Category: AlphaFold

Junior Sections of FEBS Societies – The AlphaFold Database

To bring together students and young researchers in the molecular life sciences from all over Europe, the Junior Sections of the ÖGMBT (Austria), GBM (Germany), SIB (Italy), NVBMB (the Netherlands) SEBBM (Spain), and the Biochemical Society (UK) have collaborated with FEBS to establish an initiative: the Junior Sections of FEBS…

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AlphaDesign: A de novo protein design framework based on AlphaFold

Abstract De novo protein design is a longstanding fundamental goal of synthetic biology, but has been hindered by the difficulty in reliable prediction of accurate high-resolution protein structures from sequence. Recent advances in the accuracy of protein structure prediction methods, such as AlphaFold (AF), have facilitated proteome scale structural predictions…

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Google Is (Still) Pioneering Artificial Intelligence

Alphabet (NASDAQ: GOOG) (NASDAQ: GOOGL) is best known for its industry-leading search engine, Google. But even though this tool has seen widespread adoption across the globe, most people probably don’t consider the technology under the hood. Google Search leans on artificial intelligence to understand language and deliver more accurate results….

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Protein peptide docking with AlphaFold

Protein peptide docking with AlphaFold Title: Protein peptide docking with AlphaFold SNIC Project: Berzelius-2021-48 Project Type: LiU Berzelius Principal Investigator: Björn Wallner <bjorn.wallner@liu.se> Affiliation: Linköpings universitet Duration: 2021-10-04 – 2022-05-01 Classification: 10601 Keywords: Abstract Proteins are key players in virtually all biological events and accomplish their function as part of…

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White House ‘Bill of Rights’ to Protect Citizens Against AI Technology | Public Comments from AI Developers, Experts, and Affected Needed

Urian B., Tech Times 08 October 2021, 11:10 pm (Photo : Image from Unsplash Website) White House ‘Bill of Rights’ to Protect Citizens Against AI Technology | Public Comments from AI Developers, Experts, and Affected Needed The White House’s new “bill of rights” aims to protect citizens against the danger…

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AlphaFold and Phenix

You can use the predicted models from AlphaFold and other prediction software in Phenix. Using these models can be very helpful in structure determination because the models can be very accurate over much of their length and the models come with accuracy estimates that allow removal of poorly-predicted regions. To…

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Protein complex prediction with AlphaFold-Multimer : patient_hackernews

Welcome to r/patient_hackernews! Remember that in this subreddit, commenting requires a special process: Declare your intention of commenting by posting a pre-comment containing only the single letter R. (This pre-comment will not be visible to others.) Wait 24 hours or more (you will receive a reminder). You can then post…

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Artificial intelligence takes structural biology to the next level

The AI ​​program AlphaFold2 can predict the key characteristics of uromodulin protein filaments. Its cryo-EM structure reveals a complex structure in which one subunit (blue) encloses the other two subunits (teal and magenta). The overall shape of the AI ​​prediction is not the same as the cryo-EM model due to…

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Making Sense of DeepMind’s First-Ever Profit

According to a corporate filing with the UK company registry published on Tuesday, Google-backed artificial intelligence research firm DeepMind turned a profit for the first time last year and saw a significant rise in its revenues. As per the filings, its sales rose by £560 million last year, touching £826…

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See how students fused art and science for stunning 2021 PDB Art project

They are the building blocks of life – and their extraordinary structures have inspired these striking artworks from students in Cambridge and beyond. Each year, art students are invited to create pieces based on the Protein Data Bank in Europe (PDBe) – and this year’s work has gone on display…

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Europe is Moving Towards Facial Recognition Ban | No More Biometrics for Police?

Urian B., Tech Times 06 October 2021, 10:10 pm (Photo : Image from Unsplash Website) Europe is Moving Towards Facial Recognition Ban | No More Biometrics for Police? The official European Parliament has just called for EU lawmakers to now start instituting a ban on law enforcement’s use of facial…

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DeepMind and other AIs: who has the best weather forecast?

