HITS Publications

2019

• Suman SK, Daday C, Ferraro T, Vuong-Brender T, Tak S, Quintin S, Robin F, Gräter F, Labouesse M (2019). The plakin domain of C. elegans VAB-10/plectin acts as a hub in a mechanotransduction pathway to promote morphogenesis, Development 146(24):dev183780 1097
• Bauswein A (2019). Equation of state constraints from multi-messenger observations of neutron star mergers, Annals of Physics 411:167958 1045
• Kirsebom O, Jones S, Strömberg D, Martínez-Pinedo G, Langanke K, Röpke F, Brown B, Eronen T, Fynbo H, Hukkanen M, Idini A, Jokinen A, Kankainen A, Kostensalo J, Moore I, Möller H, Ohlmann S, Penttilä H, Riisager K, Rinta-Antila S, Srivastava P, Suhonen J, Trzaska W, Äystö J (2019). Discovery of an Exceptionally Strong β -Decay Transition of F 20 and Implications for the Fate of Intermediate-Mass Stars, Phys. Rev. Lett. 123(26) 1125
• Ott A (2019). Transgression in bounded cohomology and a conjecture of Monod, J. Topol. Anal.:1-40 955
• Sekulić I, Strube M (2019). Adapting deep learning methods for mental health prediction on social media, In Proceedings of the 5th Workshop on Noisy User-generated Text, Hong Kong, 4 November 2019, pp. 322-327 1044
• Zhu Y, Heinzerling B, Vulic I, Strube M, Reichart R, Korhonen A (2019). On the importance of subword information for morphological tasks in truly low-resource languages, In Proceedings of the 23rd Conference on Computational Natural Language Learning, Hong Kong, 3-4 November 2019, pp. 216-226 1043
• Bauswein A, Stergioulas N (2019). Spectral classification of gravitational-wave emission and equation of state constraints in binary neutron star mergers, J. Phys. G: Nucl. Part. Phys. 46(11):113002 1046
• Huber S, Suyu S, Noebauer U, Bonvin V, Rothchild D, Chan J, Awan H, Courbin F, Kromer M, Marshall P, Oguri M, Ribeiro T, Collaboration LDES (2019). Strongly lensed SNe Ia in the era of LSST: observing cadence for lens discoveries and time-delay measurements, A&A 631:A161 1054
• Petit V, Wade G, Schneider F, Foßati L, Kamp K, Neiner C, David-Uraz A, Alecian E, Collaboration M (2019). The MiMeS survey of magnetism in massive stars: magnetic properties of the O-type star population, Monthly Notices of the Royal Astronomical Society 489(4):5669-5687 1062
• Bruce NJ, Narzi D, Trpevski D, Keulen SCv, Nair AG, Röthlisberger U, Wade RC, Carloni P, Kotaleski JH (2019). Regulation of adenylyl cyclase 5 in striatal neurons confers the ability to detect coincident neuromodulatory signals, PLoS Comput Biol 15(10):e1007382 544
• Breitling P, Stamatakis A, Chernomor O, Bettisworth B, Reszczynski L (2019). Empirical Analysis of Phylogenetic Quasi-Terraces, biorxiv;810309v1,[Preprint] 476
• Bläker H, Haupt S, Morak M, Holinski-Feder E, Arnold A, Horst D, Sieber-Frank J, Seidler F, Winterfeld Mv, Alwers E, Chang-Claude J, Brenner H, Roth W, Engel C, Löffler M, Möslein G, Schackert H, Weitz J, Perne C, Aretz S, Hüneburg R, Schmiegel W, Vangala D, Rahner N, Steinke-Lange V, Heuveline V, Doeberitz MvK, Ahadova A, Hoffmeister M, Kloor M (2019). BRAF mutation testing of MSI CRCs in Lynch syndrome diagnostics: performance and efficiency according to patient‘s age, medrxiv;19009274v1,[Preprint] 1111
• Comte N, Morel B, Hasic D, Guéguen L, Boussau B, Daubin V, Penel S, Scornavacca C, Gouy M, Stamatakis A, Tannier E, Parsons DP (2019). Treerecs: an integrated phylogenetic tool, from sequences to reconciliations, biorxiv;782946v1,[Preprint] 477
• Schneider FRN, Ohlmann ST, Podsiadlowski P, Röpke FK, Balbus SA, Pakmor R, Springel V (2019). Stellar mergers as the origin of magnetic massive stars, Nature 574(7777):211-214 1163
• Nuñez FP, Gianniotis N, Blex J, Lisow T, Chini R, Polsterer KL, Pott J, Esser J, Pietrzyński G (2019). Optical continuum photometric reverberation mapping of the Seyfert-1 galaxy Mrk509, Monthly Notices of the Royal Astronomical Society 490(3):3936-3951 474
