User:Z5076777

From CellBiology

Welcome to Cell Biology 2017!

Lab 1 Assessment

Lab 2 Assessment

  1. Identify a chemical SDS and the risks and hazards of that chemical in text. Add a link to the original SDS
  2. Select 4 reference papers papers related to your selected group project topic sub-section. Read the research papers and write a brief description of their findings and relevance to the selected topic sub-section. The reference along with your description should then be pasted on both your group discussion page and your own personal page.

Lab 3 Assessment - Endo/Exo worksheet questions.

Lab 4 Assessment

  1. Identify a cytoskeletal antibody.
  2. Identify the species deriving the antibody.
  3. Identify the working concentration for the antibody.
  4. Identify a secondary antibody that could be used with this antibody.
  5. Identify a paper that has used this antibody.

This assessment will be due by the next lab (Lab 5).

Lab 7 Assessment

The following peer assessment exercise should be completed before next lab (Lab 8 - 2 May) as your individual assessment for this week (lab missed due to public holiday).

Your answer should be pasted in 2 places

  1. onto each project discussion page (Note you should add anonymously to the discussion page)
  2. your own individual student page for my assessment.

Each individual will provide a brief assessment of the other groups projects. This should take the form of a brief critical (balanced) assessment identifying both the positive (good) and negative (bad) aspects of the project page as it currently exists online.

You may if you choose, use the final project assessment criteria as a guide. Though you are also welcome to use your own criteria.

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.

Practical Attendance

Z5076777 (talk) 16:05, 7 March 2017 (AEDT)

Z5076777 (talk) 15:39, 14 March 2017 (AEDT)

Z5076777 (talk) 15:40, 28 March 2017 (AEDT)

Z5076777 (talk) 16:39, 4 April 2017 (AEST)

Z5076777 (talk) 15:08, 11 April 2017 (AEST)

Z5076777 (talk) 14:59, 2 May 2017 (AEST)

Z5076777 (talk) 16:19, 16 May 2017 (AEST)

Z5076777 (talk) 15:06, 23 May 2017 (AEST)

Individual Assessments

Lab 1

Budding of plasma membrane.png

Plasma membrane of cells in low pH conditions labeled by tannic acid

Ben-Dov N, Korenstein R (2012) Enhancement of Cell Membrane Invaginations, Vesiculation and Uptake of Macromolecules by Protonation of the Cell Surface. PLoS ONE 7(4): e35204. doi:10.1371/journal.pone.0035204

© 2012 Ben-Dov, Korenstein. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.


Mark Hill (talk) 14:56, 28 March 2017 (AEDT) Good image upload, all required associated information provided. You can just use the PLOS reference, but always good to fine the PMID (PMID 22558127) so that it works with the referencing extension. You only needed to add the image a title, the reference (as below) and a brief description here to your page , the additional information goes with the image file. (5/5)


Plasma membrane of cells in low pH conditions labeled by tannic acid[1]

Lab 2

Part 1:

Methanol

Hazards:

  • Flame: Flammable
  • Skull and crossbones: Acute toxicity
  • Health Hazard: Severe Health Hazards

http://www.sigmaaldrich.com/catalog/product/sial/322415?lang=en&region=AU&cm_sp=Insite-_-trending_fixed-_-trending5-3

Part 2

  • Paper 1

Jeremy J Heit, Asa A Apelqvist, Xueying Gu, Monte M Winslow, Joel R Neilson, Gerald R Crabtree, Seung K Kim Calcineurin/NFAT signalling regulates pancreatic beta-cell growth and function. Nature: 2006, 443(7109);345-9 PubMed 16988714

This study analyses the mechanisms that control the responses of the beta cells; their ability to adapt to physiological changes. The study specifically delves into the effects of calcineurin inhibitors- used to treat diabetetic patients, highlighting the effects of calcineurin and activated T-cells (NFAT) signalling controlling islet responses. The study - utilising mice with a specific beta cell deletion of the regulatory subunit calcineurin b1 (Cnb1), finds a consequent age-dependent development of diabetes due to the resulting reduced beta-cell proliferation and insulin production. However with the expression of NFATc1 in the Cnb1 deficient cells, proliferation and insulin production increased. Hence calcineurin and NFAT are identified as regulatory factors within beta-cell function, thus providing relevant information on the signalling pathways that surrounding beta-cells.

