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2SetQuence & SetOmic: Deep Set Transformer-based Representations of Cancer Multi-Omics
N. Jurenaite, D. León-Periñán, V. Donath, S. Torge, and R. Jäkel. 2022 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB), page 1-9. (August 2022)
17 days ago by @scadsfct
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2SetQuence & SetOmic: Deep Set Transformers for Whole Genome and Exome Tumour Analysis
N. Jurenaite, D. León-Periñán, V. Donath, S. Torge, and R. Jäkel. BioSystems, (January 2024)
17 days ago by @scadsfct
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1Freiheit und Kalkül. Die Politik der Algorithmen
S. Müller-Mall. (October 2020)
2 months ago by @scadsfct
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1Description Logics that Count, and What They Can and Cannot Count (Extended Abstract)
F. Baader, and F. De Bortoli. Proceedings of the 33rd International Workshop on Description Logics (DL'20), volume 2663 of CEUR Workshop Proceedings, Online, CEUR-WS, (2020)
2 months ago by @scadsfct
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1Diagnostic performance of artificial intelligence for histologic melanoma recognition compared to 18 international expert pathologists
T. Brinker, M. Schmitt, E. Krieghoff-Henning, R. Barnhill, H. Beltraminelli, S. Braun, R. Carr, M. Fernandez-Figueras, G. Ferrara, S. Fraitag and 18 other author(s). J. Am. Acad. Dermatol., 86 (3): 640--642 (March 2022)
2 months ago by @scadsfct
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1Computational identification of HCV neutralizing antibodies with a common HCDR3 disulfide bond motif in the antibody repertoires of infected individuals
N. Bozhanova, A. Flyak, B. Brown, S. Ruiz, J. Salas, S. Rho, R. Bombardi, L. Myers, C. Soto, J. Bailey and 3 other author(s). Nat. Commun., 13 (1): 3178 (June 2022)
2 months ago by @scadsfct
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1Inter-InnoLab collaboration: An investigation of the diversity and interconnection among Innovation Laboratories
A. Memon, K. Meyer, M. Thieme, and L. Meyer. J. Eng. Technol. Manag., (January 2018)
2 months ago by @scadsfct
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1Genetic architecture of subcortical brain structures in 38,851 individuals
C. Satizabal, H. Adams, D. Hibar, C. White, M. Knol, J. Stein, M. Scholz, M. Sargurupremraj, N. Jahanshad, G. Roshchupkin and 279 other author(s). Nat. Genet., 51 (11): 1624--1636 (November 2019)
2 months ago by @scadsfct
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1Hyperbolic Busemann Learning with ideal prototypes
M. Atigh, M. Keller-Ressel, and P. Mettes. (2021)
2 months ago by @scadsfct
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1Rosetta design with co-evolutionary information retains protein function
S. Schmitz, M. Ertelt, R. Merkl, and J. Meiler. PLoS Comput. Biol., 17 (1): e1008568 (January 2021)
2 months ago by @scadsfct
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1A collection of deep learning-based feature-free approaches for characterizing single-objective continuous fitness landscapes
M. Seiler, R. Prager, P. Kerschke, and H. Trautmann. Proceedings of the Genetic and Evolutionary Computation Conference, New York, NY, USA, ACM, (July 2022)
2 months ago by @scadsfct
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1Digitale Transformationen von Öffentlichkeit. Ausgangspunkte und Horizonte einer transdisziplinären Perspektivbildung
J. Kruse, and S. Müller-Mall. Digitale Transformationen der Öffentlichkeit, Velbrück Wissenschaft, (2020)
2 months ago by @scadsfct
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1Automated algorithm selection in single-objective continuous optimization: A comparative study of deep learning and landscape analysis methods
R. Prager, M. Seiler, H. Trautmann, and P. Kerschke. Lecture Notes in Computer Science, Springer International Publishing, Cham, (2022)
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1Epitope-focused immunogen design based on the ebolavirus glycoprotein HR2-MPER region
C. Schoeder, P. Gilchuk, A. Sangha, K. Ledwitch, D. Malherbe, X. Zhang, E. Binshtein, L. Williamson, C. Martina, J. Dong and 10 other author(s). PLoS Pathog., 18 (5): e1010518 (May 2022)
2 months ago by @scadsfct
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1Computational redesign of a fluorogen activating protein with Rosetta
N. Bozhanova, J. Harp, B. Bender, A. Gavrikov, D. Gorbachev, M. Baranov, C. Mercado, X. Zhang, K. Lukyanov, A. Mishin and 1 other author(s). PLoS Comput. Biol., 17 (11): e1009555 (November 2021)
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1Deep learning as a competitive feature-free approach for automated algorithm selection on the traveling salesperson problem
M. Seiler, J. Pohl, J. Bossek, P. Kerschke, and H. Trautmann. Parallel Problem Solving from Nature -- PPSN XVI, Springer International Publishing, Cham, (2020)
2 months ago by @scadsfct
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1Study of 300,486 individuals identifies 148 independent genetic loci influencing general cognitive function
G. Davies, M. Lam, S. Harris, J. Trampush, M. Luciano, W. Hill, S. Hagenaars, S. Ritchie, R. Marioni, C. Fawns-Ritchie and 212 other author(s). Nat. Commun., (May 2018)
