Only have to do activity 1It is 300 words prac report based off a article i will provide
https://pubmed.ncbi.nlm.nih.gov/18710945/1 BIOL2319 2018 Practical 1: Literature search/Bioinformatics BIOL2319 Semester 2 2020 ONLINE LAB INTRODUCTION Reading and critically analysing scientific research articles is a special skill. In this online lab session, You will get a chance to read a research article. There are many good ideas, interesting hypothesis, innovative strategies and surprising outcomes published in scientific journals. Surprisingly not all the journal articles published in a high-quality journal are excellent. Some material is not reproducible, and they are not worth to read. Experience may help in selecting the right article to obtain information on a specific topic. The following questions will help you identify whether the chosen article is worth reading or not. Why was the study done/What is the aim of the study? What hypothesis was tested in the specific study? Was the study design appropriate? Was the study method well designed with appropriate controls? Was it reproducible/statistically analysed? Were the results meaningful and aligned with the method and approach? Are the discussion and conclusion valid? Were ethics issues addressed in any way in the article? OBJECTIVES/AIMS In this lab session, you will browse some websites to understand how to get valuable information from different resources. During this session, you should learn to identify and understand: • Where to search for scientific research articles? • What does “the authoritative research article” mean to me? • Where to find the aim and hypothesis in a primary research article? • How to summarise/write a short story from the information found in a journal article? This lab has two activities. 2 BIOL2319 2018 ACTIVITY 1: Abstract writing Cells and their internal organization is one of the major topics we will teach you in this course (weeks 1 to 6). The literature provided in this activity will help to develop your knowledge in the area and may support your learning contents. 1) Go to https://www.ncbi.nlm.nih.gov/pubmed/ and select the keywords to find out the following article according to your last name. If your last name starts with A–F : Search an article by entering the following detail. migration and invasion From the searched results find out the article published in 2014 by Justus CR. et al., (The title of the article should be “In vitro Cell Migration and Invasion Assays”) If your last name starts with G–M : Search the specific article by entering the following detail. Bernard O From the searched results, find the article published in 2012 Sep (The title of the article should be “Pharmacological inhibition of LIM kinase stabilizes microtubules and inhibits neoplastic growth”) If your last name starts with N–S : Search an article by entering the following details. SNARE and macrophages Select the article published in 2008 by Achuthan A (The title of the article should be “Regulation of the endosomal SNARE protein syntaxin 7 by colony-stimulating factor 1 in macrophages”) If your last name starts with T-Z : Search an article by entering the following details. Wee1 and adavosertib Select the article published in 2020 July by Mugundu G. (The title of the article should be “Effect of food on the pharmacokinetics of the WEE1 inhibitor adavosertib (AZD1775) in patients with advanced solid tumors”) Now, read the article that requested by your surname and in your own words write a summary report (300 words maximum) which will cover the introduction, aim, hypothesis, results and conclusion. (3 Marks). https://www.ncbi.nlm.nih.gov/pubmed/ 3 BIOL2319 2018 ACTIVITY 2: Bioinformatics Question #1 (total 1 mark) If your last name starts with A – G: (a) Find out how many articles were published by Yang C and Guan L in between 2005-2020 (0.5 marks)? (b) How many of them were in 2011 (0.5 marks)? If your last name starts with H– M: Find out how many articles were published by Kraft AS in between 2010-2020? How many of them were in 2015? If your last name starts with N –S: Find out how many articles were published by Piva TJ in between 2005-2020? How many of them were in 2017? If your last name starts with T – Z: Find out how many articles were published by Vlahos R in between 2005-2015? How many of them were in 2019? Questions number 2 to 4 are based on the key proteins listed below. • If your last name starts with A - G your protein to research is human BMP4. • If your last name starts with H - M your protein to research is human N-cadherin. • If your last name starts with N - S your protein to research is human Vimentin. • If your last name starts with T – Z your protein to research is human Smad 2. Question #2 Go to www.uniprot.org to explore the available resources of protein sequence and functional information. Click on UniProtKB. Search for your protein (homo sapiens). Tick the 1st selection box. Click on the Entry number. (a) Record the name and or alternative names (if available) for your protein. (b) Record the length in amino acids, and the molecular mass in Dalton of your protein. (c) Record the published subcellular localisations of your protein. (1 Mark) Question #3 Go to https://www.proteinatlas.org Search for your protein. Record the general information such as (a) gene name, (b) gene description, (c) protein class, and (d) localisation within the cell. (0.5 Mark) Question #4 Go to human genome resources at NCBI by clicking the following website, https://www.ncbi.nlm.nih.gov/projects/genome/guide/human/ search for your gene (a) Record the chromosomal location. (b) Record the tissue that expressed a higher level of this protein (mRNA). (0.5 Mark) https://www.proteinatlas.org/ https://www.ncbi.nlm.nih.gov/projects/genome/guide/human/ 4 BIOL2319 2018 Assessment submission date: 05/08/2020, 5:00 pm (Wednesday, week 3, 5:00 pm) Assessment fraction: 6% Submit the answers as described below. Type your answers in a word document and save as .doc or docx. The similarities will be checked. >30% similarities (for activity 1 only) will lose marks. 9 Practical 1: Report format BIOL2319 Semester 2 2020 ONLINE LAB ACTIVITY 1: Abstract writing Write the abstract (a summary report) that requested by your surname and in your own words. This abstract should cover the introduction, aim, hypothesis, results and conclusion (300 words maximum). 3 Marks. ACTIVITY 2: Bioinformatics Write the answers that requested by your surname only. If not you will loose the marks. Question #1 (total 1 mark) Question #2 (total 1 mark) Question #3 (total 0.5 mark) Question #4 (total 0.5 mark) BIOL2319 2018