{"success":{"v":2,"data":[{"pubname":"Drug Discovery Today","publisher":"Elsevier","_gddid":"648839884f5dbdaca3ae852c","title":"Docking-based generative approaches in the search for new drug candidates","doi":"10.1016/j.drudis.2022.103439","coverDate":"February 2023","URL":"https://www.sciencedirect.com/science/article/pii/S1359644622004329","authors":"Łęski, Jan; Podlewska, Sabina; Podolak, Igor T.","hits":5,"highlight":["/luost26/3D-Generative-SBDD <em class=\"hl\">github.com</em>/pengxingang/Pocket2Mol <em class=\"hl\">github.com</em>/mattragoza/liGAN <em class=\"hl\">github.com</em>/","<em class=\"hl\">github.com</em>/asparu-guzik-group/JANUS <em class=\"hl\">github.com</em>/knu-chem-lcbc/V-dock <em class=\"hl\">github.com</em>/duaibeom/MolFinder https","://www.pkumdl.cn/ligbuilder3/ <em class=\"hl\">github.com</em>/wsjeon92/morld <em class=\"hl\">github.com</em>/AITRICS/FREED <em class=\"hl\">github.com</em>/MorganCThomas","/MolScore <em class=\"hl\">github.com</em>/MarcusOlivecrona/REINVENT <em class=\"hl\">github.com</em>/MolecularAI/Reinvent <em class=\"hl\">github.com</em>/MolecularAI","/Lib-INVENT <em class=\"hl\">github.com</em>/MolecularAI/Reinvent <em class=\"hl\">github.com</em>/MolecularAI/DockStream <em class=\"hl\">github.com</em>/aspuru-guzik-group"]},{"pubname":"The Innovation","publisher":"Elsevier","_gddid":"65f1aa75dae56cb87b46d52b","title":"Applications and potentials of nanopore sequencing in the (epi)genome and (epi)transcriptome era","doi":"10.1016/j.xinn.2021.100153","coverDate":"28 November 2021","URL":"https://www.sciencedirect.com/science/article/pii/S2666675821000783","authors":"Leung, Amy Wing-Sze; Zheng, Zhenxian; Zhang, Dake; Xiao, Chuanle; Luo, Ruibang; Luo, Ming; Zhang, Shoudong","hits":5,"highlight":["/ haotianteng/chiron https://<em class=\"hl\">github.com</em>/ scutbioinformatic/ causalcall https://<em class=\"hl\">github.com</em>/ yaozhong/URnano","https://<em class=\"hl\">github.com</em>/ jeammimi/deepnano https://<em class=\"hl\">github.com</em>/ rrwick/Basecallingcomparison https://<em class=\"hl\">github.com</em>","/lh3/ minimap2 https://<em class=\"hl\">github.com</em>/isovic/ graphmap https://<em class=\"hl\">github.com</em>/skovaka/ UNCALLED https://<em class=\"hl\">github.com</em>","https://<em class=\"hl\">github.com</em>/lh3/ miniasm https://<em class=\"hl\">github.com</em>/jts/ nanopolish  27153593 26076426  https://<em class=\"hl\">github.com</em>","/benoukraﬂab/ nanovar https://<em class=\"hl\">github.com</em>/HKU-BAL/ SENSV https://<em class=\"hl\">github.com</em>/afujimoto/ CAMPHOR  Reference"]},{"pubname":"Cold Spring Harbor Laboratory","publisher":"bioRxiv","_gddid":"65e2393fc627927cfbea1280","title":"Full-spike deep mutational scanning helps predict the evolutionary success of SARS-CoV-2 clades","doi":"10.1101/2023.11.13.566961","coverDate":"2023-11-14","URL":"https://www.biorxiv.org/content/10.1101/2023.11.13.566961v1","authors":"Bernadeta Dadonaite; Jack Brown; Teagan E McMahon; Ariana G Farrell; Daniel Asarnow; Cameron Stewart; Jenni Logue; Ben Murrell; Helen Y. Chu; David Veesler; Jesse D Bloom","hits":5,"highlight":["It is made available under aCC-BY 4.0 International license. ● BA.2 spike: https://<em class=\"hl\">github.com</em>/dms-vep","/dms-vep/SARS-CoV-2_XBB.1.5_spike_DMS ● BA.2 spike: https://<em class=\"hl\">github.com</em>/dms-vep/SARS-CoV-2_Omicron_BA.2","Full list of these primers for XBB.1.5 full spike library can be found at https://<em class=\"hl\">github.com</em>/dms-vep/","The full sequence of RDPro viral entry protein used in this study can be found at https://<em class=\"hl\">github.com</em>/","GitHub https://<em class=\"hl\">github.com</em>/neherlab/SARS-CoV-2_variant-reports/tree/main/reports (2023). 8. WHO."]