cpsc4180 how to do presentation

 

How to do a research presentation

Qin AI 101 slides

CoLab tutorial on DNA.

cpsc4180 final project discussion

 go over student projects, poll about which project to discuss. 

go over a example research paper

https://www.nature.com/articles/s42256-022-00536-x

transition rate theory

 

https://en.wikipedia.org/wiki/Transition_state_theory 

Langevin equation

 

https://en.wikipedia.org/wiki/Langevin_equation

cpsc4180

 SFS

deep learning prediction

final project

final presentation

PULSE survey

 

State Information

I am sending you the data dictionary of the PULSE data. Once you open the file, you should be able to find a variable, named "EST_ST." As you can see, this variable indicates which state each of the respondents was from.

 

cpsc4180 one-hot encoding; project discussions

 

one-hot encoding

project presentations. 

NIH F31 Ruth L. Kirschstein National Research Service Award (NRSA) Individual Predoctoral Fellowship to Promote Diversity in Health-Related Research (Parent F31-Diversity)

 Ruth L. Kirschstein National Research Service Award (NRSA) Individual Predoctoral Fellowship to Promote Diversity in Health-Related Research (Parent F31-Diversity)

https://grants.nih.gov/grants/guide/pa-files/PA-21-052.html#_Section_II._Award

https://www.nia.nih.gov/research/training/f31-individual-fellowships-phd-students

F31 Individual Fellowships for PhD Students

NIA supports three F31 awards, one open to all PhD Students conducting aging research (PA-21-051), one open to students from underrepresented backgrounds conducting aging research (PA-21-052), and one specifically for students from underrepresented backgrounds conducting research on Alzheimer’s Disease and related dementias (PAR-21-218). All F31 recipients must be U.S. citizens or permanent residents at the time of award. View other NIA fellowships available to graduate students.

AD/ADRD

https://grants.nih.gov/grants/guide/pa-files/PAR-21-218.html

fairness in machine learing

independence

separation

sufficiency 

group fairness definitions, confusion matrix

Bias mitigation methods: preprocessing; reweighting; inprocessing; adversarial debiasing; postprocessing; reject option based classification

https://en.wikipedia.org/wiki/Fairness_(machine_learning)

https://en.wikipedia.org/wiki/Algorithmic_bias

cpsc4180 from gisaid alignment to mutations

 == pre-class to do: 

socrative questions (questions on contents from last lecture ): Q what do you think are the most important concepts or skills that we have discussed today? 

update Canvas course materials, update learning objectives. assignments as needed: 

Test-run code: 

== In-class to do: 

clean up destktop space, calendars, 

ZOOM, live transcript (start video recording). 

Socrative sign in: 

How to identify mutations or variations? 

https://www.ebi.ac.uk/Tools/msa/clustalo/

>one
ChattanoogaIsAGreatPlace
>two
ChattanoogaMaybeAGreatPlace

Use AliView to explain the FASTA alignment file (gaps)

https://github.com/hongqin/Python-CoLab-bootcamp/blob/master/align2snv.ipynb

upload 0613 files to CoLab. This is too slow. So, I switched to run jupyter-notebook on my laptop

* UTC Course Evaluation 

* student presentation.

UTC individual study contract form

 

https://www.utc.edu/enrollment-management-and-student-affairs/registrar/individual-studies-contracts

network permutation

 

https://www.nature.com/articles/s43588-020-00009-4

cpsc 4180/5180 project discussion

zoom recording, live transcript

two student presentations. 

 

funding opportunites

 

https://beta.nsf.gov/funding/opportunities/research-mentoring-postbaccalaureates-biological

https://beta.nsf.gov/funding/opportunities/building-research-capacity-new-faculty-biology-brc

paperswithcode

 

https://paperswithcode.com/