• Galvin TJ, Huynh M, Norris RP, Wang XR, Hopkins E, Wong OI, Shabala S, Rudnick L, Alger MJ, Polsterer KL (2019). Radio Galaxy Zoo: Knowledge Transfer Using Rotationally Invariant Self-organizing Maps, PASP 131(1004):108009 1035
• Watson D, Hansen CJ, Selsing J, Koch A, Malesani DB, Andersen AC, Fynbo JPU, Arcones A, Bauswein A, Covino S, Grado A, Heintz KE, Hunt L, Kouveliotou C, Leloudas G, Levan AJ, Mazzali P, Pian E (2019). Identification of strontium in the merger of two neutron stars, Nature 574(7779):497-500 1047
• Galbany L, Ashall C, Höflich P, González-Gaitán S, Taubenberger S, Stritzinger M, Hsiao EY, Mazzali P, Baron E, Blondin S, Bose S, Bulla M, Burke JF, Burns CR, Cartier R, Chen P, Valle MD, Diamond TR, Gutiérrez CP, Harmanen J, Hiramatsu D, Holoien TW, Hosseinzadeh G, Howell DA, Huang Y, Inserra C, Jaeger Td, Jha SW, Kangas T, Kromer M, Lyman JD, Maguire K, Marion GH, Milisavljevic D, Prentice SJ, Razza A, Reynolds TM, Sand DJ, Shappee BJ, Shekhar R, Smartt SJ, Stassun KG, Sullivan M, Valenti S, Villanueva S, Wang X, Wheeler JC, Zhai Q, Zhang J (2019). Evidence for a Chandrasekhar-mass explosion in the Ca-strong 1991bg-like type Ia supernova 2016hnk, A&A 630:A76 1053
• Hopkins E (2019). Semi-Automated Morphological Classification of All Radio Galaxies in the FIRST Survey Catalog Including Near-IR Counterparts in UKIDSS (Master's Thesis) 1640
• Morel B, Kozlov AM, Stamatakis A, Szöllősi GJ (2019). GeneRax: A tool for species tree-aware maximum likelihood based gene tree inference under gene duplication, transfer, and loss, biorxiv;779066v1,[Preprint] 483
• Nunes-Alves A (2019). From Brazil to Germany: Challenges and Advantages, J. Chem. Inf. Model. 60(2):449-451 742
• Jones S, Côté B, Röpke FK, Wanajo S (2019). A New Model for Electron-capture Supernovae in Galactic Chemical Evolution, ApJ 882(2):170 1066
• Müller M, Bannister A, Reitz F (2019). Off-the-shelf Semantic Author Name Disambiguation for Bibliographic Data Bases, In Proceedings of the 23rd International Conference on Theory and Practice of Digital Libraries (TPDL), Oslo, Norway, 9-12 September, pp. 397-400 1038
• Caetano-Anollés G, Aziz MF, Mughal F, Gräter F, Koç I, Caetano-Anollés K, Caetano-Anollés D (2019). Emergence of Hierarchical Modularity in Evolving Networks Uncovered by Phylogenomic Analysis., Evol Bioinform Online 15:1176934319872980 1120
• Perron U, Kozlov AM, Stamatakis A, Goldman N, Moal IH (2019). Modeling Structural Constraints on Protein Evolution via Side-Chain Conformational States, Molecular Biology and Evolution 36(9):2086-2103 484
• Mustafa G, Nandekar PP, Bruce NJ, Wade RC (2019). Differing Membrane Interactions of Two Highly Similar Drug-Metabolizing Cytochrome P450 Isoforms: CYP 2C9 and CYP 2C19, IJMS 20(18):4328 935
• Calogeropoulou T, Magoulas GE, Pöhner I, Panecka-Hofman J, Linciano P, Ferrari S, Santarem N, Jiménez-Antón MD, Olías-Molero AI, Alunda JM, Silva ACd, Wade RC, Costi MP (2019). Hits and Lead Discovery in the Identification of New Drugs against the Trypanosomatidic Infections, Medicinal Chemistry of Neglected and Tropical Diseases: Advances in the Design and Synthesis of Antimicrobial Agents, Eds Venkatesan Jayaprakash, Daniele Castagnolo, Yusuf Özkay, Chapter 10, pp 185-231, CRC Press 727
• Zhou X, Lutteropp S, Czech L, Stamatakis A, Looz MV, Rokas A (2019). Quartet-Based Computations of Internode Certainty Provide Robust Measures of Phylogenetic Incongruence, Systematic Biology 69(2):308–324 904
• Laehnemann D, Köster J, Szczurek E, McCarthy DJ, Hicks SC, Robinson MD, Vallejos CA, Beerenwinkel N, Campbell KR, Mahfouz A, Pinello L, Skums P, Stamatakis A, Attolini CS, Aparicio S, Baaijens J, Balvert M, Barbanson Bd, Cappuccio A, Corleone G, Dutilh BE, Florescu M, Guryev V, Holmer R, Jahn K, Lobo TJ, Keizer EM, Khatri I, Kiełbasa SM, Korbel JO, Kozlov AM, Kuo T, Lelieveldt BP, Mandoiu II, Marioni JC, Marschall T, Mölder F, Niknejad A, Rączkowski Ł, Reinders M, Ridder Jd, Saliba A, Somarakis A, Stegle O, Theis FJ, Yang H, Zelikovsky A, McHardy AC, Raphael BJ, Shah SP, Schönhuth A (2019). 12 Grand Challenges in Single-Cell Data Science, e27885v3,[Preprint] 481