The London AI forge DeepMind has a knack for good PR. News that the company has worked with the UK’s national weather service to develop a new, better model for forecasting rainfall has been widely reported. But how much progress is really in the “DGMR”, the “Deep Generative Model of…

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Vortex Fluidic Device Can Manipulate Milk Protein; AlphaFold AI Can Predict Protein Structures

A new artificial intelligence technology (AI) is now capable of predicting protein structures in a human body, according to scientists. The program dubbed as AlphaFold is regarded as one of the breakthroughs in the field of biology. AlphaFold Program’s Capability Through Artificial Intelligence (Photo : Photoholgic from Unplash) Recently, scientists…

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CryoSky – Github Help

Cryosky’s Projects AlloType Methods to predict allosteric regulation type. alphafold Open source code for AlphaFold. alphafold-1 Install alphafold on the local machine, get out of docker. AlphaFold_oligomer The repository for modeling of oligomeric protein structure using AlphaFold. alphafold_pytorch An implementation of the DeepMind’s AlphaFold based on PyTorch for research awsemmd…

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DeepMind AI ‘AlphaFold’ Gets Closer to Perfect Prediction of Protein Folding with Groundbreaking Accuracy

(Photo : Image from Unsplash Website) DeepMind AI ‘AlphaFold’ Gets Closer to Perfect Prediction of Protein Folding with Groundbreaking Accuracy A certain DeepMind AI known as AlphaFold has gotten closer to the perfect prediction of protein folding with groundbreaking accuracy. The DeepMind AI was able to predict the structure of…

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DeepMind Increases The Accuracy Of AlphaFold, With A New Release

Alphabet-owned research firm DeepMind has introduced AlphaFold-Multimer, a model that can predict the structure of multi-chain protein complexes. The new model significantly increases the accuracy of predicted multimeric interfaces over input-adapted single-chain AlphaFold while maintaining high intra-chain accuracy.  A majority of well-structured single protein chains could be easily predicted using…

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DeepMind Introduce AlphaFold-Multimer to Predict Multi-Chain Protein Complexes with Better Accuracy

The London-based AI research firm DeepMind has introduced AlphaFold-Multimer, a model that can predict the structure of multi-chain protein complexes with increased accuracy. The recent AlphaFold model can accurately predict many single protein chains. However, in many cases, the prediction of multi-chain protein complexes remains a challenge. Compared to the…

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AlphaFold on AWS metrics

AlphaFold on AWS metrics 0 Hi all, I was wondering if anyone can share metrics for runtime of AlphaFold on different AWS machines. Just looking to get some idea of how long analysis might take. Thanks, Joe AlphaFold AWS • 12 views • link 2 hours ago by joe &utrif;…

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Promise of Digital Engineering: How it will revolutionize

One instantiation of the concept of Digital Engineering is the digital twin, a digital model of a physical machine/product, connected to the physical product through data collected using sensors. By Sarabjot Singh Anand and Anirban Chakraborti,  What is Digital Engineering? In the mid-1990’s, an aircraft manufacturer in Northern Ireland had…

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Deepfake Technology May Be The Future Of Short-Term Weather Forecasting

This new tool uses the same technology as deepfakes to create “fake” weather predictions, which are more accurate than any other method to date. DeepMind, the AI company behind revolutionary protein structure-predicting tool, AlphaFold, has set its eyes on another difficult science problem: weather forecasting. While longer-term forecasting has been…

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40th Anniversary Recollections & Predictions

To help celebrate GEN’s 40th Anniversary with this special October issue, we asked scientists and business professionals in academia and industry to give us their reflections, impressions, and insights on the biotechnology industry and the life sciences. We also queried them on what they believe the future might look like…

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Protein complex prediction with AlphaFold-Multimer

Abstract While the vast majority of well-structured single protein chains can now be predicted to high accuracy due to the recent AlphaFold [1] model, the prediction of multi-chain protein complexes remains a challenge in many cases. In this work, we demonstrate that an AlphaFold model trained specifically for multimeric inputs…

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AlphaFold2.ipynb on Colab running out of memory

AlphaFold2.ipynb on Colab running out of memory 1 I am trying to run a ~800 residues protein (WP_086691035.1 colicin uptake protein [Nostoc sp. T09]) through the AlphaFold2 ipython notebook on colab. However, I am running out of memory. Shorter sequences work fine and I remember running a sequence of similar…