2 months ago by @scadsfct
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1Hydra: a method for strain-minimizing hyperbolic embedding of network- and distance-based data
M. Keller-Ressel, and S. Nargang. J. Complex Netw., (February 2020)
2 months ago by @scadsfct
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1Towards feature-free automated algorithm selection for single-objective continuous black-box optimization
R. Prager, M. Vinzent Seiler, H. Trautmann, and P. Kerschke. 2021 IEEE Symposium Series on Computational Intelligence (SSCI), IEEE, (December 2021)
2 months ago by @scadsfct
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1On the potential of normalized TSP features for automated algorithm selection
J. Heins, J. Bossek, J. Pohl, M. Seiler, H. Trautmann, and P. Kerschke. Proceedings of the 16th ACM/SIGEVO Conference on Foundations of Genetic Algorithms, New York, NY, USA, ACM, (September 2021)
2 months ago by @scadsfct
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1Genetic correlations and genome-wide associations of cortical structure in general population samples of 22,824 adults
E. Hofer, G. Roshchupkin, H. Adams, M. Knol, H. Lin, S. Li, H. Zare, S. Ahmad, N. Armstrong, C. Satizabal and 90 other author(s). Nat. Commun., 11 (1): 4796 (September 2020)
2 months ago by @scadsfct
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1The hyperbolic geometry of financial networks
M. Keller-Ressel, and S. Nargang. Sci. Rep., 11 (1): 4732 (February 2021)
2 months ago by @scadsfct
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1Novel loci for childhood body mass index and shared heritability with adult cardiometabolic traits
S. Vogelezang, J. Bradfield, T. Ahluwalia, J. Curtin, T. Lakka, N. Grarup, M. Scholz, P. van der Most, C. Monnereau, E. Stergiakouli and 136 other author(s). PLoS Genet., 16 (10): e1008718 (October 2020)
2 months ago by @scadsfct
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1Comparison of Atom Maps
M. González Laffitte, N. Beier, N. Domschke, and P. Stadler. MATCH: Comm. Math. Comp. Chem., (2023)
2 months ago by @scadsfct
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1Methodology for rigorous modeling of protein conformational changes by Rosetta using DEER distance restraints
D. Del Alamo, K. Jagessar, J. Meiler, and H. Mchaourab. PLoS Comput. Biol., 17 (6): e1009107 (June 2021)
2 months ago by @scadsfct
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1General purpose structure-based drug discovery neural network score functions with human-interpretable pharmacophore maps
B. Brown, J. Mendenhall, A. Geanes, and J. Meiler. J. Chem. Inf. Model., 61 (2): 603--620 (February 2021)
2 months ago by @scadsfct
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1A combined experimental and theoretical study of 1,4-bis(phenylethynyl)-2,5-bis(ethoxy)benzene adsorption on Au(111)
M. Lokamani, J. Kelling, R. Ohmann, J. Meyer, T. Kühne, G. Cuniberti, J. Wolf, T. Huhn, P. Zahn, F. Moresco and 1 other author(s). Surf. Sci., 712 (121877): 121877 (October 2021)
2 months ago by @scadsfct
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1Framework for 2D-3D image fusion of infrared thermography with preoperative MRI
N. Hoffmann, F. Weidner, P. Urban, T. Meyer, C. Schnabel, Y. Radev, G. Schackert, U. Petersohn, E. Koch, S. Gumhold and 2 other author(s). Biomedical Engineering / Biomedizinische Technik, 62 (6): 599--607 (2017)
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1Grimjack at Touché 2022: Axiomatic Re-ranking and Query Reformulation
{. Reimer, J. Huck, and A. Bondarenko. Working Notes Papers of the CLEF 2022 Evaluation Labs, volume 3180 of CEUR Workshop Proceedings, (September 2022)
2 months ago by @scadsfct
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1Genome-wide association study of 23,500 individuals identifies 7 loci associated with brain ventricular volume
D. Vojinovic, H. Adams, X. Jian, Q. Yang, A. Smith, J. Bis, A. Teumer, M. Scholz, N. Armstrong, E. Hofer and 81 other author(s). Nat. Commun., 9 (1): 3945 (September 2018)
2 months ago by @scadsfct
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1Prediction of amphipathic helix-membrane interactions with Rosetta
A. Gulsevin, and J. Meiler. PLoS Comput. Biol., 17 (3): e1008818 (March 2021)
2 months ago by @scadsfct
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1Modern Talking in Key Point Analysis: Key Point Matching using Pretrained Encoders
J. Reimer, T. Luu, M. Henze, and Y. Ajjour. Proceedings of the 8th Workshop on Argument Mining, Association for Computational Linguistics, (2021)
2 months ago by @scadsfct
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1Describing chain-like assembly of ethoxygroup-functionalized organic molecules on Au(111) using high-throughput simulations
Lokamani, J. Kelling, R. Ohmann, J. Meyer, T. Kühne, G. Cuniberti, J. Wolf, G. Juckeland, T. Huhn, P. Zahn and 2 other author(s). Sci. Rep., 11 (1): 14649 (July 2021)
2 months ago by @scadsfct
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1Beyond the Imitation Game: Quantifying and extrapolating the capabilities of language models
A. Srivastava, A. Rastogi, A. Rao, A. Shoeb, A. Abid, A. Fisch, A. Brown, A. Santoro, A. Gupta, A. Garriga-Alonso and 435 other author(s). (2022)
2 months ago by @scadsfct
