Write 3 Page Paper And Include All Given Questions. All Guidelines Are Given In Attached Document. Bioinformatics Papers to consider: Teo, S.P. (2021

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Write 3 Page Paper And Include All Given Questions. All Guidelines Are Given In Attached Document. Bioinformatics

Papers to consider:

Teo, S.P. (2021). Review of COVID-19 mRNA Vaccines: BNT162b2 and mRNA-1273. Journal of Pharmacy Practice. Online ahead of print. https://doi.org/10.1177/08971900211009650

Ward, D., Higgins, M., Phelan, J.E., Hibberd, M.L, Campino, S., and Clark, T.G. (2021). An integrated in silico immuno-genetic analytical platform provides insights into COVID-19 serological and vaccine targets. Genome Medicine 13:e4. https://doi.org/10.1186/s13073-020- 00822-6
Assignment: Read the papers of Teo (2021) and Ward et al. (2021) (see first two papers above) and then work through the process below:
Open the COVID Profiler webpage referenced in Ward et al. (2021) using the following link: http://genomics.lshtm.ac.uk/immuno/
Read the ‘Step 1’ box and click on the button for the ‘SARS-CoV-2 Immunoanalytics tool + HLA-I Data’ (warning: it will take quite some time to load the full genome layout with features, but after the loading process has completed, you should see a circular representation of the genome and the associated mapped metadata)
Explore the SARS-COV-2 genome and associated metadata, paying close attention to the pop-up windows that appear as you roll over the genome features – especially the links contained therein
Use the tool and information provided in the papers to address the questions below in an essay format (other supplemental information is also provided (see below)
completed your term paper,
Now consider the questions below for this term paper, and address each of these questions in essay format

Questions:

1) What do current serological diagnostics (i.e., “COVID-19 tests”) “target”?
2) Are there other potential diagnostic “targets” available? If so, what are the advantages/disadvantages of this/these over the conventional targets used now (e.g., especially considering the “non-synonymous mutation’ metadata in the ‘SARS-CoV-2 Immunoanalytics tool’), and what is/are the functions of this/these target/s?
3) What role do/can modern bioinformatics tools play in vaccine/serological diagnostic development, specifically, and in COVID-19 epidemiology, more generally?
4) How would you characterize the role of bioinformatics in the current pandemic, caused by the SARS-CoV-2 virus and all its mutated variants (e.g., the ‘delta’ and “omicron” strains), versus pandemics of the past?
Links for Other Supplemental Information:

CDC: “Past Pandemics” https://www.cdc.gov/flu/pandemic-resources/basics/past-pandemics.html
CDC: “Understanding mRNA COVID-19 Vaccines” https://www.cdc.gov/coronavirus/2019-ncov/vaccines/different-vaccines/mrna.html
CDC: “What You Need to Know About Variants” https://www.cdc.gov/coronavirus/2019-ncov/variants/about-variants.html
Elixir-bio tools: “Everything COVID-19” https://bio.tools/t?page=1&q=COVID-19&sort=score
GIS-AID: “Tracking Variants” https://www.gisaid.org/hcov19-variants/ (including “3D Structure of Spike with Amino Acid Changes”) John Hopkins: “Coronavirus Resource Center” https://coronavirus.jhu.edu/map.html
(an image of the ‘Dashboard’ is provided as a .pdf file in Content/Exams/Final Exam should your browser not be compatible)
PMC: “Figure, Single-stranded RNA genome of SARS-CoV-2” https://www.ncbi.nlm.nih.gov/books/NBK554776/figure/article-52171.image.f5/
Science Focus Magazine: “Would Spanish flu be as deadly if it occurred today?” https://www.sciencefocus.com/science/would-spanish-flu-be-as-deadly-if-it-occurred-today

B

i

oinformatics

Papers to consider:

Teo, S.P. (2021). Review of COVID

19 mRNA Vaccines: BNT162b2 and mRNA

1273. Journal

of Pharmacy

Practice. Online ahead of print.

https://doi.org/10.1177/08971900211009650

Ward, D., Higgins, M., Phelan, J.E., Hibberd, M.L, Campino, S., and Clark, T.G. (2021). An integrated in

silico immuno

genetic analytical platform provides insights into

COVID

19 serological and vaccine

targets. Genome Medicine 13:e4.

