure, probably adding another 1 or 2 images to show the exact structure. The structure is quite complex though, I'm not entirely sure how much detail I should go into, because to be honest, we could do the whole project on structure alone! In addition I'll talk briefly about the discovery of Integrins and what techniques were used i.e. Xray crystallography

--Z3466260 (talk) 16:35, 30 April 2015 (EST) how is it synthesised? how is it regulated?

--Z3415735 (talk) 16:41, 30 April 2015 (EST) article on structure of integrins http://www.bloodjournal.org/content/102/4/1155.long?sso-checked=true

--Z3466260 (talk) 17:12, 30 April 2015 (EST) tools they use in the research

--Z3466260 (talk) 17:36, 30 April 2015 (EST) so what i mentioned that should be discussed

- how are integrins produced? dna, ER, Golgi, how is the expression of some integrins controlled? do all cells express all integrins?...what functional differences?

- how integrins get into the membrane

- integrin - actin interaction

- integrin RGDS ? whats that

- functionally important to put all these together :D

--Z3415735 (talk) 17:54, 30 April 2015 (EST) use an integrin as an example and dissect it. talk about each component

--Z3466260 (talk) 15:18, 3 May 2015 (EST)I was wondering if i should integrate e-cadherin dysfunctionalities - basically e cadherin does the cell-cell adhesions, but it interacts with integrin-ECM adhesions to induce tumour like properties...too much?

--Z3466260 (talk) 14:35, 5 May 2015 (EST)hey guys, i know we're all busy with uni, but i'd REALLY, like to see some work getting done. this page hasnt changed since last lab, nothing but what ive added to my research

--Z3415735 (talk) 18:51, 6 May 2015 (EST) yep, I will update some of our page now for structure. I found this article, which seems to explain the role of specific integrin alpha4beta1 in fibronectin assembly and cell motility. I think this was one of the things Dr. Hill was talking to us about last lab. http://jcs.biologists.org/content/108/2/821.long I'll see what I can add to my structure section from the article, but it could also work in the function section

--Z3415735 (talk) 19:20, 6 May 2015 (EST) ok guys, I updated my section (structure). I've split the heading into 3 sub headings (for now) and will continue to add more information during the week and weekend. I also added a 3rd image on structure which shows the exact biochemical structure of Integrin. What i'll probably work on next is to use a specific Integrin as an example, and go through its structure in detail, as each Integrin has its own unique structure apart from the general structure that all Integrins share

--Z3415735 (talk) 16:45, 7 May 2015 (EST) http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1302484/pdf/11751331.pdf i'm going to be using alpha4beta1 integrin as my example for structural analysis http://journal.frontiersin.org/article/10.3389/fimmu.2012.00242/full

--Z3459592 (talk) 14:00, 11 May 2015 (EST) Is that graph better? / is my drawn picture okay? i just did a quick job considering peer review is soon

--Z3415735 (talk) 17:25, 13 May 2015 (EST) the graph is great, and so is the drawing! its very clear and easy to understand

References

  1. <pubmed>25572304</pubmed>
  2. <pubmed>25572304</pubmed>
  3. <pubmed>24792112</pubmed>
  4. <pubmed>24633304</pubmed>
  5. <pubmed>11172040</pubmed>
  6. <pubmed>3991962</pubmed>
  7. <pubmed>Alberts B, Johnson A, Lewis J, et al. New York: Garland Science; 2002.</pubmed>
  8. <pubmed>8970741</pubmed>
  9. <pubmed>15533754</pubmed>
  10. <pubmed>2784866</pubmed>
  11. <pubmed>3561355</pubmed>