DeepMind's AlphaGenome Atlas scores every letter of human DNA
For a patient whose genome has just been sequenced, the diagnostic question usually is not whether a strange variant exists. There will be dozens. The question is which one of them is making them sick. On 8 September 2026, Google DeepMind released AlphaGenome Atlas, a one-petabyte, nine-billion-row table that aims to make that triage a single look-up instead of a multi-month investigation. It is the largest precomputed biological dataset the company has ever released, more than thirty times the size of the AlphaFold Protein Structure Database at launch (DeepMind, 2026), and it covers the 98 percent of the human genome that does not code for proteins at all.
What the team has done is straightforward to describe and almost absurd in its engineering ambition: take the AlphaGenome sequence-to-function model they published in Nature in January 2026, run it across every possible single-letter substitution at every one of the roughly three billion positions of the human reference genome, store the predictions, and serve them on the open web. Every variant. In advance. With feature attributions attached. With a single composite score, the AlphaGenome Variant Impact (AVI), that collapses the predictions into a number clinical researchers can rank variants by. The bottleneck in human genetics, in other words, has just moved.
To see why this matters, it helps to remember where the field stood a decade ago. In the early 2010s, the human genome was widely described as 98 percent "junk DNA." That framing did not survive contact with ENCODE, the Roadmap Epigenomics Project, GTEx, or any of the consortium-scale projects that mapped chromatin accessibility, transcription factor binding, histone modifications, and three-dimensional genome contacts across hundreds of cell types. By the early 2020s the consensus was unambiguous: most of the variants statistically associated with common traits and many rare diseases live outside coding exons, in regulatory regions whose effect on the organism can only be inferred by reading the sequence around them and computing what those regions should be doing (Nature, Avsec et al., 2026). The Human Cell Atlas, the 4D Nucleome, FANTOM5 — they produced the data. Predicting the effect of any given mutation on gene expression, splicing, or chromatin, on demand, was the missing piece.
DeepMind's path to Atlas runs through three increasingly ambitious releases. AlphaFold, in 2020, solved the decades-old protein folding problem and earned Demis Hassabis and John Jumper a share of the 2024 Nobel Prize in Chemistry (Nobel Foundation, 2024). AlphaMissense, in 2023, classified all 71 million possible missense variants in the protein-coding part of the genome as likely benign or pathogenic. Both tools covered only the 2 percent that codes for proteins. AlphaGenome, first released for non-commercial research in June 2025 and described in Nature in January 2026, covers the other 98 percent. Atlas is the precomputed, freely searchable version of that model (DeepMind, 2026; Avsec et al., Nature, 2026).
The early-access users announced alongside the release illustrate what shifts when the bottleneck moves. Laura Covill and Anne O'Donnell-Luria at the Broad Institute used the AVI score to reprioritise a variant in DNM1, a gene strongly linked to epileptic encephalopathy, that had been overlooked in earlier analyses; AlphaGenome predicted an abnormal splice site extending the resulting protein, a mechanism subsequently confirmed by laboratory experiments (DeepMind, 2026). Gareth Hawkes, an MRC fellow at the University of Exeter, ran the Atlas over whole-genome data from more than 54,000 UK Biobank participants and reported 22 percent more non-coding genetic associations than prior pipelines surfaced, including regulatory variants affecting PLA2G7 and EGLN1 and nineteen new regions linked to body mass index. At the Stowers Institute, Julia Zeitlinger and Melanie Weilert used the database to separate transcription factors by their regulatory effects on chromatin, a problem that has resisted biochemical characterisation for two decades.