  • Paper 2

Folli F, Okada T, Perego C, Gunton J, Liew CW, Akiyama M, et al. (2011) Altered Insulin Receptor Signalling and β-Cell Cycle Dynamics in Type 2 Diabetes Mellitus. PLoS ONE 6(11): e28050. doi:10.1371/journal.pone.002805

This paper explores insulin signalling of islet cells, utilising samples from humans with type 2 diabetes mellitus (T2DM). The paper analyses the effects throughout the signalling pathway that ultimately leads to reduction of beta-cell mass, revealing the altered expression of insulin receptors, insulin receptor substrate-2 and phosphorylated BAD within the T2DM cells. These findings were confirmed as defective signalling was seen to reverse through the re-expression of insulin receptors in the knock out cells, leading to increased cell cycle progression and proliferation; indicating a role of insulin signalling in beta-cell growth. These findings provide relevant information on both signalling pathways leading to the growth and development of the beta-cell.

  • Paper 3:

Curran AM, Ryan MF, Drummond E, Gibney ER, Gibney MJ, Roche HM, et al. (2016) Uncovering Factors Related to Pancreatic Beta-Cell Function. PLoS ONE 11(8): e0161350. doi:10.1371/journal.pone.0161350

This study explores abnormalities in beta-cell function and its contribution to the pathogenesis of type 2 diabetes. The paper finds correlations between waist and hip ratio as well as the RA index (ratio of resistin and adiponectin) to beta-cell function with regard to insulin secretion. Ultimately the study confirms the RA index as a potential biomarker of beta-cell function status; an identification tool for people at risk of developing type 2 diabetes, thus the article provides relevant information on abnormalities associated to beta cell function, as well as current research in finding preventative measures; allowing for early targeted lifestyle interventions for people at risk.

  • Paper 4

Lacy, P.E., 1967. The pancreatic beta cell: structure and function. New England Journal of Medicine, 276(4), pp.187-195.

This paper explores the functions and structure of the pancreatic beta-cell through the utilisation of electron microscopy and experimentation of beta-cells extracted from rat samples. The paper provides extensive detail on the cell structure, including the contents of the cell; the organelles, and detailed description of the cell’s surroundings; the contents of the islets of Langerhans and the capillary network associated. The paper provides analysis of the function of beta-cells; determining the effect of secretion of insulin from rat beta-cells that were administered glucose, glucagon, a high carbohydrate diet, anti-insulin serum and tolbutamide treatment. Functional information of the beta-cell is also provided within the paper through enzymatic activity study within the beta-cell; providing deeper knowledge into the insulin secretion stimulated by glucose level elevation within the blood travelling through the islets. Ultimately this paper provides relevant information on both the structure and function of the pancreatic beta-cell, presenting valuable experimental data and imaging to support the findings.


Mark Hill (talk) 19:20, 24 April 2017 (AEST) Good (7/10) your link should be to the SDS. For the SDS you should have detailed the hazard statements and could have also identified the Globally Harmonized System.

Hazard statement(s)

  • H225 Highly flammable liquid and vapour. Toxic if swallowed.

  • H301 Toxic in contact with skin.
  • 
H311 Toxic if inhaled.
  • H331 H370 Causes damage to organs.

The 4 papers are relevant, hopefully they can be used in the final group project. You should have used the pubmed referencing system for 3 of the references that would link back to the original paper, as shown in the lab referencing tutorial and shown below.