• Darriba D, Posada D, Kozlov AM, Stamatakis A, Morel B, Flouri T (2019). ModelTest-NG: A New and Scalable Tool for the Selection of DNA and Protein Evolutionary Models, Molecular Biology and Evolution 37(1):291-294 478
• Fatima M, Müller M (2019). HITS-SBD at the FinSBD Task: Machine Learning vs. Rule-based Sentence Boundary Detection, In Proceedings of the 1st Workshop on Financial Technology and Natural Language Processing (FinNLP) @ IJCAI 2019, Macau, China, 10-12 August, pp. 115-121 1037
• Bruce NJ, Ganotra GK, Richter S, Wade RC (2019). KBbox: A Toolbox of Computational Methods for Studying the Kinetics of Molecular Binding, J. Chem. Inf. Model. 59(9):3630-3634 543
• López F, Heinzerling B, Strube M (2019). Fine-Grained Entity Typing in Hyperbolic Space, In Proceedings of The Fourth Workshop on Representation Learning for NLP (Rep4NLP) @ ACL 2019, Florence, Italy, 2 August 2019, pp. 169-180 1040
• Horowitz CJ, Arcones A, Côté B, Dillmann I, Nazarewicz W, Roederer IU, Schatz H, Aprahamian A, Atanasov D, Bauswein A, Beers TC, Bliss J, Brodeur M, Clark JA, Frebel A, Foucart F, Hansen CJ, Just O, Kankainen A, McLaughlin GC, Kelly JM, Liddick SN, Lee DM, Lippuner J, Martin D, Mendoza-Temis J, Metzger BD, Mumpower MR, Perdikakis G, Pereira J, O’Shea BW, Reifarth R, Rogers AM, Siegel DM, Spyrou A, Surman R, Tang X, Uesaka T, Wang M (2019). r-process nucleosynthesis: connecting rare-isotope beam facilities with the cosmos, J. Phys. G: Nucl. Part. Phys. 46(8):083001 1048
• Seelig T, Meyer A, Gerstner P, Meier M, Jongmanns M, Baumann M, Heuveline V, Egbers C (2019). Dielectrophoretic force driven convection in annular geometry under Earth’s gravity, International Journal of Heat and Mass Transfer 139:386-398 1115
• Heinzerling B, Strube M (2019). Sequence Tagging with Contextual and Non-Contextual Subword Representations: A Multilingual Evaluation, In Proceedings of the 57th Annual Meeting of the Association for Computational Linguistics, Florence, Italy, 28 July – 2 August 2019, pp. 273-291 1036
• Moosavi NS, Born L, Poesio M, Strube M (2019). Using Automatically Extracted Minimum Spans to Disentangle Coreference Evaluation from Boundary Detection, In Proceedings of the 57th Annual Meeting of the Association for Computational Linguistics, Florence, Italy, 28 July – 2 August 2019, pp. 4168-4178 1039
• Taubenberger S, Floers A, Vogl C, Kromer M, Spyromilio J, Aldering G, Antilogus P, Bailey S, Baltay C, Bongard S, Boone K, Buton C, Chotard N, Copin Y, Dixon S, Fouchez D, Fransson C, Gangler E, Gupta RR, Hachinger S, Hayden B, Hillebrandt W, Kim AG, Kowalski M, Leget P, Leibundgut B, Mazzali PA, Noebauer UM, Nordin J, Pain R, Pakmor R, Pecontal E, Pereira R, Perlmutter S, Ponder KA, Rabinowitz D, Rigault M, Rubin D, Runge K, Saunders C, Smadja G, Tao C, Thomas RC (2019). SN 2012dn from early to late times: 09dc-like supernovae reassessed, Monthly Notices of the Royal Astronomical Society 488(4):5473-5488 1055
• Golebiewski M, Waltemath D (2019). Proceedings of the 10th Computational Modeling in Biology Network (COMBINE) Meeting 2019, Golebiewski, Martin, & Waltemath, Dagmar. (2019). Proceedings of the 10th Computational Modeling in Biology Network (COMBINE) Meeting 2019. 10th Computational Modeling in Biology Network (COMBINE) meeting 2019 (COMBINE 2019), Heidelberg, Germany. Zenodo. https://doi.org/10.5281/zenodo.3763159 1669
• Gianniotis N (2019). Mixed Variational Inference, 2019 International Joint Conference on Neural Networks (IJCNN),pp.1-8,IEEE 487
• DASKALOPOULOS G, MESE C, SANDERS A, VDOVINA A (2019). Surface groups acting on CAT (-1) spaces, Ergod. Th. Dynam. Sys. 39(7):1843-1856 961
