@sigallab did a fantastic job in framing the Abs response to Omicron. But his manuscript actually makes make me a bit concerned and I don't find the results encouraging. Let's dive in a short thread 🧵👇
Just a reminder, the Omicron and the Delta are highly diverged from each other compared to the ancestral strain, which serves as the basis for the vaccine.
@sigallab enrolled 15 individuals who were infected by Omicron. Four people were vaccinated with J&J, 3 people with Pfizer, 6 were not vaxxed, 2 had no Ab response and were excluded from the study. These 13people were followed for ~2weeks.
Clearly, all 13 people who did develop antibodies showed improved response against Omicron 2 weeks later. Makes sense.
But can antibodies against Omicron neutralize Delta?
Well that depends. Vaxxed (green) showed also better response against Delta, which also makes sense. They probably mounted mostly their vaccine-based Ab repertoire that works well against Delta. But...
Look only at the unvaxxed individuals with a detectable Ct value at admission (yellow) at the same graph (sorry for my poor photoshop skills). They have a relatively weak response against Delta following Omicron infection. (warning: small dataset)
Now, I see antivaxxer and lay media echoing this simplistic message 🤦‍♂️. At best, O is like another booster for vaxxed and WILL tax the health of some of them. For unvaxxed, it is not a vaccine substitute, since Delta response is likely to be inadequate.
Quite the opposite, I am actually more worried. Now we have two strains that *preliminary data* suggest that can elicit Abs repertoire that DON'T cross-neutralize well (without a vaccine). These are not good news.
/END

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More from @erlichya

24 Dec
מאמר סופר מעניין על המכניזם של cell entry באומיקרון לעומת דלתא ו wuhan ולמה הוא אולי פחות וירולנטי. שרשור קצר שמסביר מה הולך כאן.

biorxiv.org/content/10.110…
כולנו שמענו על Spike ועל כך שהוא נקשר ל ACE2 כדי להכנס לתוך התאים. אבל התהליך הזה הוא מאד לא פשוט. כמו שאתם מכניסים מפתח לתוך מנעול וצריכים קצת לנער את המפתח שיכנס בקלות, גם הספייק צריך קצת דרגות חופש כדי להיקשר טוב ל ACE2 ולבצע את הכניסה לתא.
כאן מגיע לעזרתו של הספייק רצפטור נוסף שנקרא TMPRSS2. הרצפטור הזה הוא פשוט סכין שחותכת חלבונים. הוא חותך את הספייק כמו שחותכים במודעת תלישה וזה ונותן לספייק עוד דרגות חופש שהוא צריך לקישור מיטבי ל ACE2.
Read 9 tweets
23 Dec
Want to produce Paxlovid, Pfizer's new antiviral?

All you need to do is to follow the simple process in the short thread below.
Step 1:
Step 2:
Read 11 tweets
22 Dec
Most people don't appreciate that we are basically beyond GATTACA wild's dream of tracing people using DNA.

A short thread 1/5 🧵
👇
If you recall, the police in GATTACA has access to Vincent's (the protagonist) eyelash. However, they can't identify him since he is not in any database.
2/5
We already at the point that nearly all US people can be identified via their DNA despite not being in any police database. How? about 1-2% of the US population took at DNA test that is searchable in 3rd party websites such as GEDmatch. 3/5
Read 5 tweets
6 Dec
Excellent analysis by @IdoIrani about the waning booster effect (for infection) stratified by age group in Israel.

The worrying part: the rate of decline is most age groups is similar to the 2nd jab.
@IdoIrani This tweet is trending. So a few comments 1/2:
1 Data:
datadashboard.health.gov.il/COVID-19/gener…
2. This is a tweet not peer reviewed publication. It is a preliminary analysis with some caveats as described here.
3. The y-axis should be crude VE
4. Some Idiots...
have said that since I am a CEO of a start up and @IdoIrani is a PhD student, the analysis should be disqualified. This is my Google Scholar. Hope it passes your high bar 🤪.
scholar.google.co.il/citations?user…
5-∞. It is a preliminary signal.
Read 6 tweets
3 Oct
Due to popular demand, a thread for the general audience on Molnupiravir, Merck's new treatment for Covid19.

Let's start!
The compound (left) looks like an RNA nucleotide called Cytidine (right) that is found in every cell in nature.

BTW: How do I know it is an RNA nucleotide? You see the two "legs" at the bottom with "OH OH"? If the right leg is OH it is RNA and if it's H, it is DNA. Easy.
The resemblance is nearly perfect except 2 places:
The diff in Blue (isobutylester) is bigger but less important. It's quickly cleaved by an enzyme once the drug is in our body and converted to be identical to a Cytidine.

The "OH" in Red is the magic of this molecule!
Why?
Read 19 tweets
2 Oct
שרשור על מה זה Molnupiravir, התרופה החדשה של Merck כנגד Covid19.
יאללה מתחילים.
הדבר הראשון שרואים היא שהתרופה (משמאל) נראית כמו נוקלאוטיד RNA שנקרא Cytidine ומצוי בכל תא של אורגניזם בטבע (מימין).

אגב, איך אני יודע שזה נוקלאוטידים של RNA ולא DNA? רואים למטה כמו שני רגלים עם OH בכל צד? אז אם הרגל הימנית היא OH, זה RNA, ואם היא פשוט H, אז זה DNA. קל!
הדימיון כמעט מושלם חוץ משני מקומות:
השינוי בכחול הוא לא כזה חשוב לענייננו. מדובר בתוספת שיורדת מהר מאד בגוף על ידי אנזים מיוחד ומחזיר אותנו למצב כמו ב Cytidine רגיל.

השינוי ה OH בחלק שסימנתי באדום הוא הקסם של המולקולה הזאת שהופכת אותה מסתם Cytidine לסוכן כאוס.
איך?
Read 17 tweets

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