The hottest Genomics Substack posts right now

And their main takeaways
Category
Top Science Topics

Some Thoughts On 10X Genomics

ASeq Newsletter • 36 implied HN points • 18 Jan 24
🔬 Science Genomics Competitors Market Growth
  1. Spatial revenue for 10X Genomics is increasing, while single cell revenue growth is slowing down.
  2. There may not be much growth expected in single cell applications for 10X Genomics, but spatial sequencing shows potential for growth.
  3. 10X Genomics faces competition in the single cell market, but may retain a significant market share.

The Future of Sequencing

ASeq Newsletter • 29 implied HN points • 04 Jan 24
🔬 Science Genomics Automation Diagnostics
  1. Sequencers should be as boring and simple as qPCR machines for easy use and accessibility.
  2. Automation in sequencing should focus on sample-to-answer approaches like the GeneXpert in diagnostics.
  3. Broader adoption of sequencing in clinical applications may require a cultural shift towards valuing diagnosis even without immediate treatment options.
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DNA Tubes - The HiSeq X Fluidic System

ASeq Newsletter • 29 implied HN points • 13 Dec 23
🔬 Science Genomics
  1. The HiSeq X DNA sequencer contains about 100 meters of tubing inside for its fluidics system.
  2. The majority of the tubing in the HiSeq X appears to be around 1.5mm OD and 1mm ID, possibly made of PTFE.
  3. The fluidic path of the HiSeq X is structured similarly to the Solexa Genome Analyzer and uses components from the same vendors.

What The H*ll Is PPMSeq?

ASeq Newsletter • 21 implied HN points • 17 Feb 24
🔬 Science Biotechnology Genomics Sequencing Bioinformatics
  1. PPMSeq is a duplex sequencing technique that ensures high accuracy reads by reading both forward and reverse strands of a double-stranded sequence.
  2. Ultima's PPMSeq works by amplifying both strands on the same bead and utilizing a tag to identify their presence, with errors causing radical dephasing which is taken care of by downstream software.
  3. Approaches to implementing PPMSeq on Ultima's platform involve reading both strands in both directions simultaneously or keeping the product on beads in the same orientation, each with its own challenges and considerations.

Oxford Nanopore

axialdaily • 19 implied HN points • 17 Mar 23
🕹 Technology Biotech Genomics Startups Innovation
  1. Oxford Nanopore sequences DNA with a nanopore technology.
  2. ONT has made advancements in base-calling and chemistry for improved accuracy.
  3. The company has created a new genomics category and is exploring various applications beyond COVID surveillance.

Real-time Spatial Sequencing

ASeq Newsletter • 21 implied HN points • 25 Jan 24
🔬 Science Biology Technology Research Innovation Genomics
  1. Real-time spatial sequencing involves obtaining a full time course of RNA as it's transcribed and cleared from cells.
  2. Challenges include releasing RNA from cells without damaging them, determining porous array density, and developing a sequencing method.
  3. Potential solutions include using electroporation or biological nanopores, adjusting array density, and utilizing real-time sequencing approaches.

Ultima Unpatterned Flowcells

ASeq Newsletter • 14 implied HN points • 14 Feb 24
🔬 Science Biotechnology Genomics Technology Research Innovation
  1. Ultima has transitioned to using unpatterned flowcells, which are cheaper and possibly work well with minor drawbacks.
  2. Ultima's manufacturing using unpatterned flowcells involves surface treatment and spin coating to attach and shrink beads for better identification and access.
  3. The occupancy and loading efficiency of Ultima's unpatterned flowcells suggest a potential capacity for 8 billion reads per run, showing advancements since their 2022 preprints.

Axial Discovery - Kidney disease

Axial • 29 implied HN points • 06 Mar 23
🏥 Health & Wellness Genomics Proteomics Drug Development
  1. Over 30 million people in the US are affected by kidney disease, leading to high healthcare costs and lowered quality of life.
  2. New tools like genomics, proteomics, and metabolomics are transforming drug development for kidney diseases.
  3. Companies like Goldfinch Bio and Chinook Therapeutics are developing medicines for rare kidney diseases with defined clinical milestones.

PacBio Market Cap <$1B

ASeq Newsletter • 7 implied HN points • 18 Mar 24
🕹 Technology Market Analysis Genomics Competitors Sequencing
  1. PacBio's market cap drops below $1B, making it potentially attractive for acquisition.
  2. Despite some positives like new instruments and competitive specs, PacBio faces challenges in gaining traction for long-read sequencing in clinical settings.
  3. The majority of PacBio's IP expires in 2029, raising concerns that competitors could enter the market in the near future.