},{"pubname":"Cold Spring Harbor Laboratory","publisher":"bioRxiv","_gddid":"632a484e1683212d9e99a676","title":"Deep mutational scans for ACE2 binding, RBD expression, and antibody escape in the SARS-CoV-2 Omicron BA.1 and BA.2 receptor-binding domains","doi":"10.1101/2022.09.20.508745","coverDate":"2022-09-20","URL":"https://www.biorxiv.org/content/10.1101/2022.09.20.508745v1","authors":"Tyler N Starr; Allison J Greaney; Cameron M Stewart; Alexandra C Walls; William W Hannon; David Veesler; Jesse D Bloom","hits":5,"highlight":["/jbloomlab/SARS-CoV-2RBD_DMS_Omicron/blob/main/results/summary/process_ccs_BA1.md and https://<em class=\"hl\">github.com</em>","Sequence is available at https://<em class=\"hl\">github.com</em>/jbloomlab/SARS-CoV-2-RBD_Omicron_MAP_LYCoV1404/blob/main/","All code and data at various stages of processing is available at https://<em class=\"hl\">github.com</em>/jbloomlab/SARS-CoV","-2-RBD_DMS_Omicron and https://<em class=\"hl\">github.com</em>/jbloomlab/SARS-CoV-2-RBD_Omicron_MAP_LY-CoV1404.","These data are also available at: https://<em class=\"hl\">github.com</em>/jbloomlab/SARS-CoV-2-RBD_Omicron_MAP_LYCoV1404/tree"]},{"pubname":"Computers, Environment and Urban Systems","publisher":"Elsevier","_gddid":"660ef1c41a703effc686deb6","title":"Free and open source urbanism: Software for urban planning practice","doi":"10.1016/j.compenvurbsys.2022.101825","coverDate":"September 2022","URL":"https://www.sciencedirect.com/science/article/pii/S0198971522000692","authors":"Janssen, Patrick; Biljecki, Filip","hits":5,"highlight":["URL https://<em class=\"hl\">github.com</em>/noncomputable/AgentMaps.","URL https://<em class=\"hl\">github.com</em>/antvis/L7.","URL https://<em class=\"hl\">github.com</em>/ResidentMario/geoplot.","URL https://<em class=\"hl\">github.com</em>/UrbanRuralSystems/ur-scape.","URL https://<em class=\"hl\">github.com</em>/tidwall/tile38."]},{"pubname":"Cold Spring Harbor Laboratory","publisher":"bioRxiv","_gddid":"5f3c5fcca58f1dfd5211fb09","title":"KG-COVID-19: a framework to produce customized knowledge graphs for COVID-19 response","doi":"10.1101/2020.08.17.254839","coverDate":"2020-08-18","URL":"https://www.biorxiv.org/content/10.1101/2020.08.17.254839v1","authors":"Justin T Reese; Deepak R Unni; Tiffany J Callahan; Luca Cappelletti; Vida Ravanmehr; Seth Carbon; Tommaso Fontana; Hannah Blau; Nicolas Matentzoglu; Nomi L Harris; Monica C Munoz-Torres; Peter N Robinson; Marcin P Joachimiak; Christopher J Mungall","hits":5,"highlight":["Available from: https://<em class=\"hl\">github.com</em>/KnowledgeGraph-Hub/kg-covid-19 11.","Available from: https://<em class=\"hl\">github.com</em>/oborel/oborelations 15.","Available from: https://<em class=\"hl\">github.com</em>/Knowledge-Graph-Hub/kgcovid-19/wiki 27.","Available from: https://<em class=\"hl\">github.com</em>/covidgraph/documentation 37.","Available from: https://<em class=\"hl\">github.com</em>/sbl-sdsc/coronavirus-knowledge-graph 45."]},{"pubname":"Recent Advances and Future Perspectives of Microbial Metabolites","publisher":"Elsevier","_gddid":"64929db04f5dbdaca3e1ff5f","title":"Microbial metabolomics: recent advancements and applications in infectious diseases and drug discovery","doi":"10.1016/B978-0-323-90113-0.00008-0","coverDate":"2023","URL":"https://www.sciencedirect.com/science/article/pii/B9780323901130000080","authors":"Mughal, Amina; Ahmad, Sharjeel; Abbas, Saira; Mumtaz, Amer; Ahmed, Iftikhar","hits":5,"highlight":["/ZhuMetLab/ AllCCS; http://allccs.zhulab.cn/ https://<em class=\"hl\">github.com</em>/sipss/AlpsNMR https://<em class=\"hl\">github.com</em>/crmclean","/ MetumpX-bin https://<em class=\"hl\">github.com</em>/skschum/ MFAssignR http://miami.tu-bs.de/ https://<em class=\"hl\">github.com</em>/mohimanilab","https://<em class=\"hl\">github.com</em>/bihealth/ NeatMS https://<em class=\"hl\">github.com</em>/stefhk3/ nmrfilterprojects http://idrblab.cn/","/rickhelmus/ patRoon https://<em