• Goicovic FG, Springel V, Ohlmann ST, Pakmor R (2019). Hydrodynamical moving-mesh simulations of the tidal disruption of stars by supermassive black holes, Monthly Notices of the Royal Astronomical Society 487(1):981-992 1069
• Schreiber F, Sommer B, Bader GD, Gleeson P, Golebiewski M, Hucka M, Keating SM, König M, Myers C, Nickerson D, Waltemath D (2019). Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2019, Journal of Integrative Bioinformatics 16(2) 1071
• Ardevol-Pulpillo R, Janka H, Just O, Bauswein A (2019). Improved leakage-equilibration-absorption scheme (ILEAS) for neutrino physics in compact object mergers, Monthly Notices of the Royal Astronomical Society 485(4):4754-4789 1049
• Dufton PL, Evans CJ, Hunter I, Lennon DJ, Schneider FRN (2019). A census of massive stars in NGC 346. Stellar parameters and rotational velocities, A&A 626:A50 1060
• Ferrand G, Warren DC, Ono M, Nagataki S, Röpke FK, Seitenzahl IR (2019). From Supernova to Supernova Remnant: The Three-dimensional Imprint of a Thermonuclear Explosion, ApJ 877(2):136 1067
• Shingles L, Sim S, Kromer M, Maguire K, Bulla M, Collins C, Ballance C, Michel A, Ramsbottom C, Ropke F, Seitenzahl I, Tyndall N (2019). Late-phase radiative transfer of Type Ia supernovae, In Supernova Remnants: An Odyssey in Space after Stellar Death II, p. 151 1240
• Ferrand G, Warren D, Ono M, Nagataki S, Röpke F, Seitenzahl I (2019). From the (thermonuclear) supernova to the supernova remnant, In Supernova Remnants: An Odyssey in Space after Stellar Death II, p. 102 1241
• Lach F, Röpke F, Kromer M (2019). Type Iax Supernovae from Deflagrations of Chandrasekhar Mass White Dwarfs, In Supernova Remnants: An Odyssey in Space after Stellar Death II, p. 101 1242
• Gronow S, Röpke F (2019). A sub-Chandrasekhar mass white dwarf as possible progenitor for a thermonuclear explosion, In Supernova Remnants: An Odyssey in Space after Stellar Death II, p. 95 1243
• Schween N, Meyer-Hübner N, Gerstner P, Heuveline V (2019). A time step reduction method for Multi-Period Optimal Power Flow problems, EMCL PrePrint Series, No 02 [Preprint] 1114
• Czech L, Barbera P, Stamatakis A (2019). Genesis and Gappa: Processing, Analyzing and Visualizing Phylogenetic (Placement) Data, biorxiv;647958v3,[Preprint] 480
• Kokh DB, Kaufmann T, Kister B, Wade RC (2019). Machine Learning Analysis of τRAMD Trajectories to Decipher Molecular Determinants of Drug-Target Residence Times, Front. Mol. Biosci. 6,36 548
• Müller M (2019). Semantic Matching of Documents from Heterogeneous Collections: A Simple and Transparent Method for Practical Applications, In Proceedings of the RELATIONS Workshop on Meaning Relations between Phrases and Sentences @ IWCS 2019, Gothenburg, Sweden, 23 May 2019, pp. 34-41 1041
• Zhang Y, Xia K, Cao Z, Gräter F, Xia F (2019). A new method for the construction of coarse-grained models of large biomolecules from low-resolution cryo-electron microscopy data, Phys. Chem. Chem. Phys. 21(19):9720-9727 1104
• Alessandrini D (2019). Higgs Bundles and Geometric Structures on Manifolds, SIGMA 15 039：32 978
• Kozlov AM, Stamatakis A (2019). Using RAxML-NG in Practice, [Preprint] 951
• Jamy M, Foster R, Barbera P, Czech L, Kozlov A, Stamatakis A, Baß D, Burki F (2019). Long metabarcoding of the eukaryotic rDNA operon to phylogenetically and taxonomically resolve environmental diversity, Mol Ecol Resour.00:1-15 479
• Baar I, Hubner L, Oettig P, Zapletal A, Schlag S, Stamatakis A, Morel B (2019). Data Distribution for Phylogenetic Inference with Site Repeats via Judicious Hypergraph Partitioning, 2019 IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW),pp.175-184,IEEE 741
• Martynov D, Miao H, Yang H, Vivanco FH, Thrane E, Smith R, Lasky P, East WE, Adhikari R, Bauswein A, Brooks A, Chen Y, Corbitt T, Freise A, Grote H, Levin Y, Zhao C, Vecchio A (2019). Exploring the sensitivity of gravitational wave detectors to neutron star physics, Phys. Rev. D 99(10) 1050
