Albert Vilella Profile picture
Jan 13, 2023 12 tweets 5 min read Read on X
In #JPM2023 news, $ABSI Absci presented on Thursday 12, 2023. Also following the trend of asking AI what they should do, the company's Chief Morale Officer was put to the task of discovering biologics on a computer. Well, DALL-E's interpretation of that was on a slide.
Absci has a slide about the "old paradigm" of drug discovery, focusing on #Antibody discovery. Either phages or mice are used to generate antibodies that bind to targets, and a process of optimization of affinity, toxicity and developability (how to produce large amounts of it)
takes place, until the antibody candidate is decided. Absci rates this at a less than <5% success rate, which is definitely in the ballpark if we take into account phage display for therapeutic antibodies as part of the denominator.
There are companies that avoid such low rates of success, by building mouse platform that generate fully human antibodies. Examples of these are $REGN Regeneron, e.g. the SARS-CoV-2 antibody therapy that was given to an ex-president of the US when he caught COVID19. Another
company with such technology is Sanofi, who acquired Cambridge-based Kymab a couple of years ago, and together with Regeneron is spinning out therapeutic antibodies for human health, for a market that some put at $130B TAM.
The Absci model is based on being able to do very high throughput E.coli SoluPro cells, expressing the proteins-of-interest, and then being able to perform lots of binding assays (Absci's ACE and SPR Assays) to get a readout of their performance.
All this information is fed into an AI model, which is generative in that it can propose antibodies never seen in the training dataset, which are then validated in the wet lab in a cycle that can take about 6-weeks.
They can validate how this AI model works with known targets for which there already are good antibody therapeutics, e.g. HER2, VEGF-A, COVID omicron, etc.
Their recent preprint showcasing the generative AI model for HER2, compared to trastuzumab, has recently been made available. The AI model "edits trastuzumab in-silico", and as more editions are added, the measured binding affinity keep improving (down in the plot).
So Absci business model in the slide deck is that better therapeutics can be created faster.
Can Absci generate candidates withing a 2 year span, accelerating timelines by 2-4 years, thus time to clinic? They've signed partnerships with Merck and EQRx to discover and develop new therapies.
$ABSI Absci IPOed not long ago, they still have >$160M cash at end of '22 and 17 active programs with leading partners.

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More from @AlbertVilella

May 18, 2023
The tech update from Oxford @nanopore #NanoporeConf now ongoing with @The__Taybor now presenting:
Duplex: 1.5% of the time, the complement strand follows the first strand naturally.
Initially, modified the adapters and reached 30% duplex rate. Image
Stereo base caller uses similar ML approaches as ChatGPT, Image
Read 9 tweets
May 17, 2023
On library prep at #Nanoporeconf, a description for PCR-free methods showing the difference between ligation (max output) and rapid mode (10minutes, minimal lab equipment needed). Ultralong reads (ULR) also enabled, all Kit14. Image
Rapid ULR. Current record is about 4 megabases. Image
PCR expansion kits enable the use of samples with low input amount. Image
Read 10 tweets
Apr 21, 2023
I did a deep dive on the different workflow management (WFM) tools for #Bioinformatics Data Analysis a few years ago, and since then there have been a few extra entrants in this segment, still mostly concentrated in serving the Next-Generation Sequencing field.
A few years ago, there were two communities dominating the open-source WFM ecosystem in NextFlow and SnakeMake, and two platforms dominating the the commercial offerings in DNAnexus and Illumina BaseSpace.
Since then, a company out of the founders of Nextflow has started offering enterprise support for Nextflow workflows in the cloud: Seqera Labs. They offer the extra level of support that some organizations require to run Nextflow on their Data Analysis setups.
Read 7 tweets
Apr 21, 2023
More interesting Next-Generation Sequencing knowledge in the ASeq Discord channel (by @new299). Illumina patterned flowcells and the etching process to "print" the wells into the flowcell. Could be down to 350nm diameter for some flowcell configurations now. Image
If I remember correctly, Illumina started with a 600nm diameter for the patterned flowcell, in the HiSeq X and then later on in the evolution of the platform that used these patterned flowcells.
They then said to have gone down to 500nm, and what you are showing seems to indicate that it's at 350nm now, at least for the NextSeq 2000? I am not sure if they claimed that for NovaSeq X?
Read 8 tweets
Apr 20, 2023
There have been some acquisitions in #CancerDiagnostics and #CancerScreening recently, some of which signify a trend towards consolidation that is worth describing:
$A Agilent is moving towards some more vertical integration in Cancer Dx and Cancer screening
by recently acquiring both announcing a partnership with Akoya Bio and announcing the acquisition of Avida Biomed. Image
Some may ask: isn’t $A Agilent too small to go into this field? Would they be able to compete against $ILMN Illumina/GrailBio or $GH Guardant Health or $EXAS Exact Sciences?
Read 4 tweets
Apr 20, 2023
It is likely that as Spatial Biology tools become more robust and user-friendly, they will become increasingly popular and widely adopted in the scientific community.
This may lead to a shift in the balance between single-cell and Spatial Biology approaches, with the latter eventually becoming more prevalent.
Additionally, as more and more datasets are generated using Spatial Biology techniques, the field of Machine Learning and Artificial Intelligence will likely play an increasingly important role in analysing and interpreting this data.
Read 6 tweets

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