@DinzoHarris I remember the casp with the watershed paper, honestly one of those things people did not try again due to cargo cult science, these things were popular in the 90s but went out of fashion after fragment assembly took over, much like neural net
@michael_nielsen This was pre deep learning https://t.co/8D1xnK17Bl
If an Ising or Potts model can describe evolutionary coupling of amino acids pretty well, maybe applying hopfield nets or layers could be a pretty intuitively fitting solution for protein folding. https://t.co/JZjn8KYLZX and https://t.co/kgNPTKDzIt point i
@eugenevalkov Also, there's some precedent for using this nomenclature e.g. this classic from @deboramarks Protein 3D Structure Computed from Evolutionary Sequence Variation https://t.co/l1btveJLqy
RT @gaou_ak: 10年前のオープンバイオ・生命情報若手・定量生物・NGS現場の4会合同シンポジウム「これからの生命科学を考える」で、バイオインフォマティクスの未来を占う論文として一本だけ紹介したこれ。https://t.co/Bcv2ewyFyO 僕にはこうなることは…
RT @gaou_ak: 10年前のオープンバイオ・生命情報若手・定量生物・NGS現場の4会合同シンポジウム「これからの生命科学を考える」で、バイオインフォマティクスの未来を占う論文として一本だけ紹介したこれ。https://t.co/Bcv2ewyFyO 僕にはこうなることは…
RT @gaou_ak: 10年前のオープンバイオ・生命情報若手・定量生物・NGS現場の4会合同シンポジウム「これからの生命科学を考える」で、バイオインフォマティクスの未来を占う論文として一本だけ紹介したこれ。https://t.co/Bcv2ewyFyO 僕にはこうなることは…
RT @gaou_ak: 10年前のオープンバイオ・生命情報若手・定量生物・NGS現場の4会合同シンポジウム「これからの生命科学を考える」で、バイオインフォマティクスの未来を占う論文として一本だけ紹介したこれ。https://t.co/Bcv2ewyFyO 僕にはこうなることは…
RT @dritoshi: あの集まりは面白かった。私も3つの未来像を挙げさせてもらってそのうち1細胞オミクスは自分らで取り組んできた。研究自動化は今ブームになりつつあり我々も取り組み中。もうひとつはうまく成果が出せていなくて世界も逆にいっている感じだが、え、待って、アレもう9…
あの集まりは面白かった。私も3つの未来像を挙げさせてもらってそのうち1細胞オミクスは自分らで取り組んできた。研究自動化は今ブームになりつつあり我々も取り組み中。もうひとつはうまく成果が出せていなくて世界も逆にいっている感じだが、え、待って、アレもう9年も前なの!?
RT @gaou_ak: 10年前のオープンバイオ・生命情報若手・定量生物・NGS現場の4会合同シンポジウム「これからの生命科学を考える」で、バイオインフォマティクスの未来を占う論文として一本だけ紹介したこれ。https://t.co/Bcv2ewyFyO 僕にはこうなることは…
To explain: They first computationally predicted folds for many proteins using evolutionary couplings inferred from multiple sequence alignments, see 2011 paper https://t.co/Br5SPl9Ync Of course it’s great to improve further on these ideas using advanced
FL: 3D structures from sequences. Evolutionary couplings → contact map → distance constraints → 3D structure. Follows up work of @deboramarks #ASHG20 https://t.co/VoCsKsUVGz
@desGeorgesLab @deboramarks @sandercbio I think this was the first... https://t.co/i0AQqMaQM7
RT @deboramarks: I need to stop moaning and get on with bigger challenges that are more important
RT @deboramarks: Disappointed that #AlphaFold didn’t get references quite right- first was https://t.co/cm8KGolrAN
RT @deboramarks: I need to stop moaning and get on with bigger challenges that are more important https://t.co/ZiBm1nKtDN
RT @deboramarks: I need to stop moaning and get on with bigger challenges that are more important
RT @deboramarks: Disappointed that #AlphaFold didn’t get references quite right- first was https://t.co/cm8KGolrAN
RT @deboramarks: Disappointed that #AlphaFold didn’t get references quite right- first was https://t.co/cm8KGolrAN
RT @deboramarks: Disappointed that #AlphaFold didn’t get references quite right- first was https://t.co/cm8KGolrAN
RT @deboramarks: Disappointed that #AlphaFold didn’t get references quite right- first was https://t.co/cm8KGolrAN
RT @deboramarks: Total self advertisement - feeling bitter and twisted of course :)
RT @deboramarks: Disappointed that #AlphaFold didn’t get references quite right- first was https://t.co/cm8KGolrAN
I need to stop moaning and get on with bigger challenges that are more important
RT @deboramarks: Disappointed that #AlphaFold didn’t get references quite right- first was https://t.co/cm8KGolrAN