• Owocki SP, Hirai R, Podsiadlowski P, Schneider FRN (2019). Hydrodynamical simulations and similarity relations for eruptive mass-loss from massive stars, Monthly Notices of the Royal Astronomical Society 485(1):988-1000 1059
• Timmes F, Fryer C, Timmes F, Hungerford AL, Couture A, Adams F, Aoki W, Arcones A, Arnett D, Auchettl K, Avila M, Badenes C, Baron E, Bauswein A, Beacom J, Blackmon J, Blondin S, Bloser P, Boggs S, Boss A, Brandt T, Bravo E, Brown E, Brown P, Bruenn S, Budtz-Jørgensen C, Burns E, Calder A, Caputo R, Champagne A, Chevalier R, Chieffi A, Chipps K, Cinabro D, Clarkson O, Clayton D, Coc A, Connolly D, Conroy C, Côté B, Couch S, Dauphas N, deBoer RJ, Deibel C, Denisenkov P, Desch S, Dessart L, Diehl R, Doherty C, Domı́nguez I, Dong S, Dwarkadas V, Fan D, Fields B, Fields C, Filippenko A, Fisher R, Foucart F, Fransson C, Fröhlich C, Fuller G, Gibson B, Giryanskaya V, Görres J, Goriely S, Grebenev S, Grefenstette B, Grohs E, Guillochon J, Harpole A, Harris C, Harris JA, Harrison F, Hartmann D, Hashimoto M, Heger A, Hernanz M, Herwig F, Hirschi R, Hix RW, Höflich P, Hoffman R, Holcomb C, Hsiao E, Iliadis C, Janiuk A, Janka T, Jerkstrand A, Johns L, Jones S, José J, Kajino T, Karakas A, Karpov P, Kasen D, Kierans C, Kippen M, Korobkin O, Kobayashi C, Kozma C, Krot S, Kumar P, Kuvvetli I, Laird A, Laming (M, Larsson J, Lattanzio J, Lattimer J, Leising M, Lennarz A, Lentz E, Limongi M, Lippuner J, Livne E, Lloyd-Ronning N, Longland R, Lopez LA, Lugaro M, Lutovinov A, Madsen K, Malone C, Matteucci F, McEnery J, Meisel Z, Messer B, Metzger B, Meyer B, Meynet G, Mezzacappa A, Miller J, Miller R, Milne P, Misch W, Mitchell L, Mösta P, Motizuki Y, Müller B, Mumpower M, Murphy J, Nagataki S, Nakar E, Nomoto K, Nugent P, Nunes F, O’Shea B, Oberlack U, Pain S, Parker L, Perego A, Pignatari M, Pinedo GM, Plewa T, Poznanski D, Priedhorsky W, Pritychenko B, Radice D, Ramirez-Ruiz E, Rauscher T, Reddy S, Rehm E, Reifarth R, Richman D, Ricker P, Rijal N, Roberts L, Röpke F, Rosswog S, Ruiter AJ, Ruiz C, Savin DW, Schatz H, Schneider D, Schwab J, Seitenzahl I, Shen K, Siegert T, Sim S, Smith D, Smith K, Smith M, Sollerman J, Sprouse T, Spyrou A, Starrfield S, Steiner A, Strong AW, Sukhbold T, Suntzeff N, Surman R, Tanimori T, The L, Thielemann F, Tolstov A, Tominaga N, Tomsick J, Townsley D, Tsintari P, Tsygankov S, Vartanyan D, Venters T, Vestrand T, Vink J, Waldman R, Wang L, Wang X, Warren M, West C, Wheeler JC, Wiescher M, Winkler C, Winter L, Wolf B, Woolf R, Woosley S, Wu J, Wrede C, Yamada S, Young P, Zegers R, Zingale M, Zwart SP (2019). Catching Element Formation In The Act ; The Case for a New MeV Gamma-Ray Mission: Radionuclide Astronomy in the 2020s, Bulletin of the American Astronomical Society 51(3):2 1068
• Herrera-Rodríguez AM, Miletić V, Aponte-Santamaría C, Gräter F (2019). Molecular Dynamics Simulations of Molecules in Uniform Flow, Biophysical Journal 116(9):1579-1585 1103
• Calzetti D, Bastian N, Conroy C, Elmegreen BG, Gallagher JS, Krumholz M, Mink SEd, Offner SS, Sabbi E, Schneider FR, Wofford A, Wyse RF (2019). How Do Stars Form? Open Questions on the Stellar Initial Mass Function, Bulletin of the American Astronomical Society 51(3):231 1190
• Gryn'ova G, Corminboeuf C (2019). Conceptual Framework of Organic Electronics, chimia (aarau) 73(4):245-251 490
• Sheridan S, Gräter F, Daday C (2019). How Fast Is Too Fast in Force-Probe Molecular Dynamics Simulations?, J. Phys. Chem. B 123(17):3658-3664 1102
• Gerstner P, Baumann M, Heuveline V (2019). Analysis of the Stationary Thermal-ElectroHydrodynamic Boussinesq Equations, EMCL PrePrint Series, No 01 [Preprint] 1113
• Bauer MS, Baumann F, Daday C, Redondo P, Durner E, Jobst MA, Milles LF, Mercadante D, Pippig DA, Gaub HE, Gräter F, Lietha D (2019). Structural and mechanistic insights into mechanoactivation of focal adhesion kinase, Proc Natl Acad Sci USA 116(14):6766-6774 1101