The architecture behind those results is what makes the engineering tractable. AlphaGenome uses a U-Net-style neural network: an encoder that compresses one million base pairs of input DNA into a dense representation, a stack of transformer blocks that pass information between distant regulatory elements across that window, and a decoder that reconstructs base-pair-resolution predictions across eleven molecular modalities — gene expression, RNA splicing, chromatin accessibility, histone modification, transcription factor binding, three-dimensional contacts, and others — for hundreds of human and mouse cell types (Avsec et al., Nature, 2026). The model was pre-trained on 256 Google TPUv3 chips working in parallel over data from ENCODE, GTEx, the 4D Nucleome, and FANTOM5, and then distilled into a smaller student model that completes the full all-modality, all-cell-type prediction for a single variant in under one second on a single NVIDIA H100 GPU. DeepMind's genomics lead Žiga Avsec told reporters the team needed an 80-fold speedup over their initial pipeline to make Atlas feasible; they reached it through a combination of model distillation, GPU kernel optimisation, and aggressive elimination of redundant computation (DeepMind, 2026).
The AVI score itself is what lets researchers act on those predictions. It folds the eleven AlphaGenome modalities together with AlphaMissense's protein-impact estimates and an evolutionary-conservation signal into a single number. On solved rare-disease cases from the GREGoR Consortium, the score placed the known causal variant in the top fifty candidates 29.5 percent of the time; CADD, the most widely used genome-wide variant scoring system in clinical genomics today, managed 12.5 percent on the same benchmark — a 2.4-fold improvement on the metric that matters most to a clinician staring at a patient's exome (DeepMind, 2026). Each AVI score is paired with feature attributions that say which modality is doing the heavy lifting for any given variant, so a researcher can see not just that a mutation looks bad but why it looks bad.
What changes now is the geometry of the work. Before Atlas, a clinical genomics group that wanted to score a list of candidate variants had to either run a model themselves, rent the compute, or wait on a collaborator who could. After Atlas, they open a browser, type a chromosome coordinate, and read off the score. The cost has collapsed from days of GPU time and a real infrastructure bill to a single API call. The companion AlphaGenome Variant Impact score is freely available through a web portal and API for non-commercial research now, with commercial availability on Google Cloud slated to follow. DeepMind is explicit that the output is not approved for clinical use, and independent reviewers have flagged the obvious limits: many diseases involve multiple interacting variants rather than a single mutation, and some enhancers act over distances longer than the one-million-base-pair window AlphaGenome examines, so their effects fall outside what the model can see (NeoScienceHub, 2026).
The next twenty years of precision medicine will be shaped less by any single sequencing technology than by how quickly reference databases like this one become the substrate that all downstream tools assume exists. AlphaFold did that for structural biology between 2021 and 2025: a problem that used to take a graduate student a year collapsed into something a high schooler could look up. AlphaGenome Atlas has now attempted the same move for the rest of the genome. Whether it actually accelerates diagnoses and mechanism discovery at scale will not be settled in the press release; it will be settled in the next five years of clinical genetics journals, where the question of how often a researcher who never had to run the model themselves first ends up reading the right page of the answer.
Relativistic Effects on Proof-of-Work Based Cryptocurrency Protocols
Abstract
The blogpost explores relativistic effects on proof-of-work based cryptocurrency protocols. Cryptocurrencies are here to stay and it is quite plausible that future human colonists spread across the solar system and beyond will use a decentralized cryptocurrency as opposed to a fiat currency issued by a central authority. The low transaction fees, the ubiquitous access, not being bound by exchange rates or interest rates, not being controlled by financial institutions who are serving foreign interests -- these are some of the advantages cryptocurrencies will enjoy in the thriving exo-economy.
Motivation
At present, on a cryptocurrency network, the information exchanged by the nodes in the network reaches each node almost instantaneously. The speed at which the TCP/IP packets travel on the network and the fact that the Internet spans only the Earth and the LEO makes this possible. However, once the region the network is spread across will reach certain boundaries, the network size would have negative impact on the network: increasing communication failures due to network delays, more frequent and longer blockchain forks as part of the proof-of-work protocol, network segregation into local sub-networks (let us call them topological forks), just to name a few.
Nullius in verba... as they say. Let's go deeper into details and figure out a feasible solution for a truly interplanetary cryptocurrency.