https://doi.org/10.1186/s13073

020

00822

6

Assignment: Read the papers of Teo (2021) and Ward et al. (2021)

(see

first two papers above)

and then

work through the process below:

·

Open the COVID Profiler webpage referenced in Ward et al. (2021) using the following link:

http://genomics.lshtm.ac.uk/immuno/

·

Read the ‘Step 1’ box and click on the button for the ‘SARS

CoV

2 Immunoanalytics tool + HLA

I Data’

(warning: it will take quite some time to load the full genome layout with features, but after the loading

process has completed, you should see a circula

r representation of the genome and the associated

mapped metadata)

·

Explore the SARS

COV

2 genome and associated metadata, paying close attention to the pop

up

windows that appear as you roll over the genome features

especially the links contained there

in

·

Use the tool and information provided in the papers to address the questions below in an essay format

(other supplemental information is also provided

(

see below)

·

completed your

term paper

,

Now consider the questions below

for this term paper

, and address each of these questions in essay

format

Questions:

1)

What do current serological diagnostics (i.e., “COVID

19 tests”) “target”?

2)

Are there other potential diagnostic “targets” available? If so, what are the

advantages/disadvantages of this/these over the

conventional targets used now (e.g., especially

considering the “non

synonymous mutation’ metadata in the ‘SARS

CoV

2 Immunoanalytics

tool’), and what is/are the functions of this/these target/s?

3)

What role do/can modern bioinformatics tools play in vaccine

/serological diagnostic

development, specifically, and in COVID

19 epidemiology, more generally?

4)

How would you characterize the role of bioinformatics in the current pandemic, caused by the

SARS

CoV

2 virus and all its mutated variants (e.g., the ‘delta’ a

nd “omicron” strains), versus

pandemics of the past?

Links for Other Supplemental Information:

CDC: “Past Pandemics”

https://www.cdc.gov/flu/pandemic

resources/basics/past

pandemics.html

Bioinformatics
Papers to consider:
Teo, S.P. (2021). Review of COVID-19 mRNA Vaccines: BNT162b2 and mRNA-1273. Journal of Pharmacy
Practice. Online ahead of print. https://doi.org/10.1177/08971900211009650
Ward, D., Higgins, M., Phelan, J.E., Hibberd, M.L, Campino, S., and Clark, T.G. (2021). An integrated in
silico immuno-genetic analytical platform provides insights into COVID-19 serological and vaccine
targets. Genome Medicine 13:e4. https://doi.org/10.1186/s13073-020- 00822-6
Assignment: Read the papers of Teo (2021) and Ward et al. (2021) (see first two papers above) and then
work through the process below:
· Open the COVID Profiler webpage referenced in Ward et al. (2021) using the following link:
http://genomics.lshtm.ac.uk/immuno/
· Read the ‘Step 1’ box and click on the button for the ‘SARS-CoV-2 Immunoanalytics tool + HLA-I Data’
(warning: it will take quite some time to load the full genome layout with features, but after the loading
process has completed, you should see a circular representation of the genome and the associated
mapped metadata)
· Explore the SARS-COV-2 genome and associated metadata, paying close attention to the pop-up
windows that appear as you roll over the genome features – especially the links contained therein
· Use the tool and information provided in the papers to address the questions below in an essay format
(other supplemental information is also provided (see below)
· completed your term paper,
Now consider the questions below for this term paper, and address each of these questions in essay
format
Questions:
1) What do current serological diagnostics (i.e., “COVID-19 tests”) “target”?
2) Are there other potential diagnostic “targets” available? If so, what are the
advantages/disadvantages of this/these over the conventional targets used now (e.g., especially
considering the “non-synonymous mutation’ metadata in the ‘SARS-CoV-2 Immunoanalytics
tool’), and what is/are the functions of this/these target/s?
3) What role do/can modern bioinformatics tools play in vaccine/serological diagnostic
development, specifically, and in COVID-19 epidemiology, more generally?
4) How would you characterize the role of bioinformatics in the current pandemic, caused by the
SARS-CoV-2 virus and all its mutated variants (e.g., the ‘delta’ and “omicron” strains), versus
pandemics of the past?
Links for Other Supplemental Information:
CDC: “Past Pandemics” https://www.cdc.gov/flu/pandemic-resources/basics/past-pandemics.html

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