#Viral_Genomes

A look at the Baltimore scale for viral genomes.
1/ There are over 21 families of viruses. Each of these families will have many strains of viruses within them. Just the Herpes virus has 8 different strains within its family. Others like Flavivirus has strains like Dengue, Zika, West Nile and Yellow Fever.
2/ Other then classifying viruses by their family, we can classify them by their genetic makeup. There are 7 different classes of viral genomes. They are classified using the Baltimore scale shown below.
3/ Class I viruses are the double stranded DNA viruses (dsDNA). These are the common viruses that lay latent in humans for many years or even their lifetime. The Herpes viruses are the best example of these viruses.
4/ They include HSV1, HSV2, Varicella Zoster Virus (Chicken pox and Shingles), Epstein Barr viruses, and Cytomegalovirus. These viruses will get into cells and live there for the lifetime of the host. They will stay latent unless something happens to activate them.
5/ This often happens in immune suppression like with transplants or chemotherapy. A healthy immune system keeps them in check.
6/ Class II viruses are the single stranded viruses (ssDNA). There are very few of these that are in humans. The best example is parvo viruses which affect cats and dogs. The one human example is the famous Parvo B19 virus which can cause aplastic anemia.
7/ Class III is the double stranded RNA viruses (dsRNA). The Rota virus is the classic example of the double stranded RNA viruses. They are part of the many viruses that we call stomach bugs. They cause diarrhea.
8/ The cells of the body have defenses against double stranded RNA (dsRNA) as our bodies do not use this format. This serves as a warning to the cells.
9/ Class IV viruses are the + strand single strand RNA viruses (+ssRNA). The positive strand runs from the 5' to the 3' direction while the - strand runs 3' to 5'. This distinguishes the Class IV + strand RNA viruses form the Class V - strand RNA viruses.
10/ Our ribosomes recognize mRNA which is the + strand of the RNA. That means many + strand RNA viruses can start being translated by the ribosome as soon as it enters the cell.
11/ Others have to be copied to - strand and then back so they are formatted correctly for the ribosome. The best example of a + strand RNA virus is the Rhinovirus that makes up the common cold.
12/ Class V viruses are the - strand RNA viruses
(-ssRNA). They often bring their own polymerase into the cell for copying their - stand genome into a + strand RNA that can be used with the ribosomes. The most famous of - strand viruses is Influenza.
13/ The influenza virus is completely unique in that it has 8 segments of single stranded RNA that is of the - strand. This allows influenza strains to swap segments to crate completely new strains.
14/ Class VI viruses are called the Retroviruses. They are an RNA virus that copies its RNA genome into DNA using a reverse transcriptase and inserts it into the human DNA using integrase.
15/ The most famous retrovirus is HIV. This enters human CD4 T cells and integrates into the cells genome. There is an acute period of infection as the virus invades the host's T cells. Then it enters a latent period where it can stay for years or even decades.
16/ Lentivirus is a close relative to HIV that is a retrovirus. It is used in labs to insert genes into cells for gene editing. This is used in many T cell therapies to make edits to the cell's genome.
17/ Class VII viruses are hybrid viruses. These viruses use a combination of both double stand and single stranded DNA genomes. The most famous of Class VII viruses is Hepatitis B.
18/ This is another virus that can enter cells and remain latent for many years or decades. Hepatitis B is a liver virus that leads to many of the cases of liver cancer over time.
19/ Understanding the viral genomes of any virus will tell you a lot about that virus. It will determine what kind of immune response will be activated. Innate cells have Toll Like Receptors designed to detect these different kinds of RNA or DNA of these pathogens.

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More from @Biotech2k1

26 Sep
#Viral_Capsids

A look at viral capsids.
1/ The capsid is a strong protein structure that encloses and protects the viral genome. The most basic viruses will use a single protein produced many times to build the capsid. The more complex viruses will use multiple proteins to build their capsid structure.
2/ The basic structure of the viral capsid comes in 3 basic designs. They are Icosahedral, Helical and Complex.
Read 18 tweets
25 Sep
Been Working on my Science Categories:

Pathways 20% max
Synthetic Lethality 15% max
CRISPR 15% max
Protein Degraders 15% max
Cell Therapies 15% max
Delivery 15% max
Max 95% with 5% cash
I think come out to a good diversification. It would never get that low on cash as I plan a few transitions. I am splitting up Pathways and Synthetic Lethality which is kind of a judgement call since they highly overlap.
Pathways:
1 $BPMC max 5% = 3.3%
2. $TPTX max 5% = 3.3%
3. $RVMD max 3% = 2%
4. $ERAS max 3% = .67%
5. $RLAY max 3% = 2%
Max 19%
Read 8 tweets
25 Sep
Here are my Watch Lists:

These are the companies on my lists for when the bubble pops in biotech. Most of them are grossly overvalued, but awesome companies.
Pathways:

1. $BPMC - fair value
2. $MRTX - expensive
3. $TPTX - fair value
4. $SDGR - very expensive
5. $RVMD - very expensive
6. $ERAS - very expensive
7. $RLAY - bubbly
8. $RPTX - very expensive
Protein Degraders:

1. $ARVN - bubbly
2. $KYMR - bubbly
3. $CCCC - bubbly
4. $GLUE - very expensive
Read 7 tweets
24 Sep
#Cell_Therapies iPSC

A look at induced Pluripotent Stem Cells.
1/ This has been a huge love of mine for years. The engineering of cells to create cancer therapies. The induced Pluripotent Stem Cells (iPSC) can revolutionize the way we create CAR-T or CAR-NK cells for cancer treatments.
2/ The process of the iPSC can be automated, duplicated and consistent as a source of low cost cell therapies. So how does this work?
Read 15 tweets
24 Sep
My Exit Strategy Updated:

Not at my trading laptop so all are estimates. I plan to fade all rallies in biotech back to old high as value for the $XBI is only $112.
Pathways:

$BPMC 3.34% will keep my 2.02% paid core
$MRTX 3.34% will keep my 2.02% paid core
$TPTX 3.34% will keep my 2.02% paid core
$SDGR sell all
$RVMD sell all
$ERAS sell all
$RLAY sell all
$RTPX sell all
Protein Degraders:

$ARVN sell all
$KYMR 1.35% will keep my .67% core
$CCCC 1.35% will keep my .67% core
$GLUE 2.02% will keep my .67% core
Read 8 tweets
22 Sep
#Molecular_Glue

A look at how molecular glue works.
1/ In previous Targeted Protein Degrader threads, I went over the basic process of how the E1 enzyme adds the phosphate group to the ubiquitin molecule. It then passes it to the E2 enzyme which binds to the E3 ligase as a complex.
2/ The E3 ligase is designed with a site of recognition that is specific to a group of proteins. These proteins, called substrates, can be many different proteins for the same E3 ligase, but they all have a specific site that the E3 recognizes and binds to.
Read 6 tweets

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