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1Meta-information in conversational search
J. Kiesel, L. Meyer, M. Potthast, and B. Stein. ACM Trans. Inf. Syst., 39 (4): 1--44 (October 2021)
2 months ago by @scadsfct
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1Big Data Services
L. Meyer, J. Frenzel, E. Peukert, R. Jäkel, and S. Kühne. Service Engineering, Springer Fachmedien Wiesbaden, Wiesbaden, (2018)
2 months ago by @scadsfct
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1Ensuring scientific reproducibility in bio-macromolecular modeling via extensive, automated benchmarks
J. Koehler Leman, S. Lyskov, S. Lewis, J. Adolf-Bryfogle, R. Alford, K. Barlow, Z. Ben-Aharon, D. Farrell, J. Fell, W. Hansen and 40 other author(s). Nat. Commun., 12 (1): 6947 (November 2021)
2 months ago by @scadsfct
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1On Logics and Homomorphism Closure
M. Bodirsky, T. Feller, S. Knauer, and S. Rudolph. 2021 36th Annual ACM/IEEE Symposium on Logic in Computer Science (LICS), IEEE, (June 2021)
2 months ago by @scadsfct
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1Predicting the functional impact of KCNQ1 variants with artificial neural networks
S. Phul, G. Kuenze, C. Vanoye, C. Sanders, A. George, Jr, and J. Meiler. PLoS Comput. Biol., 18 (4): e1010038 (April 2022)
2 months ago by @scadsfct
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1BCL::Conf: Improved open-source knowledge-based conformation sampling using the Crystallography Open Database
J. Mendenhall, B. Brown, S. Kothiwale, and J. Meiler. J. Chem. Inf. Model., 61 (1): 189--201 (January 2021)
2 months ago by @scadsfct
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1An empirical comparison of web page segmentation algorithms
J. Kiesel, L. Meyer, F. Kneist, B. Stein, and M. Potthast. Lecture Notes in Computer Science, Springer International Publishing, Cham, (2021)
2 months ago by @scadsfct
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1Visual Web Archive Quality Assessment
T. Elstner, J. Kiesel, L. Meyer, M. Martius, S. Schmidt, B. Stein, and M. Potthast. Linking Theory and Practice of Digital Libraries, Springer International Publishing, Cham, (2022)
2 months ago by @scadsfct
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1Towards complete and error-free genome assemblies of all vertebrate species
A. Rhie, S. McCarthy, O. Fedrigo, J. Damas, G. Formenti, S. Koren, M. Uliano-Silva, W. Chow, A. Fungtammasan, J. Kim and 117 other author(s). Nature, 592 (7856): 737--746 (April 2021)
2 months ago by @scadsfct
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1Response to letter entitled: Re: Integration of deep learning-based image analysis and genomic data in cancer pathology: A systematic review
L. Schneider, E. Krieghoff-Henning, S. Laiouar-Pedari, S. Kuntz, A. Hekler, J. Kather, T. Gaiser, S. Fröhling, and T. Brinker. Eur. J. Cancer, (September 2022)
2 months ago by @scadsfct
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1PlaceWaters: Real-time, explicit interface water sampling during Rosetta ligand docking
S. Smith, L. Shub, and J. Meiler. PLoS One, 17 (5): e0269072 (May 2022)
2 months ago by @scadsfct
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1Enhancing resilience of deep learning networks by means of transferable adversaries
M. Seiler, H. Trautmann, and P. Kerschke. 2020 International Joint Conference on Neural Networks (IJCNN), IEEE, (July 2020)
2 months ago by @scadsfct
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1Representing fields without correspondences: The lifted Euler characteristic transform
H. Kirveslahti, and S. Mukherjee. (2021)
2 months ago by @scadsfct
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1Sepsis-associated acute respiratory distress syndrome in individuals of European ancestry: a genome-wide association study
B. Guillen-Guio, J. Lorenzo-Salazar, S. Ma, P. Hou, T. Hernandez-Beeftink, A. Corrales, M. Garc\'ıa-Laorden, J. Jou, E. Espinosa, A. Muriel and 22 other author(s). Lancet Respir. Med., 8 (3): 258--266 (March 2020)
2 months ago by @scadsfct
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1Distance multivariance: New dependence measures for random vectors
B. Böttcher, M. Keller-Ressel, and R. Schilling. Ann. Stat., 47 (5): 2757--2789 (October 2019)
2 months ago by @scadsfct
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1Chasing Streams with Existential Rules
J. Urbani, M. Krötzsch, and T. Eiter. Proceedings of the 19th International Conference on Principles of Knowledge Representation and Reasoning, page 415--419. (August 2022)
2 months ago by @scadsfct
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1Knowledge Graphs evolution and preservation -- A technical report from ISWS 2019
N. Abbas, K. Alghamdi, M. Alinam, F. Alloatti, G. Amaral, C. d'Amato, L. Asprino, M. Beno, F. Bensmann, R. Biswas and 64 other author(s). (2020)
2 months ago by @scadsfct
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1The landscape of genomic alterations across childhood cancers
S. Gröbner, ICGC PedBrain-Seq Project, B. Worst, J. Weischenfeldt, I. Buchhalter, K. Kleinheinz, V. Rudneva, P. Johann, G. Balasubramanian, M. Segura-Wang and 76 other author(s). Nature, 555 (7696): 321--327 (March 2018)
2 months ago by @scadsfct
