Do Nature do embarrassment? H
> On 14 May 2024, at 10:54, Frank von Delft > <0000bcb385fe5582-dmarc-requ...@jiscmail.ac.uk> wrote: > > What we really need is a tweet from Nature, declaring their embarrassment at > having been suckered into becoming DeepMind's advertising arm. > > > On 14/05/2024 01:56, Paul Adams wrote: >> >> The letter may have had (or helped have) an impact already: >> >> On X today from Pushmeet Kohli @ DeepMind >> >> "We love the excitement & results from the community on AlphaFold 3 and are >> doubling the AF Server daily job limit to 20. Happy to also share that we're >> working on releasing the AF3 model (incl weights) for academic use, which >> doesn’t depend on our research infra, within 6 months". >> >> >>> On May 13, 2024, at 11:11 AM, Wankowicz, Stephanie >>> <0000d0e1738c7100-dmarc-requ...@jiscmail.ac.uk> wrote: >>> >>> If it does what it claims – incredibly impressive. The issue we have is >>> there is no way to verify or validate the claims it is making. >>> >>> The letter is a call and start of a conversation about how the >>> ever-changing landscape of communication and publication of science should >>> be. >>> >>> -Stephanie Wankowicz >>> From: CCP4 bulletin board <CCP4BB@JISCMAIL.AC.UK> on behalf of Krieger, >>> James M <krieg...@pitt.edu> >>> Sent: Monday, May 13, 2024 10:22 AM >>> To: CCP4BB@JISCMAIL.AC.UK <CCP4BB@JISCMAIL.AC.UK> >>> Subject: Re: [ccp4bb] Fwd: AlphaFold3 Transparency and Reproducibility >>> >>> This Message Is From an External Sender >>> This message came from outside your organization. >>> It definitely is impressive but it also has clear limitations >>> >>>> On 13 May 2024, at 15:22, Sylvia Fanucchi >>>> <0000d0c4e77ae410-dmarc-requ...@jiscmail.ac.uk> wrote: >>>> >>>> >>>> >>>> You don't often get email from >>>> 0000d0c4e77ae410-dmarc-requ...@jiscmail.ac.uk. Learn why this is important >>>> >>>> Is it just me who is really impressed by it? Am I missing something? >>>> >>>> Get Outlook for Android >>>> From: CCP4 bulletin board <CCP4BB@JISCMAIL.AC.UK> on behalf of Rafael >>>> Marques <rafael_mmsi...@hotmail.com> >>>> Sent: Monday, May 13, 2024 3:13:16 PM >>>> To: CCP4BB@JISCMAIL.AC.UK <CCP4BB@JISCMAIL.AC.UK> >>>> Subject: Re: [ccp4bb] Fwd: AlphaFold3 Transparency and Reproducibility >>>> >>>> I tried it yesterday and I was really shocked by how fast it is. When I >>>> was preparing to submit my second job, the first one was already finished, >>>> which made me think that I was definitely doing something wrong. Probably >>>> I was... >>>> >>>> Best wishes >>>> >>>> Rafael Marques >>>> >>>> >>>> On 13 May 2024 09:53, Harry Powell >>>> <0000193323b1e616-dmarc-requ...@jiscmail.ac.uk> wrote: >>>> Hi folks >>>> >>>> This arrived in my inbox this morning, and I believe that it may provoke >>>> some discussion… >>>> >>>> Wikipedia tells me: στέργει γὰρ οὐδεὶς ἄγγελον κακῶν ἐπῶν >>>> >>>> Best wishes! >>>> >>>> Harry >>>> >>>> > From: Stephanie Wankowicz <mullane.stepha...@gmail.com> >>>> > Sent: Saturday, May 11, 2024 3:31 PM >>>> > To: James Fraser <jaimefra...@gmail.com>; Pedro Beltrao >>>> > <pedrobelt...@gmail.com>; Benjamin Cravatt <crav...@scripps.edu>; Roland >>>> > Dunbrack <roland.dunbr...@gmail.com>; Anthony Gitter >>>> > <git...@biostat.wisc.edu>; Kresten Lindorff-Larsen <lindo...@bio.ku.dk>; >>>> > Sergey Ovchinnikov <s...@mit.edu>; Polizzi, Nicholas F. >>>> > <nicholasf_poli...@dfci.harvard.edu>; Brian Shoichet >>>> > <bshoic...@gmail.com> >>>> > Subject: AlphaFold3 Transparency and Reproducibility >>>> > >>>> > >>>> > This email from mullane.stepha...@gmail.com originates from outside >>>> > Imperial. Do not click on links and attachments unless you recognise the >>>> > sender. If you trust the sender, add them to your safe senders list >>>> > <https://spam.ic.ac.uk/SpamConsole/Senders.aspx> to disable email >>>> > stamping for this address. >>>> > >>>> > Hello, >>>> > >>>> > >>>> > As many of you, we were incredibly disappointed with the lack of code >>>> > or even executables accompanying the publication of AlphaFold3 in >>>> > Nature. AlphaFold3 was released without the means to test and use the >>>> > software in a high-throughput manner. This does not align with the >>>> > principles of scientific research, which rely on the ability of the >>>> > community to evaluate, use, and build upon existing work. >>>> > >>>> > >>>> > >>>> > We have written a letter, which will be posted on Zenodo and >>>> > submitted as a Letter to the Editor in the coming days. >>>> > >>>> > >>>> > >>>> > Please see the entire letter here. >>>> > <https://docs.google.com/forms/d/e/1FAIpQLSf6ioZPbxiDZy5h4qxo-bHa0XOTOxEYHObht0SX8EgwfPHY_g/viewform?usp=sf_link> >>>> > If you want to endorse this letter, please fill out your name, >>>> > affiliation, and email in the form. >>>> > >>>> > >>>> > >>>> > Additionally, a PDF version of the letter can be found here >>>> > <https://drive.google.com/file/d/1u1D3KzsllpI_6I0drA9RdIiENd9EK1Hz/view?usp=sharing>. >>>> > >>>> > >>>> > >>>> > Thank you, >>>> > >>>> > >>>> > >>>> > Stephanie Wankowicz, UCSF >>>> > >>>> > Pedro Beltrao, ETH >>>> > Benjamin Cravatt, Scripps >>>> > Roland Dunbrack, FCCC >>>> > Anthony Gitter, UW Madison >>>> > Kresten Lindorff-Larsen, Copenhagen >>>> > Sergey Ovchinnikov, MIT >>>> > Nicholas Polizzi, DFCI/HMS >>>> > Brian Shoichet, UCSF >>>> > James Fraser, UCSF >>>> > >>>> > >>>> >>>> ######################################################################## >>>> >>>> To unsubscribe from the CCP4BB list, click the following link: >>>> https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 >>>> >>>> This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing >>>> list hosted by www.jiscmail.ac.uk, terms & conditions are available at >>>> https://www.jiscmail.ac.uk/policyandsecurity/ >>>> >>>> >>>> To unsubscribe from the CCP4BB list, click the following link: >>>> https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 >>>> This communication is intended for the addressee only. It is confidential. >>>> If you have received this communication in error, please notify us >>>> immediately and destroy the original message. You may not copy or >>>> disseminate this communication without the permission of the University. >>>> Only authorised signatories are competent to enter into agreements on >>>> behalf of the University and recipients are thus advised that the content >>>> of this message may not be legally binding on the University and may >>>> contain the personal views and opinions of the author, which are not >>>> necessarily the views and opinions of The University of the Witwatersrand, >>>> Johannesburg. All agreements between the University and outsiders are >>>> subject to South African Law unless the University agrees in writing to >>>> the contrary. >>>> To unsubscribe from the CCP4BB list, click the following link: >>>> https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 >>> >>> To unsubscribe from the CCP4BB list, click the following link: >>> https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 >>> >>> To unsubscribe from the CCP4BB list, click the following link: >>> https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 >> >> -- >> Paul Adams (he/him/his) >> Associate Laboratory Director for Biosciences, LBL >> (https://biosciences.lbl.gov) >> Principal Investigator, Computational Crystallography Initiative, LBL >> (http://cci.lbl.gov) >> Vice President for Technology, the Joint BioEnergy Institute >> (http://www.jbei.org) >> Principal Investigator, ALS-ENABLE, Advanced Light Source >> (http://als-enable.lbl.gov) >> Laboratory Research Manager, ENIGMA Science Focus Area >> (http://enigma.lbl.gov) >> Adjunct Professor, Department of Bioengineering, UC Berkeley >> (http://bioeng.berkeley.edu) >> Member of the Graduate Group in Comparative Biochemistry, UC Berkeley >> (http://compbiochem.berkeley.edu) >> >> Building 91, Room 410 >> Building 978, Room 4126 >> Tel: 1-510-486-4225 >> http://cci.lbl.gov/paul >> ORCID: 0000-0001-9333-8219 >> >> Lawrence Berkeley Laboratory >> 1 Cyclotron Road >> BLDG 91R0183 >> Berkeley, CA 94720, USA. >> >> Executive Assistant: Michael Espinosa [ meespin...@lbl.gov ][ 1-510-333-6788 >> ] >> Phenix Consortium: Ashley Dawn [ ashleyd...@lbl.gov ][ 1-510-486-5455 ] >> -- >> >> >> To unsubscribe from the CCP4BB list, click the following link: >> https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 >> > > > To unsubscribe from the CCP4BB list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 > ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
