Online Tutorial 3
- Due 29 Sep 2021 by 0:01
- Points 100
- Submitting a file upload
- File types pdf and docx
- Available 11 Sep 2021 at 9:00 - 10 Oct 2021 at 23:59
Online Tutorial 3 Assessment name: Article Analysis and Press Release (Tutorial 3) Course code: BIOL2254 Weighting: 11.4% Due date: 29/9/2021 |
Visit Course Syllabus for more information about the assignment
Assessment summary |
An important skill as a scientist is being able to effectively communicate complex topics to a general audience.
In this assignment, you will read and analyse a journal article that covers a recent advance in a bioinformatics-related field (Part 1).
Using the knowledge gained from this analysis and associated background reading, you will write a short scientific press release that explains the importance and broader context for your selected paper (Part 2).
We will work through an example article during Tutorial 3. You will then have 2 weeks to analyse an article of your choice (from the provided articles below).
Task instructions |
Follow the steps below to get started on this assessment task:
- Before the tutorial, download and read this journal article. Download this journal article. We will be working through analysis of this article in the tutorial. You won't have time to read the article in the tutorial, so make sure you come prepared.
- Attend the tutorial where you will work through the process of annotating, understanding and summarising a bioinformatics-focused research article.
- Choose ONE article from the list below
- Answer the 5 short questions for your chosen article (see assignment instruction PDF for more details)
- Write a short scientific press release for your chosen article (see assignment instruction PDF for more details)
- Submit your answers to the 5 questions and your scientific press release as a single document (.pdf or .docx)
Detailed assignment instructions are available here. Download Detailed assignment instructions are available here.
Articles |
You can choose any of the below articles (grouped broadly by topic, although there is significant overlap):
Single-cell RNA-Seq:
- Liu Y, Wang T, Zhou B, Zheng D. Robust integration of multiple single-cell RNA sequencing datasets using a single reference space. Nat Biotechnol. 2021;39: 877–884. Download Liu Y, Wang T, Zhou B, Zheng D. Robust integration of multiple single-cell RNA sequencing datasets using a single reference space. Nat Biotechnol. 2021;39: 877–884.
- Cherry C, Maestas DR, Han J, Andorko JI, Cahan P, Fertig EJ, et al. Computational reconstruction of the signalling networks surrounding implanted biomaterials from single-cell transcriptomics. Nat Biomed Eng. 2021. doi:10.1038/s41551-021-00770-5 Download Cherry C, Maestas DR, Han J, Andorko JI, Cahan P, Fertig EJ, et al. Computational reconstruction of the signalling networks surrounding implanted biomaterials from single-cell transcriptomics. Nat Biomed Eng. 2021. doi:10.1038/s41551-021-00770-5
Genome Assembly:
- Haghshenas E, Asghari H, Stoye J, Chauve C, Hach F. HASLR: Fast Hybrid Assembly of Long Reads. iScience. 2020;23: 101389. Download Haghshenas E, Asghari H, Stoye J, Chauve C, Hach F. HASLR: Fast Hybrid Assembly of Long Reads. iScience. 2020;23: 101389.
Machine Learning:
- Elnaggar A, Heinzinger M, Dallago C, Rehawi G, Yu W, Jones L, et al. ProtTrans: Towards Cracking the Language of Lifes Code Through Self-Supervised Deep Learning and High Performance Computing. IEEE Trans Pattern Anal Mach Intell. 2021;PP. doi:10.1109/TPAMI.2021.3095381 Download Elnaggar A, Heinzinger M, Dallago C, Rehawi G, Yu W, Jones L, et al. ProtTrans: Towards Cracking the Language of Lifes Code Through Self-Supervised Deep Learning and High Performance Computing. IEEE Trans Pattern Anal Mach Intell. 2021;PP. doi:10.1109/TPAMI.2021.3095381
Protein structure, function and modelling:
- Necci M, Piovesan D, CAID Predictors, DisProt Curators, Tosatto SCE. Critical assessment of protein intrinsic disorder prediction. Nat Methods. 2021;18: 472–481. Download Necci M, Piovesan D, CAID Predictors, DisProt Curators, Tosatto SCE. Critical assessment of protein intrinsic disorder prediction. Nat Methods. 2021;18: 472–481.
Learning Outcomes |
The Learning Outcomes for this assessment are:
- Be able to identify key components of a bioinformatics study, including data sources, tools/techniques used and controls used.
- Be able to convey complex bioinformatics principles, results and/or methods to a general scientific audience
Assessment Criteria |
You will be assessed on your ability to:
- Identify and explain key components of a bioinformatics research article, including methods, data sources, controls and research questions
- Suggest alternative techniques to address a bioinformatics-related research question
- Convey the main outcomes of a bioinformatics-related study to a general scientific audience
A detailed marking rubric is available here Download available here
Submission instructions |
Submit your answers to the 5 questions and your scientific press release as a single document (.pdf or .docx).
Submissions will be reviewed for evidence of plagiarism using Turnitin.
Late submission will be penalised at 10% of the total available marks for this assignment per day.