Cryptocurrency 101
You can think of a cryptocurrency as a digital money ecosystem. Plain and simple. A collection of technologies are part of this ecosystem, all of them the result of years of research in the cryptography and distributed systems fields: a decentralized network of computers, a public transaction ledger -- also known as a blockchain, a protocol that consists of a set of rules for transaction validation, a decentralized consensus mechanism. [ANTO]
A decentralized network of computers ensures the resilience of the network. We can think of both computing power and data storage capabilities. As the computing power is distributed across the network, any disruption can be successfully handled by the network. Transaction data resides on all nodes of the network. This implies that even physical damage done to network nodes will not take out the network.
The blockchain is a public distributed ledger which stores all transactions handled by the network. As the name suggests, the blockchain is a list of data blocks. Each of these blocks contains a set of transactions, as many as can fit in the block, given the maximum size of the block (a characteristic of the network). Transactions contain sender and receiver info, and the amount/asset that is changing ownership, and they are broadcasted and added to blocks by network nodes. Blocks are linked to the previous block in the chain by a cryptographic hash (the hash of the previous block becomes part of the current block). This backward link leads all the way to the first block in the chain, the Genesis block. Each cryptocurrency blockchain has one. The cryptographic hashes have an important role in protecting the blockchain from tampering attempts.
The transaction validation rules enforced by the nodes in the network ensure that the content of each block in the blockchain is valid. By far, the most frequent form of fraud is double spending. The validation process makes sure that the inputs on the transactions exist and that they have not been already spent. The transactions marked as invalid are rejected by the network and do not make it on the blockchain.
The consensus mechanism is designed so that all the nodes in the network can agree on the set of transactions to be included in the current block. It shifts the authority and the credibility required by a central clearing house to a network of nodes. Important to mention here that, inherently, the nodes do not trust each other, and they do not have to because the trust is enforced by the consensus mechanism itself.
The Proof-of-Work
We mentioned above that one of the key innovations that make cryptocurrencies possible is the decentralized consensus mechanism. Currently, the de facto consensus mechanism is the proof-of-work.
The proof-of-work consensus mechanism was proposed by Satoshi Nakamoto in 2008 [NAKA]. In general, a proof-of-work is a piece of data that requires costly and time consuming computational effort, but it is very easy to verify. A very good analogy is one of your semester projects in college... it takes you a whole semester to finalize it, but it takes very little time and effort for your supervisor to evaluate and grade it. Similarly, proof-of-work is used by cryptocurrencies for block generation. For the network to accept the block, nodes must complete a proof-of-work which also guarantees the integrity of the transactions included in the block. The difficulty of the proof-of-work is adjusted by the network so that a new block can be generated every fixed time interval. This fixed time interval is characteristic to every cryptocurrency. Most notably, for Bitcoin this time interval is set to 10 minutes.
Satoshi Nakamoto's solution, emobodied by the proof-of-work algorithm above, achieves consensus on the network without a central trusted authority (hence the name decentralized consensus mechanism).
Enter the Ansible
For the astute reader, it is quite obvious at this point that communication delays between the network nodes have a direct effect on the protocol described above. An important assumption made when the protocol was designed is that these delays are small, and this is why they can be handled by the network when the nodes choose to follow and validate the blocks on the longest blockchain fork. Also, this is the reason why all the nodes in the network can have a say in the network consensus. They all can find a solution for the current block, and they all can be rewarded when they find the solution. The communication delays witnessed by the peripheral nodes will cripple their ability to find solutions and these nodes will not be incentivized to remain in the network. Hence, the segregation of the network effect mentioned earlier.
Unfortunately, given the current technological level of our civilization, we do not have at our disposal a technology that allows us to communicate fast and reliable over the large expanse of space. It would take a hell of a wait time to proces a payment made by a mining corporation in the TRAPPIST-1 system, 12 parsecs within the constellation of Aquarius, to a planetary engineering corporation located in the Sol system... twice 39 years plus the block confirmation time.