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Download AlphaFold 2 is amazing but protein folding is still not solved | Dmitry Korkin and Lex Fridman Mp3 (17:30 Min)

Download AlphaFold 2 is amazing but protein folding is still not solved | Dmitry Korkin and Lex Fridman Mp3 (17:30 Min) – prodman RadioprodmanБесплатно преузмите Стреаминг Сонгс Lex Fridman Podcast full episode: youtube.com/watch?v=I51DuprOb0oPlease support this podcast by checking out our sponsors:– Brave: brave.com/lex– NetSuite: netsuite.com/lex to get free product tour–…

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Unable to locate package cuda-command-line-tools – TensorRT

Description Hi! I would like to get some help while building the docker file in AlphaFold2. when I execute the command following sudo docker build -f docker/Dockerfile -t alphafold . I got the following error. Get:22 archive.ubuntu.com/ubuntu focal-backports/main amd64 Packages [2668 B] Fetched 19.7 MB in 6s (3575 kB/s) Reading…

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DeepMind’s AI predicts almost exactly when and where it’s going to rain

First protein folding, now weather forecasting: London-based AI firm DeepMind is continuing its run applying deep learning to hard science problems. Working with the Met Office, the UK’s national weather service, DeepMind has developed a deep-learning tool called DGMR that can accurately predict the likelihood of rain in the next 90…

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Download Alphafold from SourceForge.net

Alphafold Overview Open source code for AlphaFold This package provides an implementation of the inference pipeline of AlphaFold v2.0. This is a completely new model that was entered in CASP14 and published in Nature. For simplicity, we refer to this model as AlphaFold throughout the rest of this document. Any…

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bioinformatics jobs salary uk

However, salaries vary based on a wide range of factors, including the engineer’s experience. Jobs and careers | European Bioinformatics Institute. Four year fixed term contract. National average salary: $23.92 per hour. The national average salary for a Bioinformatics is £40,135 per year in United Kingdom. $82,220 (for biological scientists…

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A Confused Chemist’s Review of AlphaFold 2

Contents (This article was originally going to be titled “A Chemist’s Review of AlphaFold 2”) Most of the protein chemists I know have a dismissive view of AlphaFold. Common criticisms generally refer to concerns of “pattern matching”. I wanted to address these concerns, and have found a couple of concerns…

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A structural biology community assessment of AlphaFold 2 applications

Abstract Most proteins fold into 3D structures that determine how they function and orchestrate the biological processes of the cell. Recent developments in computational methods have led to protein structure predictions that have reached the accuracy of experimentally determined models. While this has been independently verified, the implementation of these…

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Protein design based on alphafold2

reference : Using AlphaFold for Rapid and Accurate Fixed Backbone Protein Design author : Wu Weikun 1. Preface : With alphafold2 The success of breakthrough prediction of protein structure , Academia also began to explore how to use it for high-precision protein sequence design . This article gives a quick…

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Singularity Definition – Deepmind/Alphafold

Hello in order to tun the downlaod scripts from the containeraria2 and rsync should be installedesay fix, see above diff. not sure it worth providing a patch 😉 packbuilder:alphafold/alphafold-v2.0.0 > diff -u Singularity.def alphafold-v2.0.0.recipe — Singularity.def 2021-09-23 17:13:49.019136000 +0200 +++ alphafold-v2.0.0.recipe 2021-09-23 17:13:29.162525000 +0200 @@ -41,6 +41,8 @@ kalign tzdata…

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RuntimeError: Resource exhausted – Deepmind/Alphafold

Hi, I was trying to fold a large complex with over 7,000aa in total. I ran the job on our cluster with the following settings: 460G RAM, 48 CPUs, but the job failed in the end because of the following error: RuntimeError: Resource exhausted: Out of memory while trying to…

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alphafold 2 – Opera News

DeepMind’s AlphaFold 2 reveal: Convolutions are out, attention is in We know a lot more about how AlphaFold 2 works, but the mystery of why proteins fold the way they do remains something of a mystery. DeepMind, the AI unit of Google that invented the chess champ neural network AlphaZero…