Everything Wrong With: "Illumina: The Measurement Monopoly" Part 8/8

ASeq Newsletter • 7 implied HN points • 14 Mar 24
🔬 Science Genomics Biology Technology Business Analysis
  1. The misconception that the author is independently wealthy is addressed, highlighting the need for funding for their content creation activities.
  2. The discussion covers the vertical integration strategies of AffyMetrix and Illumina in the genomics industry.
  3. There is a desire for a less vertically integrated future in the sequencing industry, focusing on filling sequencers with reagents like qPCR machines.

Axial Discovery - Phenotypic screening

Discovery by Axial • 3 implied HN points • 27 Mar 23
🔬 Science Drug Discovery Genomics Drug Development Biomedical Research
  1. Phenotypic screening focuses on identifying specific physical or biochemical traits of interest for drug discovery.
  2. Key rules for effective phenotypic screens include selecting relevant cell models, designing disease-specific assays, and defining clinical-like endpoints.
  3. Advancing phenotypic screening requires improving throughput of complex models, developing translational disease models, enhancing proteomic tools, and integrating phenotypic and target-based screening.

Yes, Carrots Really Are Orange Because of Orangists

Outlandish Claims • 0 implied HN points • 08 Jun 24
🍲 Food & Drink Food history Genomics Color Theory Culinary Arts
  1. Carrots have a long history and were mostly cultivated for their leaves and seeds initially, with their roots later being consumed by the Roman Empire.
  2. Genomic studies have shown that orange carrots were likely deliberately bred and cultivated in the 16th century, possibly in honor of the House of Orange.
  3. It's important to be aware of overconfidence and skepticism, as historical beliefs can be supported or refuted by emerging evidence, like in the case of the orange carrot's origins.

Biotech Needs Its Hydrogen Atom

Niko McCarty • 0 implied HN points • 25 May 24
🔬 Science Biotechnology Physics Molecular Biology Genomics Research Methods
  1. Biotechnology needs a common foundation, much like how hydrogen is essential to physics. This foundation would help scientists work together more effectively and share their findings.
  2. If scientists could collaborate and understand life better, they could design solutions for diseases and other challenges. This could lead to a future where we have more control over creating living organisms for our needs.
  3. Focusing on studying a simple organism like Mycoplasma genitalium could be key to building this foundation. By deeply understanding it, we could create models that help us predict how other cells function.

ONT Not Suing MGI?

ASeq Newsletter • 0 implied HN points • 04 Nov 24
🔬 Science Genomics Biotechnology Research Health Ethics
  1. ONT has decided not to sue MGI after all. This means there won't be legal issues between these companies right now.
  2. The decision was reported by GenomeWeb, highlighting a significant change in ONT's approach.
  3. This could impact the business relationship between ONT and BGI, since they are linked in some way.

Roche Nanopore: First Thoughts (pt2)

ASeq Newsletter • 0 implied HN points • 20 Feb 25
🕹 Technology Biotechnology Genomics Medical Devices Innovation Research
  1. Roche is developing a new duplex approach that improves sequencing accuracy significantly, moving from Q20+ to around Q39. This is a big upgrade for DNA sequencing.
  2. The company aims to launch their product in 2026, but early access is expected in 2025. There's a chance they could face challenges during execution.
  3. While Roche's reads are shorter and competitive with other platforms, they will need to handle pricing and compete with long-read technologies from companies like Oxford and PacBio.

Nanopore Sequencing Companies: Geneus

ASeq Newsletter • 0 implied HN points • 15 Feb 25
🕹 Technology Biotechnology Medical Devices Genomics Startups Innovation
  1. Geneus is a nanopore sequencing company claiming 99% accuracy in their technology. They use special features that allow many sequencing units to fit on a tiny chip.
  2. Their sequencing method seems to be different from others, focusing on synthesizing a complementary strand with unique tags. This method helps identify the sequence of DNA more effectively.
  3. The advancements in size and technology from Geneus might be huge, but details on how they achieved this remain unclear.

Classical-to-Quantum Sequence Encoding in Genomics

Quantum Formalism • 0 implied HN points • 13 Apr 23
🔬 Science Genomics Quantum Computing Bioinformatics Machine Learning
  1. A special webinar on classical-to-quantum sequence encoding in genomics will take place tomorrow at 4 pm GMT with key insights presented by the team working on QF's data encoding challenge.
  2. The webinar abstract highlights innovative methods that combine diverse fields like Electrical Engineering, Information Theory, and Neural Networks to create efficient data encoding schemes for genomics.
  3. The research explores utilizing lossless compression, wavelet-based encoding, and information entropy in developing classical-to-quantum data encoding methods, offering implications for the future of bioinformatics and quantum computing.