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1Better a Microbenchmark on a Cluster than a User at the Office: Flink Cluster Benchmarking
D. Reichelt, L. Meyer, and S. Kühne. Softwaretechnik-Trends Band 39, Heft 3, page 52--54. Bonn, Gesellschaft für Informatik e.V., (2019)
2 months ago by @scadsfct
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1125-129 10.1055/a-1030-3232 gockel Ines I Klinik und poliklinik für viszeral-, transplantations-, thorax- und gefäßchirurgie, Universitätsklinikum Leipzig AöR, Deutschland. Jansen-winkeln Boris B Klinik und poliklinik für viszeral-, transplantations-, thorax- und gefäßchirurgie, Universitätsklinikum Leipzig AöR, Deutschland. Sucher Robert R Klinik und poliklinik für viszeral-, transplantations-, thorax- und gefäßchirurgie, Universitätsklinikum Leipzig AöR, Deutschland. Rayes Nada N Klinik und poliklinik für viszeral-, transplantations-, thorax- und gefäßchirurgie, Universitätsklinikum Leipzig AöR, Deutschland. Thieme René R Klinik und poliklinik für viszeral-, transplantations-, thorax- und gefäßchirurgie, Universitätsklinikum Leipzig AöR, Deutschland. Moulla Yusef Y Klinik und poliklinik für viszeral-, transplantations-, thorax- und gefäßchirurgie, Universitätsklinikum Leipzig AöR, Deutschland. Niebisch Stefan S Klinik und poliklinik für viszeral-, transplantations-, thorax- und gefäßchirurgie, Universitätsklinikum Leipzig AöR, Deutschland. Rademacher Sebastian S Klinik und poliklinik für viszeral-, transplantations-, thorax- und gefäßchirurgie, Universitätsklinikum Leipzig AöR, Deutschland. Seehofer Daniel D Klinik und poliklinik für viszeral-, transplantations-, thorax- und gefäßchirurgie, Universitätsklinikum Leipzig AöR, Deutschland. Schierle Katrin K Institut für pathologie, Universitätsklinikum Leipzig AöR, Deutschland. Bläker Hendrik H Institut für pathologie, Universitätsklinikum Leipzig AöR, Deutschland. Neumuth Thomas T innovation center computer assisted surgery (ICCAS), Universität Leipzig, Deutschland. Melzer Andreas A innovation center computer assisted surgery (ICCAS), Universität Leipzig, Deutschland. Maktabi Marianne M innovation center computer assisted surgery (ICCAS), Universität Leipzig, Deutschland. Köhler Hannes H innovation center computer assisted surgery (ICCAS), Universität Leipzig, Deutschland. Chalopin Claire C innovation center computer assisted surgery (ICCAS), Universität Leipzig, Deutschland. Ger journal article hyperspektral-imaging (HSI) -- eine verlässliche gewebedifferenzierung? 2020 04 08
I. Gockel, B. Jansen-Winkeln, R. Sucher, N. Rayes, R. Thieme, Y. Moulla, S. Niebisch, S. Rademacher, D. Seehofer, K. Schierle and 6 other author(s). Zentralbl. Chir., 145 (2): 125--129 (April 2020)
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1Structural comparative modeling of multi-domain F508del CFTR
E. McDonald, H. Woods, S. Smith, M. Kim, C. Schoeder, L. Plate, and J. Meiler. Biomolecules, 12 (3): 471 (March 2022)
2 months ago by @scadsfct
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VX-809;
chaperones;
comparative
computational
cystic
discovery
disease;
drug
fibrosis;
folding
modeling;
pharmacological
protein
structure-based
topic_lifescience
VX-809;chaperones;comparativecomputationalcysticdiscoverydisease;drugfibrosis;foldingmodeling;pharmacologicalproteinstructure-basedtopic_lifescience
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1Genome-wide analysis identifies novel susceptibility loci for myocardial infarction
J. Hartiala, Y. Han, Q. Jia, J. Hilser, P. Huang, J. Gukasyan, W. Schwartzman, Z. Cai, S. Biswas, D. Trégouët and 53 other author(s). Eur. Heart J., 42 (9): 919--933 (March 2021)
2 months ago by @scadsfct
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Genetic
Genome-wide
Meta-analysis;
Myocardial
SLC44A3
association
factors;
infarction;
study;
topic_lifescience
GeneticGenome-wideMeta-analysis;MyocardialSLC44A3associationfactors;infarction;study;topic_lifescience
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1The human antibody sequence space and structural design of the V, J regions, and CDRH3 with Rosetta
S. Schmitz, E. Schmitz, J. Crowe, Jr, and J. Meiler. MAbs, 14 (1): 2068212 (January 2022)
2 months ago by @scadsfct
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Human-likeness;
HumanizationABBREVIATIONS
antibody
biostatistics;
design;
immunome
repertoire;
rosetta;
topic_lifescience
Human-likeness;HumanizationABBREVIATIONSantibodybiostatistics;design;immunomerepertoire;rosetta;topic_lifescience
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1Proteomics to improve phenotyping in obese patients with heart failure with preserved ejection fraction
K. Kresoja, K. Rommel, R. Wachter, S. Henger, C. Besler, N. Klöting, M. Schnelle, A. Hoffmann, P. Büttner, U. Ceglarek and 5 other author(s). Eur. J. Heart Fail., 23 (10): 1633--1644 (October 2021)
2 months ago by @scadsfct
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Biomarker;
Fibrosis;
Heart
Inflammation;
Obesity;
Proteomics
ejection
failure
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preserved
topic_lifescience
with
Biomarker;Fibrosis;HeartInflammation;Obesity;Proteomicsejectionfailurefraction;preservedtopic_lifesciencewith
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1Model soups improve performance of dermoscopic skin cancer classifiers