Fortunately, the Sci-Fi literature already offers a solution for our problem. For those of you, Sci-Fi nerds like myself, that have already read Rocannon's World [LEGU] and Ender's Game [CARD], the Ansible device must sound very familiar. The ansible is a fictional device capable of faster-than-light communication. To word this differently, an operator of such device can send and receive messages to and from another device over any distance with no delay.
Hence, even if only in the realm of science fiction, we will be able to devise a solution for the problem that the future cryptocurrency enthusiasts, living in the outer space colonies, will eventually face.
The Special Relativity Theorem
Before elaborating more on a required upgrade of the network protocol, we have to discuss the special relativity theorem and its implications on how time and distance are perceived in reference systems.
Albert Einstein was awarded the Nobel Prize in Physics in 1921. He received it for his contributions to the understanding of the photoelectric effect, after publishing a paper on it in 1905. At that point his contributions to the understanding of gravity through his theory of relativity were well known, but the new perspective on gravity offered by Einstein's theory was so controversial that the Nobel Prize Committee members chose to protect their reputation. They decided that it was appropriate to award Einstein the Nobel Prize for "his services to theoretical Physics, and especially for his discovery of the law of the photoelectric effect."
During his research Einstein attempted to reconcile the principle of relativity with the principle of the constancy of the velocity of light. This attempt led Einstein to the discovery of the special relativity theorem. Einstein's Gedankenexperiment (thought experiment) with a test subject travelling by train is very well known in the scientific community. If our human subject is walking towards the front of the train with velocity w with respect to the train, and the train is moving with velocity v with respect to the embankment, then an observer on the embankment will measure as W = v + w the velocity of our subject on the train. If instead of our traveller, we consider a beam of light propagating with velocity c, the velocity measured by the observer on the embarkment would be v + c. However, this violates the principle that the velocity of light is constant in any inertial reference system and equal with c. Einstein found a solution for this problem and thus resolved the incompatibility.
One direct consequence of the special relativity theorem is the Lorentz transformation.
Before the relativity theorem, time in physics had an absolute significance, independent of the state of motion of the reference system. However, every inertial reference system has its own particular time. We always have to be told which inertial reference system the statement of time refers to. If you look at your watch, the time you read is the time as measured in the Earth inertial reference system. By the way, the Earth circles the Sun on an almost circular orbit, which means that any body maintaining a constant position in the Earth reference system should experience some centripetal force. However, this centripetal component is negligible compared to the gravitational pull of the Earth. Hence, engineers use this aproximation when calculating satellite orbits.
Back to our original trail of thoughts... the axiom that lays the foundation for the Lorentz transformation states that every ray of light possesses the velocity of transmission c relative to any inertial reference system. That is the velocity of transmission in vacuo (in a vacuum).
If following Einstein's thought experiments [EINS], the above-mentioned axiom leads to a set of four equations that explain the relation between dimensional and temporal coordinates in two inertial reference systems:
x' = (x - vt)/sqr(1 - v2/c2)
y' = y
z' = z
t' = (t - x*v/c2)/sqr(1 - v2/c2)
where:
x, y, z, t coordinates in inertial reference system K,
x', y', z' , t' coordinates in inertial reference system K',
v the relative velocity between inertial reference systems;
also, the expression 1//sqr(1 - v2/c2) is known as the Lorentz factor.
The Lorentz transformation equations are a more general case of the Galilean transformation:
x' = x - vt
y' = y
z' = z
t' = t
which is the basis of the assumptions of the classical mechanics as to the absolute character of both dimensional and temporal coordinates. The above are the result of replacing velocity c with ∞ in the Lorentz transformation equations.
The Lorentz transformation has a few corollaries which have an impact on time dilation, length contraction, relativistic mass, relativistic momentum, and relativistic kinetic energy. The one that concerns us is the time dilation corollary:
Δt = γΔt'
where γ is defined by
α = 1/γ = sqr(1 - v2/c2)
Assuming a clock at rest in inertial reference system K, and moving with the velocity v in the inertial reference system K', the time Δt' between two ticks as measured in the frame K' is longer than the time Δt between the same ticks as measured in the rest frame of the clock, K.
