science olympia

science olympia

anatomy and physiology: 50 minutes. one page note, 8.5x11 inches two sided, 
 Integumentary system; 

 skeleton system: 

 muscular system: 

 

heredity: 50 minutes.  one page note, 8.5x11 inches two sided, 

  Monohybrid cross, dihybrid cross, dominant and recessive alleles, sex-linked traits, genotype vs phenotype; human sex determination; multiple alleles; gene-protein relationship, DNA structure & replication, mutation; mitosis, meiosis, and gamete formation, transcription and translation; human kayotypes analysis for nondisdjunction disorders; co-dominance & incomplete dominance; 

bird: 

SARS-COV-2 entry to cell lines

 Cell Line and Plasmids. HEK293T, HeLa, Calu-3, and MRC-5 cells were obtained

from the American Type Culture Collection and cultured in Dulbecco’s

Cell entry mechanisms of SARS-CoV-2

Jian Shanga,1, Yushun Wana,1, Chuming Luoa,1, Gang Yea, Qibin Genga, Ashley Auerbacha, and Fang Lia,2

aDepartment of Veterinary and Biomedical Sciences, College of Veterinary Medicine, University of Minnesota, Saint Paul, MN 55108

Estimating the genome-wide contribution of selection to temporal allele frequency change

 

https://www.pnas.org/content/117/34/20672

Estimating the genome-wide contribution of selection to temporal allele frequency change

Vince Buffalo and Graham Coop

PNAS August 25, 2020 117 (34) 20672-20680; first published August 12, 2020;

https://github.com/vsbuffalo/cvtk

DNA methylation, aging, and tissue and cell types

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7017047/
Understanding the Relevance of DNA Methylation Changes in Immune Differentiation and Disease, Carlos de la Calle-Fabregat,† Octavio Morante-Palacios,† and Esteban Ballestar*

Immune cells are one of the most complex and diverse systems in the human organism. Such diversity implies an intricate network of different cell types and interactions that are dependently interconnected. The processes by which different cell types differentiate from progenitors, mature, and finally exert their function requires an orchestrated succession of molecular processes that determine cell phenotype and function. The acquisition of these phenotypes is highly dependent on the establishment of unique epigenetic profiles that confer identity and function on the various types of effector cells. These epigenetic mechanisms integrate microenvironmental cues into the genome to establish specific transcriptional programs. Epigenetic modifications bridge environment and genome regulation and play a role in human diseases by their ability to modulate physiological programs through external stimuli. DNA methylation is one of the most ubiquitous, stable, and widely studied epigenetic modifications. Recent technological advances have facilitated the generation of a vast amount of genome-wide DNA methylation data, providing profound insights into the roles of DNA methylation in health and disease.


What does "stable" methylation means? 
DNA methylation, particularly cytosine methylation, is the best-studied epigenetic modification
It consists of the addition of a methyl group to the carbon 5 (5meC) of cytosine-followed-by-guanine dinucleotides (CG or CpG sites). It is characterized by its stability and heritability, 

CpG are often found in vertebrate promoters.
DNA methylation regulation is essential for differentiation of human stem cells. 
CpG islands is pivotal in long-term gene silencing, x-chromosome inactivation, genomic imprinting and pre-mRNA alternative splicing. 


important reviews:
Goldberg, A.D.; Allis, C.D.; Bernstein, E. Epigenetics: A Landscape Takes Shape. Cell 2007, 128, 635–638.
Jones, P.A. Functions of DNA methylation: Islands, start sites, gene bodies and beyond. Nat. Rev. Genet.
2012, 13, 484–492. 

 

Peer-led Team Learning (PLTL)

 Eric Voss, SIU Edwardsville.  