R. Maron, A. Hekler, S. Haggenmüller, C. von Kalle, J. Utikal, V. Müller, M. Gaiser, F. Meier, S. Hobelsberger, F. Gellrich and 23 other author(s). Eur. J. Cancer, (September 2022)
2 months ago by @scadsfct
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Artificial
Calibration;
Deep
Dermatology;
Ensembles;
Generalisation;
Melanoma;
Model
Nevus;
Robustness
intelligence;
learning;
soups;
topic_lifescience
ArtificialCalibration;DeepDermatology;Ensembles;Generalisation;Melanoma;ModelNevus;Robustnessintelligence;learning;soups;topic_lifescience
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1A multitask deep-learning method for predicting membrane associations and secondary structures of proteins
B. Li, J. Mendenhall, J. Capra, and J. Meiler. J. Proteome Res., 20 (8): 4089--4100 (August 2021)
2 months ago by @scadsfct
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convolutional
deep
learning;
long
memory
multitask
networks;
neural
prediction
prediction;
secondary
short-term
structure
topic_lifescience
topology
transmembrane
convolutionaldeeplearning;longmemorymultitasknetworks;neuralpredictionprediction;secondaryshort-termstructuretopic_lifesciencetopologytransmembrane
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1Uncertainty estimation in medical image classification: Systematic review
A. Kurz, K. Hauser, H. Mehrtens, E. Krieghoff-Henning, A. Hekler, J. Kather, S. Fröhling, C. von Kalle, and T. Brinker. JMIR Med. Inform., 10 (8): e36427 (August 2022)
2 months ago by @scadsfct
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calibration;
classification;
deep
detection;
estimation
image
imaging;
learning;
medical
network
out-of-distribution
topic_lifescience
uncertainty
calibration;classification;deepdetection;estimationimageimaging;learning;medicalnetworkout-of-distributiontopic_lifescienceuncertainty
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1Veratridine can bind to a site at the mouth of the channel pore at human cardiac sodium channel NaV1.5
A. Gulsevin, A. Glazer, T. Shields, B. Kroncke, D. Roden, and J. Meiler. Int. J. Mol. Sci., 23 (4): 2225 (February 2022)
2 months ago by @scadsfct
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Rosetta;
SCN5A;
cardiac
channels
channels;
docking;
electrophysiology;
molecular
mutagenesis;
site-directed
sodium
topic_lifescience
toxins;
veratridine;
voltage-gated
Rosetta;SCN5A;cardiacchannelschannels;docking;electrophysiology;molecularmutagenesis;site-directedsodiumtopic_lifesciencetoxins;veratridine;voltage-gated
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1Analysis of GPRC6A variants in different pancreatitis etiologies
T. Kaune, C. Ruffert, N. Hesselbarth, M. Damm, S. Krug, J. Cardinal von Widdern, E. Masson, J. Chen, V. Rebours, L. Buscail and 23 other author(s). Pancreatology, 20 (7): 1262--1267 (October 2020)
2 months ago by @scadsfct
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Calcium;
G-Protein
Genetics;
Inflammation;
Pancreatitis
coupled
receptor;
topic_lifescience
Calcium;G-ProteinGenetics;Inflammation;Pancreatitiscoupledreceptor;topic_lifescience
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1Explainable artificial intelligence in skin cancer recognition: A systematic review
K. Hauser, A. Kurz, S. Haggenmüller, R. Maron, C. von Kalle, J. Utikal, F. Meier, S. Hobelsberger, F. Gellrich, M. Sergon and 23 other author(s). Eur. J. Cancer, (May 2022)
2 months ago by @scadsfct
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Artificial
Dermatology;
Man-machine
Skin
Systematic
intelligence;
neoplasms;
review
systems;
topic_lifescience
ArtificialDermatology;Man-machineSkinSystematicintelligence;neoplasms;reviewsystems;topic_lifescience
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1RosettaCM for antibodies with very long HCDR3s and low template availability
P. Kodali, C. Schoeder, S. Schmitz, J. Crowe, Jr, and J. Meiler. Proteins, 89 (11): 1458--1472 (November 2021)
2 months ago by @scadsfct
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Rosetta;
antibody;
benchmark;
homology
loop
modeling;
prediction;
structure
topic_lifescience
Rosetta;antibody;benchmark;homologyloopmodeling;prediction;structuretopic_lifescience
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1Deep learning improves pancreatic cancer diagnosis using RNA-based variants
A. Al-Fatlawi, N. Malekian, S. Garc\'ıa, A. Henschel, I. Kim, A. Dahl, B. Jahnke, P. Bailey, S. Bolz, A. Poetsch and 4 other author(s). Cancers (Basel), 13 (11): 2654 (May 2021)
2 months ago by @scadsfct
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association
cancer;
chronic
deep
learning;
pancreatic
pancreatitis;
study
topic_lifescience
transcriptome-wide
associationcancer;chronicdeeplearning;pancreaticpancreatitis;studytopic_lifesciencetranscriptome-wide
(0)
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1A highly contiguous genome assembly of the bat hawkmoth Hyles vespertilio (Lepidoptera: Sphingidae)
M. Pippel, D. Jebb, F. Patzold, S. Winkler, H. Vogel, G. Myers, M. Hiller, and A. Hundsdoerfer. Gigascience, (January 2020)
2 months ago by @scadsfct
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PacBio
annotation;
assembly;
comparison
gene
genome
hawkmoth-silk
long
moth
reads;
topic_lifescience
PacBioannotation;assembly;comparisongenegenomehawkmoth-silklongmothreads;topic_lifescience