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AI Unlocks Secret of Human Biology

Article By : Sally Ward-Foxton The knowledge bank shared by DeepMind is no small gift to the scientific community. Following the news earlier this year that Google’s AI arm, DeepMind, had developed an AI that had cracked the protein-folding problem, DeepMind has made the 3D shapes of more than 350,000…

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Big Tech & Their Favourite Deep Learning Techniques

Every week, the top AI labs globally — Google, Facebook, Microsoft, Apple, etc. — release tons of new research work, tools, datasets, models, libraries and frameworks in artificial intelligence (AI) and machine learning (ML).  Interestingly, they all seem to have picked a particular school of thought in deep learning. With…

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Alpha Fold Colab Pro not working

I have been using the colab notebook version with success to generate several structures thus far. Today It has stopped working. I am using colab pro with a high ram runtime and have done a factory reset all. Everthing seems good until I search against genetic databases. The following is…

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protti source: R/fetch_alphafold_prediction.R

#’ Fetch AlphaFold prediction #’ #’ Fetches atom level data for AlphaFold predictions either for selected proteins or whole #’ organisms. #’ #’ @param uniprot_ids optional, a character vector of UniProt identifiers for which predictions #’ should be fetched. This argument is mutually exclusive to the code{organism_name} argument. #’ @param…

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Bottom-Up Proteomics and LiP-MS Quality Control and Data Analysis Tools

Peptides are mapped onto PDB structures or AlphaFold prediction based on their positions. This is accomplished by replacing the B-factor information in the structure file with values that allow highlighting of peptides, protein regions or amino acids when the structure is coloured by B-factor. In addition to simply highlighting peptides,…

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Precomputed secondary structure prediction from sequence

Precomputed secondary structure prediction from sequence 2 Hi, Most services that predict secondary structure from sequence, such as psipred, have an online webserver or a program you’d have to run locally (which would take quite a bit for a whole proteome). e.g. bioinf.cs.ucl.ac.uk/psipred/result/0fc9a438-c3d8-11e3-a745-00163e110593 I was wondering if anyone knew a…

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deepmind alphafold github

The program handily beat all competitors, in what one . This will allow us to run alphafold only using CPU ( which is what our VM has). From the developers’ original publication: “The provided inference . The AlphaFold method. Found insideThis book constitutes the refereed proceedings of the First International…

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Install alphafold on the local machine, get out of docker.

AlphaFold This package provides an implementation of the inference pipeline of AlphaFold v2.0. This is a completely new model that was entered in CASP14 and published in Nature. For simplicity, we refer to this model as AlphaFold throughout the rest of this document. Any publication that discloses findings arising from…

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Open multi-file AlphaFold models | ChimeraX Recipes

# # Open AlphaFold database models for proteins larger than 1400 amino acids. # These calculated in 1400 amino acid segments every 200 amino acids due to # limitations (GPU memory) of the AlphaFold software. We load and align # the segment models. This produces many clashes. # # Opening…

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3D-Beacons Network: protein structure data, all in one place

3D-Beacons Network acts as a one-stop shop for protein structures by combining and standardising data from several providers Cryo-EM structure of the BRCA1-UbcH5c/BARD1 E3-E2 module bound to a nucleosome. Image obtained from PDBe A new platform called 3D-Beacons Network brings together experimentally determined and predicted protein structure models and related…

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alphafold colab github

for the third time worked! Found inside – Page iiThe eight-volume set comprising LNCS volumes 9905-9912 constitutes the refereed proceedings of the 14th European Conference on Computer Vision, ECCV 2016, held in Amsterdam, The Netherlands, in October 2016. Please make sure you have a large enough hard drive space, bandwidth…

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highly accurate protein structure prediction with alphafold

In: StatPearls [Internet]. team at our virtual booth on the exhibitor tab. Published online 22 07; DOI: 10.1038/s41586-021-03819-2. Extended Data Fig. Found insideAn important feature of this work is the S-plus subroutines provided for analyzing actual data sets. Coupled with the discussion of new theoretical research, the book should benefit…

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rosetta fold vs alphafold 2

S. Both AlphaFold and Xu use simple folding engines L-BFGS (L- Broyden–Fletcher–Goldfarb– Shanno (BFGS)) and CNS (Crystallography and NMR System), respectively, i.e., improvements come from a better energy potential using distributional information. The phase problem is a problem, to the point that in the past decade, several structures, such as M-PMV…

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DABUS: An AI inventor or the Emperor’s New Clothes?