• Wodak SJ, Paci E, Dokholyan NV, Berezovsky IN, Horovitz A, Li J, Hilser VJ, Bahar I, Karanicolas J, Stock G, Hamm P, Stote RH, Eberhardt J, Chebaro Y, Dejaegere A, Cecchini M, Changeux J, Bolhuis PG, Vreede J, Faccioli P, Orioli S, Ravasio R, Yan L, Brito C, Wyart M, Gkeka P, Rivalta I, Palermo G, McCammon JA, Panecka-Hofman J, Wade RC, Pizio AD, Niv MY, Nussinov R, Tsai C, Jang H, Padhorny D, Kozakov D, McLeish T (2019). Allostery in Its Many Disguises: From Theory to Applications, Structure 27(4):566-578 549
• Britavskiy N, Lennon DJ, Patrick LR, Evans CJ, Herrero A, Langer N, Loon JTv, Clark JS, Schneider FRN, Almeida LA, Sana H, Koter Ad, Taylor WD (2019). The VLT-FLAMES Tarantula Survey. XXX. Red stragglers in the clusters Hodge 301 and SL 639, A&A 624:A128 1057
• Patrick LR, Lennon DJ, Britavskiy N, Evans CJ, Sana H, Taylor WD, Herrero A, Almeida LA, Clark JS, Gieles M, Langer N, Schneider FRN, Loon JTv (2019). The VLT-FLAMES Tarantula Survey. XXXI. Radial velocities and multiplicity constraints of red supergiant stars in 30 Doradus, A&A 624:A129 1058
• Sansone S, McQuilton P, Rocca-Serra P, Gonzalez-Beltran A, Izzo M, Lister AL, Thurston M (2019). FAIRsharing as a community approach to standards, repositories and policies, Nat Biotechnol 37(4):358-367 1352
• Davis A, Jones S, Herwig F (2019). Convective boundary mixing in a post-He core burning massive star model, Monthly Notices of the Royal Astronomical Society 484(3):3921-3934 1484
• Neal ML, König M, Nickerson D, Mısırlı G, Kalbasi R, Dräger A, Atalag K, Chelliah V, Cooling MT, Cook DL, Crook S, Alba Md, Friedman SH, Garny A, Gennari JH, Gleeson P, Golebiewski M, Hucka M, Juty N, Myers C, Olivier BG, Sauro HM, Scharm M, Snoep JL, Touré V, Wipat A, Wolkenhauer O, Waltemath D (2019). Harmonizing semantic annotations for computational models in biology, Briefings in Bioinformatics 20(2):540-550 1072
• Moraes CB, Witt G, Kuzikov M, Ellinger B, Calogeropoulou T, Prousis KC, Mangani S, Pisa FD, Landi G, Iacono LD, Pozzi C, Freitas-Junior LH, Pascoalino BdS, Bertolacini CP, Behrens B, Keminer O, Leu J, Wolf M, Reinshagen J, Cordeiro-da-Silva A, Santarem N, Venturelli A, Wrigley S, Karunakaran D, Kebede B, Pöhner I, Müller W, Panecka-Hofman J, Wade RC, Fenske M, Clos J, Alunda JM, Corral MJ, Uliassi E, Bolognesi ML, Linciano P, Quotadamo A, Ferrari S, Santucci M, Borsari C, Costi MP, Gul S (2019). Accelerating Drug Discovery Efforts for Trypanosomatidic Infections Using an Integrated Transnational Academic Drug Discovery Platform, SLAS DISCOVERY: Advancing the Science of Drug Discovery 24(3):346-361 1075
• Brehm MA, Klemm U, Rehbach C, Erdmann N, Kolšek K, Lin H, Aponte-Santamaría C, Gräter F, Rauch BH, Riley AM, Mayr GW, Potter BV, Windhorst S (2019). Inositol hexakisphosphate increases the size of platelet aggregates, Biochemical Pharmacology 161:14-25 1099
• Daday C, Mateyka LM, Gräter F (2019). How ARVC-Related Mutations Destabilize Desmoplakin: An MD Study, Biophysical Journal 116(5):831-835 1100
• Gryn’ova G, Corminboeuf C (2019). Topology-Driven Single-Molecule Conductance of Carbon Nanothreads, J. Phys. Chem. Lett. 10(4):825-830 491
• Mustafa G, Nandekar PP, Camp TJ, Bruce NJ, Gregory MC, Sligar SG, Wade RC (2019). Influence of Transmembrane Helix Mutations on Cytochrome P450-Membrane Interactions and Function, Biophysical Journal 116(3):419-432 551
• Bauswein A, Bastian NF, Blaschke DB, Chatziioannou K, Clark JA, Fischer T, Oertel M (2019). Identifying a First-Order Phase Transition in Neutron-Star Mergers through Gravitational Waves, Phys. Rev. Lett. 122(6) 1051
• Torres-Rivas A, Chatziioannou K, Bauswein A, Clark JA (2019). Observing the post-merger signal of GW170817-like events with improved gravitational-wave detectors, Phys. Rev. D 99(4) 1052
• Jones S, Röpke FK, Fryer C, Ruiter AJ, Seitenzahl IR, Nittler LR, Ohlmann ST, Reifarth R, Pignatari M, Belczynski K (2019). Remnants and ejecta of thermonuclear electron-capture supernovae. Constraining oxygen-neon deflagrations in high-density white dwarfs, A&A 622:A74 1065