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1Integration of deep learning-based image analysis and genomic data in cancer pathology: A systematic review
L. Schneider, S. Laiouar-Pedari, S. Kuntz, E. Krieghoff-Henning, A. Hekler, J. Kather, T. Gaiser, S. Fröhling, and T. Brinker. Eur. J. Cancer, (January 2022)
2 months ago by @scadsfct
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Biomarker
Cancer;
Convolutional
Multimodal
Omics
fusion;
identification;
networks;
neural
topic_lifescience
BiomarkerCancer;ConvolutionalMultimodalOmicsfusion;identification;networks;neuraltopic_lifescience
(0)
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1Modeling of protein conformational changes with Rosetta guided by limited experimental data
D. Sala, D. Del Alamo, H. Mchaourab, and J. Meiler. Structure, 30 (8): 1157--1168.e3 (August 2022)
2 months ago by @scadsfct
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EPR
Rosetta;
biology;
changes;
conformational
dynamics;
integrative
modeling;
molecular
protein
refinement
spectroscopy;
structural
structure
topic_lifescience
EPRRosetta;biology;changes;conformationaldynamics;integrativemodeling;molecularproteinrefinementspectroscopy;structuralstructuretopic_lifescience
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1Identifying digenic disease genes via machine learning in the Undiagnosed Diseases Network
S. Mukherjee, J. Cogan, J. Newman, J. Phillips, 3rd, R. Hamid, Undiagnosed Diseases Network, J. Meiler, and J. Capra. Am. J. Hum. Genet., 108 (10): 1946--1963 (October 2021)
2 months ago by @scadsfct
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Diseases
Network;
UDN;
Undiagnosed
clinical
digenic
disease
disease;
learning;
machine
oligogenic
prediction;
rare
topic_lifescience
DiseasesNetwork;UDN;Undiagnosedclinicaldigenicdiseasedisease;learning;machineoligogenicprediction;raretopic_lifescience
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1Introduction to the BioChemical Library (BCL): An application-based open-source toolkit for integrated cheminformatics and machine learning in computer-aided drug discovery
B. Brown, O. Vu, A. Geanes, S. Kothiwale, M. Butkiewicz, E. Lowe, Jr, R. Mueller, R. Pape, J. Mendenhall, and J. Meiler. Front. Pharmacol., (February 2022)
2 months ago by @scadsfct
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BCL;
QSAR;
biochemical
cheminformatics;
deep
design;
discovery;
drug
library;
network;
neural
open-source
topic_lifescience
BCL;QSAR;biochemicalcheminformatics;deepdesign;discovery;druglibrary;network;neuralopen-sourcetopic_lifescience
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1MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes
M. Nata'ala, A. Avila Santos, J. Coelho Kasmanas, A. Bartholomäus, J. Saraiva, S. Godinho Silva, T. Keller-Costa, R. Costa, N. Gomes, A. Ponce de Leon Ferreira de Carvalho and 3 other author(s). Environ. Microbiome, 17 (1): 57 (November 2022)
2 months ago by @scadsfct
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Database;
Marine
Metadata;
Metagenomics;
Microbial
ecology
microbiomes;
topic_lifescience
Database;MarineMetadata;Metagenomics;Microbialecologymicrobiomes;topic_lifescience
(0)
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1Tracing the evolution of the heterotrimeric G protein $\alpha$ subunit in Metazoa
A. Lokits, H. Indrischek, J. Meiler, H. Hamm, and P. Stadler. BMC Evol. Biol., 18 (1): 51 (April 2018)
2 months ago by @scadsfct
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Evolution;
G
Genome
Heterotrimeric
Orthology;
Paralog;
Whole
annotation;
coupled
duplication
genome
protein
protein;
receptors;
topic_lifescience
Evolution;GGenomeHeterotrimericOrthology;Paralog;Wholeannotation;coupledduplicationgenomeproteinprotein;receptors;topic_lifescience
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1Common genetic variation indicates separate causes for periventricular and deep white matter hyperintensities
N. Armstrong, K. Mather, M. Sargurupremraj, M. Knol, R. Malik, C. Satizabal, L. Yanek, W. Wen, V. Gudnason, N. Dueker and 76 other author(s). Stroke, 51 (7): 2111--2121 (July 2020)
2 months ago by @scadsfct
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association
brain;
factors;
genome-wide
matter
neuroimaging;
risk
study;
topic_lifescience
white
associationbrain;factors;genome-widematterneuroimaging;riskstudy;topic_lifesciencewhite
(0)
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1A Mastodon Corpus to Evaluate Federated Microblog Search
M. Wiegmann, J. Reimer, M. Ernst, M. Potthast, M. Hagen, and B. Stein. Proceedings of the First International Workshop on Open Web Search (WOWS 2024), 3689, page 37--49. CEUR Workshop Proceedings, (March 2024)
2 months ago by @scadsfct
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topic_lifescience
topic_lifescience
(0)
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1Comparison of atom maps
Interdisciplinary Center for Bioinformatics & Leipzig University, Leipzig, Germany, M. Gonzalez Laffitte, N. Beier, N. Domschke, and P. Stadler. Match (Mulh.), 90 (1): 75--102 (2023)
2 months ago by @scadsfct
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topic_lifescience
(0)
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1Resources for combining teaching and research in information retrieval coursework