The question of whether it should be possible to name artificial intelligence (AI) code as an inventor on a patent application continues to dog patent offices and courts around the world. However, despite the global attention on the so-called “AI inventor” patent applications, we are no nearer to understanding how…

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Alphafold News – DeepMind and EMBL release the most complete database of,

Jul 22, 2021Jul 22, 2021Jul 22, 2021Dec 03, 2018 · “The AlphaFold database is a perfect example of the virtuous circle of open science,” said EMBL Director General Edith Heard. “AlphaFold was trained using data from public resources built by the …Jul 15, 2021 · reply. pjfin123 32 minutes ago [–]…

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Could protein engineers have built the next billion pound pharma company?

Peptone is using science to build the world’s first protein engineering operating system, combining AI with computational molecular physics. Above, a 3D illustration of proteins. Photo: Getty Life comes at you fast. At one point Peptone, a computational biophysics company, had been rejected by more than 150 investors. Now, it…

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US must not only lead in artificial intelligence, but also in its ethical application

Artificial intelligence (AI) is sometimes referred to as a herald of the fourth industrial revolution. That revolution is already here. Whenever you say “Hey Siri” or glance at your phone in order to unlock it, you’re using AI. Its current and potential applications are numerous, including medical diagnosis and predictive…

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Apply for AlphaFold DB Full-Stack Web Developer in Essex

We are looking for a full-stack web developer interested in structural biological data and predicted structures in the AlphaFold Protein Structure Database (AlphaFold DB) to join the Velankar team at the European Bioinformatics Institute (EMBL-EBI). This is an exciting opportunity to work as part of EMBL and DeepMind’s new partnership…

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AlphaFold: A Special Issue and a Special time for Protein Science

Highly accurate protein structure prediction with AlphaFold. Jumper J, Evans R, Pritzel A, Green T, Figurnov M, Ronneberger O, Tunyasuvunakool K, Bates R, Žídek A, Potapenko A, Bridgland A, Meyer C, Kohl SAA, Ballard AJ, Cowie A, Romera-Paredes B, Nikolov S, Jain R, Adler J, Back T, Petersen S, Reiman…

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highly accurate prediction with AlphaFold

Posted on 10 September, 202110 September, 2021 This month our attention is turned into structural biology and the revolution on protein structure prediction. How machine learning can boost structural biology understanding? Twenty years after the human genome sequencing, AlphaFold revolutionizes the “3D fields” with the release of 350 000 models for almost all human…

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AlphaFold Protein Structure Database for Sequence-Independent Molecular Replacement

Abstract Crystallographic phasing recovers the phase information that is lost during a diffraction experiment. Molecular replacement is a dominant phasing method for the crystal structures in the protein data bank. In one form it uses a protein sequence to search a structure database for finding suitable templates for phasing. However,…

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Researcher in genome, protein, and chemical bioinformatics job with Syntekabio

Researchers in genome, protein, and chemical bioinformatics Location: New York, NY, USA Syntekabio is a company specializing in the development of new AI drugs based on genome big data in South Korea. In particular, we are preparing for a leading role in precision medicine with a competitive supercomputing environment and…

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What No One Is Talking About

In this next installment of our AlphaFold Series, we look at the potential drawbacks and limitations of the approach. There is no doubt that AlphaFold is a breakthrough in protein structure prediction, and we have commented on some of the exciting opportunities it presents. In mid-Aug 2021, two weeks after…

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Machine learning accurately predicts RNA structures using tiny dataset | Research

A team of biochemists and computer scientists has developed a new way to accurately predict the three-dimensional structures of RNA molecules, using an artificial intelligence system trained with a small number of known RNA shapes. Experts have hailed the development as a significant improvement in the challenge of computationally predicting…

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Researchers Fuse Nano Camera, Molecular Glue For Real-time Observation of Chemical Reactions

Through a molecular glue that was stuck in a tiny camera, the University of Cambridge researchers have created a device that can view the behavior of chemicals during real-time reactions. Scientists Develop Device For Observation of Chemical Reaction (Photo : Alex Kondratiev from Unsplash)Scientists from the University of Cambridge have…

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What to do with a bunch of AlphaFold2 structures?