• D'Isanto A (2019). Probabilistic photometric redshift estimation in massive digital sky surveys via machine learning (Doctoral Thesis) 1480
• Lyonnais S, Sadiq SK, Lorca-Oró C, Dufau L, Nieto-Marquez S, Escriba T, Gabrielli N, Tan X, Ouizougun-Oubari M, Okoronkwo J, Reboud-Ravaux M, Gatell JM, Marquet R, Paillart J, Meyerhans A, Tisné C, Gorelick RJ, Mirambeau G (2019). The HIV-1 ribonucleoprotein dynamically regulates its condensate behavior and drives acceleration of protease activity through membrane-less granular phase-separation, biorxiv;528638v2,[Preprint] 1009
• Xu E, Bülow Sv, Chen P, Lenting PJ, Kolšek K, Aponte-Santamaría C, Simon B, Foot J, Obser T, Schneppenheim R, Gräter F, Denis CV, Wilmanns M, Hennig J (2019). Structure and dynamics of the platelet integrin-binding C4 domain of von Willebrand factor, Blood 133(4):366-376 1098
• Schmidt TT, Sharma S, Reyes GX, Gries K, Gross M, Zhao B, Yuan J, Wade R, Chabes A, Hombauer H (2019). A genetic screen pinpoints ribonucleotide reductase residues that sustain dNTP homeostasis and specifies a highly mutagenic type of dNTP imbalance, Nucleic Acids Research 47(1):237-252 728
• Hemri S (2019). Multi-model combination and seamless prediction, In Handbook of Hydrometeorological Ensemble Forecasting, Eds: Duan Q, Pappenberger F, Thielen J, Wood A, Cloke HL, Schaake JC, Springer-Verlag, pp. 285–307 53
• Zhang W, Mu G, Song C, Yan G, Heuveline V (2019). Extraction of Spatial-Temporal Features of Bus Loads in Electric Grids through Clustering in a Dynamic Model Space, IEEE Access 8:5852-5861 346
• Stanford NJ, Scharm M, Dobson PD, Golebiewski M, Hucka M, Kothamachu VB, Nickerson D, Owen S, Pahle J, Wittig U, Waltemath D, Goble C, Mendes P, Snoep J (2019). Data Management in Computational Systems Biology: Exploring Standards, Tools, Databases, and Packaging Best Practices, Yeast Systems Biology 2049:285-314,Springer New York 489
• Marshall DL, Gryn’ova G, Poad BL, Bottle SE, Trevitt AJ, Coote ML, Blanksby SJ (2019). Experimental Evidence for Long-Range Stabilizing and Destabilizing Interactions between Charge and Radical Sites in Distonic Ions, International Journal of Mass Spectrometry 435:195-203 492
• Wade RC, Salo-Ahen O (2019). Molecular Modeling in Drug Design, Molecules 24(2):321 552
• Biczok R (2019). Integration of internal and external gene expression and drug-perturbation data to empower novel immune therapies against Parkinson’s Disease (Master's Thesis), Computer Science, Karlsruhe Institute of Technology, Alexandros Stamatakis(HITS Tutor) 899
• Wegmann J (2019). Technical and Algorithmic Optimization of PaPaRa (Master's Thesis), Computer Science, Karlsruhe Institute of Technology, Alexandros Stamatakis(HITS Tutor) 900
• Breitling P (2019). Quantitave Analysis of Phylogenetic Quasi-Terraces (Master's Thesis), Computer Science, Karlsruhe Institute of Technology, Alexandros Stamatakis(HITS Tutor) 901
• Stamatakis A (2019). A review of approaches for optimizing phylogenetic likelihood calculations, In Bioinformatics and Phylogenetics, pp. 1–19, Springer 902
• Serdari D, Kostaki E, Paraskevis D, Stamatakis A, Kapli P (2019). Automated, phylogeny-based genotype delimitation of the Hepatitis Viruses HBV and HCV, PeerJ 7:e7754 905
• Mukherjee G, Nandekar P, Mustafa G, Richter S, Wade RC (2019). A Multi-resolution Approach to the Simulation of Protein Complexes in a Membrane Bilayer, High Performance Computing in Science and Engineering ' 18,pp.505-514,Springer International Publishing 934
• Collier B, Sanders A (2019). (G,P)-opers and global Slodowy slices, arXiv,math.DG,1911.12844 957
• Alessandrini D, Guichard O, Rogozinnikov E, Wienhard A (2019). Noncommutative coordinates for symplectic representations, arXiv,math.DG,1911.08014 964
• Pozzetti B, Sambarino A, Wienhard A (2019). Anosov representations with Lipschitz limit set, arXiv,math.DG,1910.06627 965
