CITI RCR training,

Go to CITProgram.org, register using UTC emails, 

 https://about.citiprogram.org/en/homepage/

Choose the University of Tennessee at Chattanooga as "Affiliation". If you do not see UTC,  choose "Add affiliation". 

Click "Add a course" (see image below) 

Scroll down to Question 4, 

For biology undergraduates, click "Biomedical RCR Course"

For computer science  undergraduates, click "Computer Science RCR Course"

For graduate students, in addition to the undergraduate courses, please also click 

"Advanced topics in RCR courses" (see image below)

Answer any requested question (for example Covid19 questions) 

Click "Submit" at the bottom of this page. 

At the main page, choose a relevant module, click "Start Now". 

Reference: 

 UTC policy: https://new.utc.edu/research/research-integrity/responsible-and-ethical-conduct-of-research/recr-requirements-for-nsf-trainees 

CITI training

Please create an account at CITI, associate your account with UTCOM Chattanooga, and then complete the basic human subject research modules.  

https://about.citiprogram.org/en/homepage/

How to give a good talk

How to give a good talk
https://www.ibiology.org/professional-development/scientific-presentations/

toread, paper on aging, calorie restriction

The Hsp70 homolog Ssb affects ribosome biogenesis via the TORC1-Sch9 signaling pathway Kaivalya Mudholkar1 , Edith Fitzke1 , Claudia Prinz1 , Matthias P. Mayer 2 & Sabine Rospert 1,3
https://www.nature.com/articles/s41467-017-00635-z.pdf

Are aberrant phase transitions a driver of cellular aging?Simon Alberti* and Anthony A. Hyman*
 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5108435/

Protein biogenesis machinery is a driver of replicative aging in yeast. Georges E Janssens1†, Anne C Meinema2†‡, Javier Gonza ́lez3§, Justina C Wolters4, Alexander Schmidt5, Victor Guryev1, Rainer Bischoff4, Ernst C Wit3,
Liesbeth M Veenhoff1*, Matthias Heinemann2.  ELife. 
 https://elifesciences.org/articles/08527

J Cell Biol. 2018 Jan 2;217(1):51-63. doi: 10.1083/jcb.201709072. Epub 2017 Nov 10. Pathways of cellular proteostasis in aging and disease.Klaips CL1, Jayaraj GG2, Hartl FU3.

https://www.ncbi.nlm.nih.gov/pubmed/29127110

how to read a scientific paper

https://violentmetaphors.com/2013/08/25/how-to-read-and-understand-a-scientific-paper-2/

introduction to systems biology, student training

why systems biology

https://www.youtube.com/watch?v=F-WtUzyedDo

Uri Alon's sysems biology courses: 

https://youtu.be/pyqBvxeVtG4?list=PLx1I6vEp40NQgAS0wxs53Y9A8-8cL9h_y

cellular aging studies in Qin's lab

http://hongqinlab.blogspot.com/2014/09/introduction-to-cellular-aging-research.html

MIT quantitative biology course

https://youtu.be/lJzybEXmIj0?list=PLUl4u3cNGP63uK-oWiLgO7LLJV6ZCWXac

EdX systems biology

https://www.edx.org/course/introduction-systems-biology-ieeex-sysbio1x-0

Coursera.org on "systems biology"

lab meeting

1a) DE gene lists for RNAseq project
TODO: there are various time points between control and treatment. Should we use the consensus DEG list?

It seems that "GeneID" in BGI report are from NCBI. Example of 57573 is

https://www.ncbi.nlm.nih.gov/gene/?term=NP_065864 

and 

http://pantherdb.org/genes/gene.jsp?acc=HUMAN|HGNC=23226|UniProtKB=Q9BX82&showAllAlt=yes

So, "Gene ID" is a standard NCBI number.

1b) Pathway analysis plan for DE gene lists
TODO: There are different sources of human gene/protein networks. We should try several for comparisons.
TODO: We should try different clustering method, such as hlcust, mcl, etc (refer to Qin's previous paper for clustering analysis).

2) time-lapsed image analysis for yeast replicative lifespan
   We can use ImageJ, MATlab or R.

safety training, UTC

hazardous materials

gasoline can be easily ignited, but diesel is not.

universal waste:
florescent lamp should be recycled.
computer batteries.
motor batteries

Dot hazard marking
Global harmonization container markings
NFPA rating explanation guide, NFPA 704, HMIS

423 425 HELP

*** Introduction to cellular aging research in Qin lab

Research training videos on cellular aging

Engineering meets Medicine talk, https://youtu.be/WxyTesWmIiw

UTC talk: https://youtu.be/nCBLcMOaaug

UTC job talk:  https://youtu.be/e-pFC-60u4E

Overview on cellular aging and network
https://www.youtube.com/watch?v=muJe94fURL8

Overview again
https://www.youtube.com/watch?v=kTOjkiKy15Q

Part 1:
https://www.youtube.com/watch?v=AzFSyDPNv6U

Part 2:
https://www.youtube.com/watch?v=z0FBk153kCM

Reading:
https://arxiv.org/abs/1305.5784