What to do with a bunch of AlphaFold2 structures? 1 I’ve ended up with the structures of a dozen or so proteins predicted by AlphaFold2 by happenstance. The proteins are all orthologs. The provenance of the sequences is transcriptomic (de novo assemblies, to be specific). I’d like to try and…

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Feedback | AlphaFold DB Full-stack Web Developer

Please use this form to: tell us if you think the advert is not categorised correctly tell us if it has any spelling errors report any broken links to external sites Please do not use this form to: request further information regarding the post – please use the contact information…

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Alphafold on the cover of nature again! Unlock 98.5% of the human proteome, which is as important as the human genome

After a month ,AlphaFold Board again nautre, Or the cover ! Last month, ,DeepMind Open source AlphaFold2, And published the data set , Realized the human 98.5% Proteome prediction . This week ,AlphaFold Reprint Nature, cover ! The last time distance 「 Shuangdeng 」Nature Just a month . open Nature,…

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Another breakthrough after AlphaFold!Challenge the problem of RNA structure prediction, new AI technology is coming

Determining the three-dimensional structure of biomolecules is one of the biggest challenges in modern biology. Traditionally, pharmaceutical companies and research institutions often spend millions of dollars to determine the structure of a molecule, but even with such a large investment, they often fail. AlphaFold on the cover of Nature magazine…

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DeepMind has unlocked protein-based medicine – what does that mean for drug patents?

Biology, the study of life, is largely the study of proteins. Unlike small chemical molecules, these proteins move, grow, contract, and interact; folding and unfolding in a complicated dance driven by code that has largely stumped scientists until now. In December, DeepMind stunned the world by proving it could solve…

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Alphafold for protein complex : bioinformatics

I have Alphafold running on our computing cluster, and it’s working great for single proteins. I notice their is a Google Colab notebook with ‘advanced’ settings which allows you to input multiple protein chains separated by “:”. I tried this for a heterodimer, and it works well; however when I…

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DeepMind releases a large database of 3D protein structures

WWith the advent of cheap gene sequencing, the world of biology is flooded with 2D data. Today, artificial intelligence is pushing the field up in three dimensions. On Thursday, Alphabet’s AI costume, DeepMind, used the precision deep learning model AlphaFold2 to capture the 3D structure of 350,000 proteins from the…

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Without Code for DeepMind’s Protein AI, This Lab Wrote Its Own

Unbeknownst to them, at DeepMind, an extensive scientific paper detailing their system was already under review at Nature, according to John Jumper, who leads the AlphaFold project. DeepMind had submitted their manuscript to Nature on May 11. At that point, the scientific community knew little about DeepMind’s timeline. That changed…

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Protein-structure prediction revolutionized

Most proteins self-assemble into specific 3D structures that, together with other biological molecules, determine the function and behaviour of cells. Over the past five decades, biologists have experimentally determined the structures of more than 180,000 proteins and deposited them in the Protein Data Bank1, a freely available online resource. Despite…

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alphafold – Bing

AlphaFold is an artificial intelligence (AI) program developed by Google’s DeepMind which performs predictions of protein structure. The program is designed as a deep learning system. AlphaFold AI software has had two major versions. A team of researchers that used AlphaFold 1 (2018) placed first in the overall rankings of…

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Google’s DeepMind has opened its AlphaFold protein structure database to the world

Google’s DeepMind has opened an enormous protein structure database up to citizens of the Internet Angus Stewart | 08/21/2021 | Hot Topic Google’s AI subsidiary, DeepMind, has taken another great leap forward in science, business, and open sourcing by releasing both their AlphaFold algorithm source code and their protein structure…