class=\"hl\">github.com</em>/biocore/q2qemistree https://<em class=\"hl\">github.com</em>/ UofUMetabolomicsCore/","QSRR_Automator/releases/tag/ v1_exe https://<em class=\"hl\">github.com</em>/LlucSF/ Raman2imzML https://<em class=\"hl\">github.com</em>/fgcz/rawR"]},{"pubname":"Computational and Structural Biotechnology Journal","publisher":"Elsevier","_gddid":"66118b661a703effc68c70f0","title":"Mini-review: Recent advances in post-translational modification site prediction based on deep learning","doi":"10.1016/j.csbj.2022.06.045","coverDate":"2022","URL":"https://www.sciencedirect.com/science/article/pii/S2001037022002598","authors":"Chan, Wai-Sum; Huang, Lei; Liu, Linjing; Chen, Xingjian; Zhang, Weitong; Wang, Fuzhou; Cheng, Ke; Sun, Hongyan; Wong, Ka-Chun","hits":5,"highlight":["/ Tastanlab/DeepKinZero https://<em class=\"hl\">github.com</em>/yxu132/ PhosTransfer – <em class=\"hl\">github.com</em>/saeed344/ DeepPPSite  2020","/<em class=\"hl\">github.com</em>/ ustchangyuanyang/PhosIDN https:// <em class=\"hl\">github.com</em>/gomezlab/EMBER https://<em class=\"hl\">github.com</em>/ QUSTAIBBDRC","2020 2020  <em class=\"hl\">github.com</em>/USTC-HIlab/ DeepTL-Ubi *https://<em class=\"hl\">github.com</em>/wanghong-fei/DL-plantubsitesprediction","*https://<em class=\"hl\">github.com</em>/urmisen/ DeepGlut. https://mega.nz/#F!s9cSiQIa!","1jXO0NmgrhxUqOexmYuouA https://<em class=\"hl\">github.com</em>/dukkakc/ DTLDephos https://<em class=\"hl\">github.com</em>/QUSTSHULI/PreCar_Deep"]},{"pubname":"Cold Spring Harbor Laboratory Press","publisher":"bioRxiv","_gddid":"5ecd4fa1768935d2be5bf869","title":"COVID-19 Datasets: A Survey and Future Challenges","doi":"10.1101/2020.05.19.20107532","coverDate":"2020-05-26","URL":"https://www.medrxiv.org/content/10.1101/2020.05.19.20107532v1","authors":"Junaid Shuja; Eisa Alanazi; Waleed Alasmary; Abdulaziz Alashaikh","hits":5,"highlight":["/lindawangg/COVID-Net https://<em class=\"hl\">github.com</em>/ieee8023/ covid-chestxray-dataset https://<em class=\"hl\">github.com</em>/ieee8023","https://<em class=\"hl\">github.com</em>/carolinecolijn/ ClustersCOVID19 https://<em class=\"hl\">github.com</em>/CSSEGISandData/ COVID-19 https","https://<em class=\"hl\">github.com</em>/huaiyutian/COVID-19_ TCM-50d_China https://<em class=\"hl\">github.com</em>/cheongsa/ Coronavirus-COVID","/ s1 https://<em class=\"hl\">github.com</em>/wpgp/BEARmod https://<em class=\"hl\">github.com</em>/ ImperialCollegeLondon/covid19model/ releases","/tag/v1.0 https://<em class=\"hl\">github.com</em>/ben-aaron188/ covid19worry https://<em class=\"hl\">github.com</em>/echen102/ COVID-19-TweetIDs"]},{"pubname":"Cold Spring Harbor Laboratory","publisher":"bioRxiv","_gddid":"5fc7b9af78f934caa3d94ce6","title":"Prospective mapping of viral mutations that escape antibodies used to treat COVID-19","doi":"10.1101/2020.11.30.405472","coverDate":"2020-12-01","URL":"https://www.biorxiv.org/content/10.1101/2020.11.30.405472v1","authors":"Tyler N. Starr; Allison J. Greaney; Amin Addetia; William H. Hannon; Manish C. Choudhary; Adam S. Dingens; Jonathan Z. Li; Jesse D Bloom","hits":5,"highlight":["Computer code and processed data are on GitHub: https://<em class=\"hl\">github.com</em>/jbloomlab/SARS-CoV-2-RBD_MAP_clinical_Abs​","(escape mapping) and https://<em class=\"hl\">github.com</em>/jbloomlab/SARS-CoV-2_chronic-infection-seq​ (patient sequencing","Markdown renderings of these steps in the computational analysis are at https://<em class=\"hl\">github.com</em>/jbloomlab/","It is made available under aCC-BY 4.0 International license. https://<em class=\"hl\">github.com</em>/jbloomlab/SARS-CoV-2-","This CSV table is available at https://<em class=\"hl\">github.com</em>/jbloomlab/SARS-CoV-2-RBD_MAP_clinical_Abs/blob/main"]}],"hits":5533,"license":"https://creativecommons.org/licenses/by-nc/2.0/"}}