RT @deboramarks: Total self advertisement - feeling bitter and twisted of course :) https://t.co/ZiBm1nKtDN
RT @deboramarks: Disappointed that #AlphaFold didn’t get references quite right- first was https://t.co/cm8KGolrAN
RT @deboramarks: Total self advertisement - feeling bitter and twisted of course :)
Total self advertisement - feeling bitter and twisted of course :)
Disappointed that #AlphaFold didn’t get references quite right- first was https://t.co/cm8KGolrAN
Lucy’s paper on this work: https://t.co/IHIpD5SRW4 #UKQSAR
AG: Method to find the epistatic constraints. 1/Construct alignment of protein sequences across up to thousands of species. #probgen18 https://t.co/VoCsKsUVGz
RT @ryotaiino: タンパク質の立体構造中で近くにあるアミノ酸は共進化する。共進化を検証することで立体構造を予測できる。Protein 3D Structure Computed from Evolutionary Sequence Variation https:/…
RT @ryotaiino: タンパク質の立体構造中で近くにあるアミノ酸は共進化する。共進化を検証することで立体構造を予測できる。Protein 3D Structure Computed from Evolutionary Sequence Variation https:/…
タンパク質の立体構造中で近くにあるアミノ酸は共進化する。共進化を検証することで立体構造を予測できる。Protein 3D Structure Computed from Evolutionary Sequence Variation https://t.co/EVvcTUSHmj
RT @iGenomics: DM:Protein 3D Structure Computed from Evolutionary Seq Variation. https://t.co/2id3Ow2qU7 #ISMB16
DM:Protein 3D Structure Computed from Evolutionary Seq Variation. https://t.co/2id3Ow2qU7 #ISMB16
Prediction of protein 3D structure from coevolution patterns. So cool how did it not make it to a high rank journal? http://t.co/7acSFaXyKw
Prediction of protein 3D structure from coevolution patterns. So cool how did it not make it to a high rank journal? http://t.co/7acSFaXyKw
Marks et al. (2011) "Protein 3D Structure Computed from Evolutionary Sequence Variation" http://t.co/NExCb1pILT
The evolutionary trajectory of a protein through sequence space is constrained by its function http://t.co/zPfTSfLxM2"
The evolutionary trajectory of a protein through sequence space is constrained by its function http://t.co/YyvWfeHybV"
#ISMBECCB Debbie Marks. paper: http://t.co/mc4Ft9SKr2
#ISMBECCB Debbie Marks. paper: http://t.co/mc4Ft9SKr2
Sander: using evolutionary coupling to predict 3D structures and function http://t.co/LLVLnkf2gx
Chris Sander: Protein 3D Structure Computed from Evolutionary Sequence Variation: http://t.co/ruBqcb5f EVfold: http://t.co/UD5WveyH #ECCB12
Chris Sanders highlight presenting @PLOSONE paper http://t.co/VwFHEaJt #eccb12
Chris Sanders highlight presenting @PLOSONE paper http://t.co/VwFHEaJt #eccb12
Here is the relevant publication on deducing protein structure that D.Marks is now presenting in #ICSB2012: http://t.co/ilCPuQTj
Just come across the most influential protein structure prediction paper in years (and it confirms some of our ideas!) http://t.co/jQOpP0t3
Protein 3D Structure Computed from Evolutionary Sequence Variation http://t.co/Mo90x9LR
RT @flobosg: Pliega tu proteína con "sólo" unos cuantos miles de secuencias homólogas. Guau. http://t.co/YiPfL2RO
#PLoS: Protein 3D Structure Computed from Evolutionary Sequence Variation http://t.co/TvpZOm89
Pliega tu proteína con "sólo" unos cuantos miles de secuencias homólogas. Guau. http://t.co/YiPfL2RO
"Computing, from sequence alone, all-atom 3D structures of fifteen test proteins". Wowser. http://t.co/Mu4TgDks #bioinformatics
RT @WimDictus: PLoS ONE: Protein 3D Structure Computed from Evolutionary Sequence Variation http://t.co/E3tdpZHU #UUBMW #in
PLoS ONE: Protein 3D Structure Computed from Evolutionary Sequence Variation http://t.co/E3tdpZHU #UUBMW #in
PLoS ONE: Protein #3D #Structure Computed from #Evolutionary Sequence Variation http://t.co/F6me5MFM