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Deep learning opens up protein science’s next frontiers

Credit: Ian Haydon, Institute for Protein Design At their heart, proteins are just polymers: linear chains of amino acids drawn from a library of 20 or so possibilities. But unlike synthetic polymers, which tend to contort randomly, proteins reliably fold into characteristic three-dimensional shapes. The diversity of those shapes gives…

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Banking on protein structural data

PHOTO: WENDIE BERG In 1953, the proposed structure of DNA magnificently linked biological function and structure. By contrast, 4 years later, the first elucidation of the structure of a protein—myoglobin, by Kendrew and colleagues—revealed an inelegant shape, described disdainfully as a “visceral knot.” Additional complexity, as well as some general…

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AI’s human protein database a ‘great leap’ for research

by Patrick Galey Paris – Scientists recently unveiled the most exhaustive database yet of the proteins that form the building blocks of life, in a breakthrough observers said would “fundamentally change biological research”. Every cell in every living organism is triggered to perform its function by proteins that deliver constant…

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What’s Wrong With Limiting Transformers To Just Language Models

Three years back, Google introduced Transformer, a novel neural network architecture. Modelled on the self-attention mechanism and best suited for language understanding, transformers could outperform both recurrent and convolutional neural network models.  Transformers perceive the entire input sequences simultaneously. The process depends on transforming one sequence into another, like the…

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How does AlphaFold help drug discovery? : biotech

AlphaFold is awesome and is a step forward in protein structure prediction, but I see many articles claiming that it will help discover better medicines. How exactly does predicting a protein structure help discover better medicine? Could someone with experience please explain exactly how it helps? I know drugs fit…

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A Specific Example of How AlphaFold 2 From DeepMind Could Help Us Achieve Immortality

I think SENS did this last year but now AlphaFold2 will make it easier and faster. Hey it’s Han from WrySci HX discussing how breakthroughs in the protein folding problem by AlphaFold 2 from DeepMind could combine with the SENS research foundation’s approach of allotopic mitochondrial gene expression to fight…

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AlphaFold! Protein Folding, Beyond The Hype

With @Vijaypande @Smc90 We Cover The News Around Google DeepMind's AlphaFold System Outperforming All Others In The 14th Biennial CASP … Source link

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Silvertuesday.com – AlphaFold 2 & Equivariance

In particular, AlphaFold is not expected to produce an unfolded protein structure given a sequence containing a destabilising point mutation. Where a … Source link

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The Drug Discoverer – Reflecting on DeepMind’s AlphaFold artificial intelligence success – what’s the real significance for protein folding research and drug discovery?

Last month, DeepMind published the much anticipated, detailed methodology underlying the latest version of AlphaFold – the UK-based science company’s powerful AI system that blew away its rivals in the latest major competition to predict the 3D structure of proteins. AlphaFold’s machine learning methodology has been applied to predict structures…

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Answer: alphafold online availability and use case

1. There is no need for heavy-duty methods such as AlphaFold2 (AF2) in all cases. It is very unlikely that you have 1500 sequences that only have domains of unknown function, and even if you do, there were successful structure prediction servers in existence before AF2. So even though what…

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Comment: alphafold online availability and use case

Not my area of expertise particularly but; 1. I don’t think you can use a structure prediction tool to really ‘validate’ HMMER predictions. I’m pretty sure most structure predictors are relying on HMMER or similar HMM based approaches (Martin told me AlphaFold leans on HHBlits API calls for example). I…

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alphafold online availability and use case

I’m new to both protein structure prediction and the use of AI-based tools like Alphafold2 or RoseTTAFold. And I have a few questions: **1.** Is it possible to use structure prediction by AlphaFold2 to **validate** HMMER based domain sequence predictions? If yes, what would be the steps? I have some…

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AI protein database reveal is ‘a great leap’ for biology

The transformative AlphaFold neural network has predicted the structures of more than 350,000 proteins from various organisms. This could “fundamentally change biological research.” It has taken a very long time for scientists to determine proteins experimentally  Scientists on Thursday unveiled the largest database yet of human and other proteins that…

Continue Reading AI protein database reveal is ‘a great leap’ for biology