Franco Folli, Terumasa Okada, Carla Perego, Jenny Gunton, Chong Wee Liew, Masaru Akiyama, Anna D'Amico, Stefano La Rosa, Claudia Placidi, Roberto Lupi, Piero Marchetti, Giorgio Sesti, Marc Hellerstein, Lucia Perego, Rohit N Kulkarni Altered insulin receptor signalling and β-cell cycle dynamics in type 2 diabetes mellitus. PLoS ONE: 2011, 6(11);e28050 PubMed 22140505

Aoife M Curran, Miriam F Ryan, Elaine Drummond, Eileen R Gibney, Michael J Gibney, Helen M Roche, Lorraine Brennan Uncovering Factors Related to Pancreatic Beta-Cell Function. PLoS ONE: 2016, 11(8);e0161350 PubMed 27536890

P E Lacy The pancreatic beta cell. Structure and function. N. Engl. J. Med.: 1967, 276(4);187-95 PubMed 5333806


Lab 4

Antibody: Actin Monoclonal Antibody (ACTN05 (C4))

Host/Isotype: Mouse/IgG1, kappa

Working Concetration: 0.2mg/ml

Secondary antibody: Goat anti-Mouse IgG (H+L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor Plus 488

Paper Using Antibody: Sydney Webb Strickland, Scott Vande Pol The Human Papillomavirus 16 E7 Oncoprotein Attenuates AKT Signaling To Promote Internal Ribosome Entry Site-Dependent Translation and Expression of c-MYC. J. Virol.: 2016, 90(12);5611-21 PubMed 27030265


Mark Hill (talk) 20:43, 24 April 2017 (AEST) Good (4/5) the Working Concentration refers to the concentration the antibody should be diluted to for use, not the original (stock concentration. Your answer should have been: Immunocytochemistry (ICC) 1:10-1:200; Immunofluorescence (IF) 1:10-1:200; Immunohistochemistry (Paraffin) (IHC (P)) 1:50; Immunoprecipitation (IP) 2 ug; Western Blot (WB) 1:2500-1:10,000.

Lab 5

Lab assessment 5.PNG

Mark Hill (talk) 20:51, 24 April 2017 (AEST) This lab assessment will be marked by the guest presenter and the mark added here when I have received.

Lab 7

Peer Review

Group 1

By far your page definitely seems to be progressing very well compared to the other groups, which is great to see. So far the content seems to be very well researched and referenced correctly throughout. There are slight grammatical errors I’ve come across; however this is a first draft so perhaps ensure a thorough editing is done a few times between the members to ensure minor errors are caught. I found your sub-sections to thoroughly cover the topic, and was impressed by the mix of formatting that was used to display the information which other groups had not done, such as the use of tables to display signs and symptoms. Although it is an interesting and unique display of information, a suggestion could be to create collapsible tables for each disease, and incorporating pathogenesis and treatment into the table, this may help keep the page less cluttered. Also perhaps a history of the cell; for example major discoveries and first electron micrographs, might be another subsection to consider.

I found the images associated with the text to be informative and added to the content nicely. However, a suggestion for the images may be to insert the images as a thumbnail in order to be able to insert a caption to the project page; [[File:filename|thumbnail|caption]]; where it is italicised is where you would insert the image’s caption on to the page, instead of the text underneath the image as you’ve done for the “Signalling” image, or instead of the lack of caption done for the “Current Research” image. Another adjustment for the signalling image might be to directly refer to the image within the text; for example “...as seen in Figure 1.”

Overall I think your page is coming together nicely with a dimension that the other groups have not met; utilising tables, images and videos in a different way. Aside from a few minor adjustments and of course adding more content, images and filling out each of the sub-sections thoroughly, I feel your project is very well done so far.

Group 2

Your page seems to be on its way to being very informative; it’s nice to see each sub-section aside from one; “Current Research”, has begun with some introductory and preliminary information and research which shows a gradual progression. It’s also great to see the addition of images to support the written content. It would have been nice to see maybe a table for the history at this point, seeing as some research has already been done. However, otherwise the layout and subsections in the preliminary stages seems to be doing well.

Although it seems that the content is not in its final or draft stages, a suggestion would be to keep all the information on the project page referenced throughout. I noticed the introduction, history and development didn’t have any references despite having paragraphs of information. Also another suggestion might be to use thumbnails for your images in order to have captions on the project page, as was attempted for your image under “Signalling and Interaction” (coding: [[File:filename|thumbnail|caption]]; where it is italicised is where you would insert the image’s caption on to the page; for example [[File:filename|thumbnail|Signalling involved in the formation of the Pancreatic Ducts]] ).