A Little Help from My Friends: Peer Led Team Learning Before and After COVID-19

Friday, November 13, 2020

3:00 – 4:30 pm:  Active Learning Strategies in STEM Education

Peer-led Team Learning (PLTL) is a model of active learning that introduces peer-led workshops as an integral part of undergraduate STEM courses.  Students who have done well in the course are recruited and trained to become peer-leaders.  The peer-leaders meet with small groups of six to ten students each week for one hour to discuss, debate, and engage in problem solving related to the course material.  PLTL originated in a General Chemistry course at the City College of New York in the 1990s.  Early evidence of improved student attitudes and performance led to further study and development of PLTL by a national team, which resulted in more widespread adoption of PLTL in a variety of science, mathematics, and engineering courses.  Very early on, several SIUE chemistry faculty members attended PLTL training sessions sponsored by the National Science Foundation and subsequently implemented PLTL workshops into the SIUE on-sequence General Chemistry courses.  Since then, implementation has expanded into all first-year chemistry courses and several biology courses.  Due to COVID‑19, PLTL workshops have transitioned from face-to-face to online synchronous sessions, with new challenges and opportunities.  Student performance data, student attitudes, peer-leader training methods, workshop material development, scheduling, space allocation, institutionalization, and sustainability of PLTL will be discussed in this webinar. Questions prior to the webinar? 

college board

 

https://www.collegeboard.org/

ggplot themes cutomerize

 

https://themockup.blog/posts/2020-12-26-creating-and-using-custom-ggplot2-themes/

heritability 201

 

http://www.nealelab.is/blog/2017/9/13/heritability-201-types-of-heritability-and-how-we-estimate-it

aging and COVID19 reading list

List provided by Dr. J Choy. 

papers that look at methylation changes as a function of age - this might be a good place to start to see if any genes related to the SARS infection are methylated in old cells or vice versa?

https://www.nature.com/articles/s41586-020-03065-y

https://www.nature.com/articles/s41467-019-12293-4

https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0067378

https://genomebiology.biomedcentral.com/articles/10.1186/s13059-019-1824-y

https://link.springer.com/article/10.1186/gb-2013-14-10-r115

https://www.sciencedirect.com/science/article/pii/S0163725818301980#bb0155

genome-wide screen for host factors required for SARS2 replication

https://www.cell.com/cell/fulltext/S0092-8674(20)31394-5

https://www.cell.com/cell/fulltext/S0092-8674(20)31676-7

https://www.cell.com/cell/fulltext/S0092-8674(20)31626-3#supplementaryMaterial

https://www.cell.com/cell-host-microbe/fulltext/S1931-3128(20)30671-5#%20

https://www.cell.com/cell/fulltext/S0092-8674(20)31392-1#supplementaryMaterial

Transcriptome

https://www.cell.com/iscience/fulltext/S2589-0042(20)31144-5

USA 2020 election results by counties

MIT election night 2020

https://github.com/MEDSL/election_night2020

2020 results by counties

https://github.com/tonmcg/US_County_Level_Election_Results_08-20/blob/master/2020_US_County_Level_Presidential_Results.csv

https://github.com/openelections

2004, 2008, 2012 

https://github.com/helloworlddata/us-presidential-election-county-results

covid19-age-stratified-ifr

 

https://github.com/mbevand/covid19-age-stratified-ifr

commuting operator model of entanglement

 

commuting operator model of entanglement

https://www.quantamagazine.org/landmark-computer-science-proof-cascades-through-physics-and-math-20200304/

MIP = RE, computer science and math in 2020

 

https://www.quantamagazine.org/quantas-year-in-math-and-computer-science-2020-20201223/

Laplacian matrix

 

Laplacian mixture modeling for network analysis and unsupervised learning on graphs

Daniel Korenblum 

https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0204096

Laplacian spectrum in chemistry

liquid wrapping GAN

 

https://graspcoding.com/giveaway/

https://github.com/agermanidis/Liquid-Warping-GAN 

@misc{liu2020liquid,
      title={Liquid Warping GAN with Attention: A Unified Framework for Human Image Synthesis}, 
      author={Wen Liu and Zhixin Piao, Zhi Tu, Wenhan Luo, Lin Ma and Shenghua Gao},
      year={2020},
      eprint={2011.09055},
      archivePrefix={arXiv},
      primaryClass={cs.CV}
}

@InProceedings{lwb2019,
    title={Liquid Warping GAN: A Unified Framework for Human Motion Imitation, Appearance Transfer and Novel View Synthesis},
    author={Wen Liu and Zhixin Piao, Min Jie, Wenhan Luo, Lin Ma and Shenghua Gao},
    booktitle={The IEEE International Conference on Computer Vision (ICCV)},
    year={2019}
}