Relativistic Effects on Proof-of-Work
To better understand the relativistic effects on how relative time is perceived in two inertial reference systems (or Galilean reference systems [EINS]) we have to mention the twin paradox. The twin paradox is a thought experiment that involves two identical twins. One of the twins makes a journey into space onboard a relativistic spaceship, and upon his return to Earth discovers that his twin has aged much more than he did. Depending on how fast the spaceship moves through space and/or how long the journey was, our traveller could return to Earth and realize that several generations have passed meanwhile.
As a direct application of the twin paradox, we have Mazer Rackham, International Fleet Admiral and Ender Wiggin's mentor, as portrayed by Orson Scott Card [CARD]. The fighter pilot who destroyed the Formic Fleet Flagship, killed the Hive Queen, and ended the Second Formic Invasion, Mazer Rackham is sent on a journey on a relativistic spaceship and returns to Earth 100 years later in order to assist the International Fleet. Upon his return he has barely aged a few years.
Similarly, if a subnetwork is moving relative to the rest of the network, the nodes in the subnetwork would experience time dilation as predicted by the special relativity theorem. Hence, they are at a disadvantage compared to the rest of the nodes because they have less time available to find a solution for the proof-of-work problem. In order to make thing square for all the nodes in the network, the difficulty of the problem should be adjusted in each subnetwork using the Lorentz factor: in order to compensate for time dilation, the relativistic nodes should have to solve a simpler problem. Also, their block confirmation time should decrease as well.
One element is missing still... how do ansibles synchronize? What value has the Lorentz factor for each one of them? One simple solution for this problem is having one of the ansibles (let us say the Earth-bound one) broadcasting a beacon every fixed number of seconds. The ansibles interfacing to subnetworks would pick up the broadcast, and by measuring the time interval between the beacons, infer the Lorentz factor. Once the Lorentz factor is determined, the nodes mining on the subnetworks will have their proof-of-work difficulty and the block confirmation time adjusted accordingly.
A more Down-to-Earth Solution for the Problem
We will fork the storyline (pun intended) at Enter the Ansible paragraph, and suggest a more down-to-earth solution for the problem. The peripheral nodes are not to participate in the consensus. Their function would be just to relay messages (a.k.a. payment information) across the network. In our multi-planetary scenario, the nodes working on the proof-of-work would reside on/around the Earth, and the network nodes on Mars or any other region in the Sol system would have to wait 2x (network packets travel time) + (block confirmation time) in order to confirm a payment. However, such a solution would have an Achilles heel very hard to defend... if starting its mining engine, any peripheral node could take over the local network and force a topological fork of the network. For a node, the incentive of staying honest on the current network must be stronger than any reward obtained by cheating.
Concluding remarks
While the blogpost contains some elements of fiction, it accurately describes the cryptocurrency ecosystem, the special relativity theorem, the Lorentz transformation and its corollaries. We would like to thank the readers that went through this exercise with us. Undeniably, cryptocurrencies are disrupting the global economy and they are here to stay. Undeniably, we -- as a species -- will explore and migrate farther than the LEO. History has taught us that decentralization is the key to survival and prosperity. Let us together make the future happen.
References
[ANTO] Antonopoulos, Andreas M., Mastering Bitcoin, Second Edition, O'Reilly Media, Inc., June 2017;
[CARD] Card, Orson Scott, Ender's Game, A Tor Teen Book, 2014;
[EINS] Einstein, Albert, Relativity, The Special and the General Theory, Princeton University Press, 2015;
[LEGU] Le Guin, Ursula K., Rocannon's World, Harper & Row, 1977;
[NAKA] Nakamoto, Satoshi, Bitcoin - A Peer-to-Peer Electronic Cash System, www.bitcoin.org, 2008;
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