M. Fröbe, H. Scells, T. Elstner, C. Akiki, L. Gienapp, J. Reimer, S. MacAvaney, B. Stein, M. Hagen, and M. Potthast. Proceedings of the 47th International ACM SIGIR Conference on Research and Development in Information Retrieval, 13, page 1115--1125. New York, NY, USA, ACM, (July 2024)
2 months ago by @scadsfct
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topic_lifescience
(0)
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1Sparse pseudocontact shift NMR data obtained from a non-canonical amino acid-linked lanthanide tag improves integral membrane protein structure prediction
K. Ledwitch, G. Künze, J. McKinney, E. Okwei, K. Larochelle, L. Pankewitz, S. Ganguly, H. Darling, I. Coin, and J. Meiler. J. Biomol. NMR, 77 (3): 69--82 (June 2023)
2 months ago by @scadsfct
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(IMPs);
(PCSs);
(ncAAs);
Click
Integral
Non-canonical
Pseudocontact
Rosetta;
Structure
acids
amino
chemistry;
membrane
prediction
proteins
shifts
topic_lifescience
(IMPs);(PCSs);(ncAAs);ClickIntegralNon-canonicalPseudocontactRosetta;Structureacidsaminochemistry;membranepredictionproteinsshiftstopic_lifescience
(0)
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1Hyperbolic deep learning in computer vision: A survey
P. Mettes, M. Atigh, M. Keller-Ressel, J. Gu, and S. Yeung. (2023)
2 months ago by @scadsfct
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topic_lifescience
(0)
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1Predictive Manufacturing -- Ein Intelligentes Überwachungssystem zur Erkennung von Anomalien im 3D-Druck
Universität Leipzig, B. Uhrich, S. Lange, Universität Leipzig, M. Carnot, Universität Leipzig, M. Schäfer, and SIEMENS AG Berlin. Ind. 4 0 Manag., 2023 (1): 27--31 (February 2023)
2 months ago by @scadsfct
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topic_lifescience
topic_lifescience
(0)
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1Streamlining intersectoral provision of real-world health data: a service platform for improved clinical research and patient care
K. Hoffmann, I. Nesterow, Y. Peng, E. Henke, D. Barnett, C. Klengel, M. Gruhl, M. Bartos, F. Nüßler, R. Gebler and 7 other author(s). Frontiers in Medicine, (2024)
2 months ago by @scadsfct
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topic_lifescience
(0)
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1CCR2 macrophage response determines the functional outcome following cardiomyocyte transplantation
P. Vasudevan, M. Wolfien, H. Lemcke, C. Lang, A. Skorska, R. Gaebel, A. Galow, D. Koczan, T. Lindner, W. Bergmann and 6 other author(s). Genome Med., 15 (1): 61 (August 2023)
2 months ago by @scadsfct
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Cell
Immunocompromised;
Machine
Macrophages;
Myocardial
Single-cell
infarction;
learning;
therapy;
topic_lifescience
CellImmunocompromised;MachineMacrophages;MyocardialSingle-cellinfarction;learning;therapy;topic_lifescience
(0)
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1Rosetta's predictive ability for low-affinity ligand binding in fragment-based drug discovery
E. Okwei, S. Smith, B. Bender, B. Allison, S. Ganguly, A. Geanes, X. Zhang, K. Ledwitch, and J. Meiler. Biochemistry, 62 (3): 700--709 (February 2023)
2 months ago by @scadsfct
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topic_lifescience
topic_lifescience
(0)
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1The information retrieval experiment platform (extended abstract)
M. Fröbe, J. Reimer, S. MacAvaney, N. Deckers, S. Reich, J. Bevendorff, B. Stein, M. Hagen, and M. Potthast. Proceedings of the Thirty-ThirdInternational Joint Conference on Artificial Intelligence, California, International Joint Conferences on Artificial Intelligence Organization, (August 2024)
2 months ago by @scadsfct
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topic_lifescience
(0)
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1Docking cholesterol to integral membrane proteins with Rosetta
B. Marlow, G. Kuenze, J. Meiler, and J. Koehler Leman. PLoS Comput. Biol., 19 (3): e1010947 (March 2023)
2 months ago by @scadsfct
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topic_lifescience
topic_lifescience
(0)
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1Mimicking clinical trials with synthetic acute myeloid leukemia patients using generative artificial intelligence
J. Eckardt, W. Hahn, C. Röllig, S. Stasik, U. Platzbecker, C. Müller-Tidow, H. Serve, C. Baldus, C. Schliemann, K. Schäfer-Eckart and 9 other author(s). npj Digital Medicine, 7 (1): 76 (March 2024)
2 months ago by @scadsfct
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topic_lifescience
topic_lifescience
(0)
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1Benchmarking AlphaFold2 on peptide structure prediction
E. McDonald, T. Jones, L. Plate, J. Meiler, and A. Gulsevin. Structure, 31 (1): 111--119.e2 (January 2023)
2 months ago by @scadsfct
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AlphaFold2;
benchmark;
bonds;
disulfide
folding;
pLDDT;
peptides;
prediction
protein
structure
topic_lifescience
AlphaFold2;benchmark;bonds;disulfidefolding;pLDDT;peptides;predictionproteinstructuretopic_lifescience
(0)