Overall I can tell your page is still in its preliminary stages and compared to other projects there’s still much work ahead, however the subsections are a great start and perhaps looking at the project pages of the past few years might help in gaining a perspective of where your project page might aim to be and what other things you might like to add, such a comparative tables, a banner image and amount of references to be aiming toward. It does look like the beginning of a well covered project.

Group 4

Your page seems to have the most images up compared to the other groups, which is a great start since images are a useful learning tool to utilise on the project pages. The page also seems to have covered the topic well in the sub-sectioning, however, the page is definitely severely lacking in content and references when compared to other groups. It does seem a lot of preliminary research has been conducted however, in all sections other than history, references are not included. Although it is clear that the page is in its very early stages, improvements could be made through the addition of tables to present information, possibly could be used in the “Development of the pancreas” as well as expanding on the visual aids; explaining what the videos and images show to highlight their purpose on the page.

Overall I can see the page is off to a good start, however compared to the other pages, more effort might need to be placed into the gathering of content and providing more extensive research for each sub-section. Unlike the other groups I can appreciate the effort placed into the finding of useful visual aids, as well as the use of the thumbnail and captioning of “Figure 1” which all other groups did not do as thoroughly.


Good balanced feedback. 8/10

Tutorials

Tutorial 1

Student Image Template

Note - This image was originally uploaded as part of a student project and may contain inaccuracies in either description or acknowledgements. Please contact the site coordinator if the uploaded content does not meet the original copyright permission or requirements, for immediate removal.

Referencing

https://www.ncbi.nlm.nih.gov/pubmed

Pubmed

Search Plasma Membrane

  • No link: PMID: 28260162
  • Link: PMID 28260162

Marjut Niinivirta, Gunilla Enblad, Per-Henrik Edqvist, Fredrik Pontén, Anca Dragomir, Gustav J Ullenhag Tumoral cubilin is a predictive marker for treatment of renal cancer patients with sunitinib and sorafenib. J. Cancer Res. Clin. Oncol.: 2017; PubMed 28260162


NOTE:

  • Should use original article not review
  • Images need: template, referencing and copyright
  • Shouldn't use textbooks BUT can use Journals (under References hyperlink)

Image

Human R3 RPTP members.png

NOTE:

  • under image need to have a paragraph of what the image shows

Tutorial 2

Methanol

Hazards:

  • Flame: Flammable
  • Skull and crossbones: Acute toxicity
  • Health Hazard: Severe Health Hazards

http://www.sigmaaldrich.com/catalog/product/sial/322415?lang=en&region=AU&cm_sp=Insite-_-trending_fixed-_-trending5-3

Tutorial 4

Antibody: Cytokeratin 17 Monoclonal Antibody (E3)

Host/Isotype: Mouse/IgG2b

Species reactivity: Human, mouse

Clone: Monoclonal

Secondary antibody: Goat anti-Mouse IgG (H+L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor Plus 488

Reference: https://www.thermofisher.com/antibody/product/Cytokeratin-17-Antibody-clone-E3-Monoclonal/MA5-13539


2017 Course Content

Moodle

Lectures: Cell Biology Introduction | Cells Eukaryotes and Prokaryotes | Cell Membranes and Compartments | Cell Nucleus | Cell Export - Exocytosis | Cell Import - Endocytosis | Cytoskeleton Introduction | Cytoskeleton - Microfilaments | Cytoskeleton - Microtubules | Cytoskeleton - Intermediate Filaments | Cell Mitochondria | Cell Junctions | Extracellular Matrix 1 | Extracellular Matrix 2 | Cell Cycle | Cell Division | Cell Death 1 | Cell Death 2 | Signal 1 | Signal 2 | Stem Cells 1 | Stem Cells 2 | Development | 2017 Revision

2017 Laboratories: Introduction to Lab | Fixation and Staining |


2017 Projects: Group 1 - Delta | Group 2 - Duct | Group 3 - Beta | Group 4 - Alpha

Dr Mark Hill 2015, UNSW Cell Biology - UNSW CRICOS Provider Code No. 00098G
  1. Erratum: Fibronectin 1 promotes migration and invasion of papillary thyroid cancer and predicts papillary thyroid cancer lymph node metastasis [Corrigendum]. Onco Targets Ther: 2017, 10;2737-2738 PubMed 28603422