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1Targeting in silico GPCR conformations with ultra-large library screening for hit discovery
D. Sala, H. Batebi, K. Ledwitch, P. Hildebrand, and J. Meiler. Trends Pharmacol. Sci., 44 (3): 150--161 (March 2023)
2 months ago by @scadsfct
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AlphaFold;
GPCR;
biased
discovery;
drug
library
ligands;
structure-based
topic_lifescience
ultra-large
AlphaFold;GPCR;biaseddiscovery;druglibraryligands;structure-basedtopic_lifescienceultra-large
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1§ 10 Benachrichtigung der von einer Verletzung des Schutzes personenbezogener Daten betroffenen Person
J. Weil. page 126–138. Nomos, 1. Auflage edition, (2023)
2 months ago by @scadsfct
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topic_lifescience
(0)
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1Maschinelles Lernen in der Sekundarstufe I erlebbar machen: Workshop-Konzept zur Entwicklung einer intelligenten Museumsapp
E. Marx, and N. Bergner. (2023)
2 months ago by @scadsfct
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topic_lifescience
topic_lifescience
(0)
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1The information retrieval experiment platform
M. Fröbe, J. Reimer, S. MacAvaney, N. Deckers, S. Reich, J. Bevendorff, B. Stein, M. Hagen, and M. Potthast. Proceedings of the 46th International ACM SIGIR Conference on Research and Development in Information Retrieval, New York, NY, USA, ACM, (July 2023)
2 months ago by @scadsfct
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topic_lifescience
topic_lifescience
(0)
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1Overview of touché 2023: Argument and causal retrieval
A. Bondarenko, M. Fröbe, J. Kiesel, F. Schlatt, V. Barriere, B. Ravenet, L. Hemamou, S. Luck, J. Reimer, B. Stein and 2 other author(s). Lecture Notes in Computer Science, Springer Nature Switzerland, Cham, (2023)
2 months ago by @scadsfct
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topic_lifescience
topic_lifescience
(0)
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1Argumentation frameworks induced by assumption-based argumentation: Relating size and complexity
T. Lehtonen, A. Rapberger, M. Ulbricht, and J. Wallner. Proceedings of the Twentieth International Conference on Principles of Knowledge Representation and Reasoning, page 440--450. California, International Joint Conferences on Artificial Intelligence Organization, (September 2023)
2 months ago by @scadsfct
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topic_lifescience
topic_lifescience
(0)
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1The Archive Query Log: Mining millions of search result pages of hundreds of search engines from 25 years of web archives
J. Reimer, S. Schmidt, M. Fröbe, L. Gienapp, H. Scells, B. Stein, M. Hagen, and M. Potthast. (2023)
2 months ago by @scadsfct
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topic_lifescience
topic_lifescience
(0)
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1Improving the modeling of extracellular ligand binding pockets in RosettaGPCR for conformational selection
F. Liessmann, G. Künze, and J. Meiler. Int. J. Mol. Sci., (April 2023)
2 months ago by @scadsfct
show all tags
Rosetta;
RosettaGPCR;
discovery;
docking;
drug
homology
ligand
modeling;
pocket
refinement
topic_lifescience
Rosetta;RosettaGPCR;discovery;docking;drughomologyligandmodeling;pocketrefinementtopic_lifescience
(0)
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1Biasing AlphaFold2 to predict GPCRs and kinases with user-defined functional or structural properties
D. Sala, P. Hildebrand, and J. Meiler. Front. Mol. Biosci., (February 2023)
2 months ago by @scadsfct
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(G-protein-coupled
AlphaFold;
GPCRs
function;
kinases;
prediction
protein
receptors);
structure
topic_lifescience
(G-protein-coupledAlphaFold;GPCRsfunction;kinases;predictionproteinreceptors);structuretopic_lifescience
(0)
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1Multiclass prediction of different dementia syndromes based on multi-centric volumetric MRI imaging
L. Lampe, H. Huppertz, S. Anderl-Straub, F. Albrecht, T. Ballarini, S. Bisenius, K. Mueller, S. Niehaus, K. Fassbender, K. Fliessbach and 13 other author(s). NeuroImage Clin., 37 (103320): 103320 (January 2023)
2 months ago by @scadsfct
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Dementia;
Diagnosis;
MRI;
Machine
Neurodegeneration;
Volumetry
learning;
topic_lifescience
unit_test
Dementia;Diagnosis;MRI;MachineNeurodegeneration;Volumetrylearning;topic_lifescienceunit_test
(0)
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1A belowground perspective on the nexus between biodiversity change, climate change, and human well-being
N. Eisenhauer, K. Frank, A. Weigelt, B. Bartkowski, R. Beugnon, K. Liebal, M. Mahecha, M. Quaas, D. Al-Halbouni, A. Bastos and 38 other author(s). Journal of Sustainable Agriculture and Environment, 3 (2): e212108 (2024)
2 months ago by @scadsfct
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biodiversity
change,
climate
human
soil
topic_lifescience
well-being,
biodiversitychange,climatehumansoiltopic_lifesciencewell-being,
(0)
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