• Pozzetti B, Sambarino A, Wienhard A (2019). Conformality for a robust class of non-conformal attractors, arXiv,math.DG,1902.01303 966
• Burger M, Iozzi A, Parreau A, Pozzetti MB (2019). Currents, Systoles, and Compactifications of Character Varieties, arXiv,math.GT,1902.07680 971
• Franceschini F, Pozzetti MB (2019). The zero norm subspace of bounded cohomology of acylindrically hyperbolic groups, Comment. Math. Helv. 94(1):89-139 973
• Lee G, Marquis L (2019). Anti–de Sitter strictly GHC-regular groups which are not lattices, Trans. Amer. Math. Soc. 372(1):153-186 982
• Beyrer J, Fioravanti E (2019). Cross ratios on CAT(0) cube complexes and marked length-spectrum rigidity, arXiv,math.GT,1903.02447 990
• Beyrer J (2019). Marked length spectrum rigidity for actions on CAT(0) cube complexes, (to appear in Oberwolfach reports 2019/30) 992
• Alessandrini D, Disarlo V (2019). Generalized stretch lines for surfaces with boundary, arXiv,math.GT,1911.10431 1000
• Feldmann K, Richardson DS, Gneiting T (2019). Grid- versus station-based postprocessing of ensemble temperature forecasts, Geophysical Research Letters, 46(13):7744–7751 1005
• Jordan A, Krüger F, Lerch S (2019). Evaluating probabilistic forecasts with scoringRules, Journal of Statistical Software, 90(12):1–37 1006
• Hanke A (2019). Computational characterisation of protein homo- and heterodimer formation (Bachelor's Thesis), Molecular Biotechnology, Faculty of Biosciences, Ruprecht-Karls University, Heidelberg 1010
• Ullmann P (2019). Molecular dynamics simulation studies of gp41 cytoplasmic tail lateral embedding in phospholipid bilayer (Bachelor's Thesis), Biosciences, Faculty of Biosciences, Ruprecht-Karls University, Heidelberg 1011
• Yuan J (2019). Druggability Assessment in TRAPP Procedure using Machine Learning Approaches (Master's Thesis), Master of Scientific Computing, Fakultät für Mathematik und Informatik, Ruprecht-Karls University, Heidelberg 1012
• Ganotra GK (2019). Computational studies of drug-binding kinetics (Doctoral Thesis), Combined Faculty for the Natural Sciences and Mathematics, Ruprecht-Karls University, Heidelberg 1013
• Renzo M, de Mink SE, Lennon DJ, Platais I, van der Marel RP, Laplace E, Bestenlehner JM, Evans CJ, Hénault-Brunet V, Justham S, de Koter A, Langer N, Najarro F, Schneider FRN, Vink JS (2019). Space astrometry of the very massive ∼150 M⊙ candidate runaway star VFTS682, Monthly Notices of the Royal Astronomical Society: Letters 482(1):L102-L106 1056
• Golebiewski M (2019). Data Formats for Systems Biology and Quantitative Modeling, Encyclopedia of Bioinformatics and Computational Biology,pp.884-893,Elsevier 1070
• Wibberg D, Batut B, Belmann P, Blom J, Glöckner FO, Grüning B, Hoffmann N, Kleinbölting N, Rahn R, Rey M, Scholz U, Sharan M, Tauch A, Trojahn U, Usadel B, Kohlbacher O (2019). The de.NBI / ELIXIR-DE training platform – Bioinformatics training in Germany and across Europe within ELIXIR, F1000Res 8:1877 1073
• Gräter F, Li W (2019). Studying Functional Disulphide Bonds by Computer Simulations, Functional Disulphide Bonds 1967:87-113,Springer New York 1105
• Ballhausen A, Przybilla MJ, Jendrusch M, Haupt S, Pfaffendorf E, Draxlbauer M, Seidler F, Krausert S, Ahadova A, Kalteis MS, Heid D, Gebert J, Bonsack M, Schott S, Bläker H, Seppälä T, Mecklin J, Broeke ST, Nielsen M, Heuveline V, Krzykalla J, Benner A, Riemer AB, Doeberitz MvK, Kloor M (2019). The shared neoantigen landscape of MSI cancers reflects immunoediting during tumor evolution, biorxiv;691469v1,[Preprint] 1112
• Huang J, Brenna C, Khan AuM, Daniele C, Rudolf R, Heuveline V, Gretz N (2019). A cationic near infrared fluorescent agent and ethyl-cinnamate tissue clearing protocol for vascular staining and imaging, Nature Scientific Reports 9(1):521 1116
• John D, Heuveline V, Schober M (2019). GOODE: A Gaussian Off-The-Shelf Ordinary Differential Equation Solver, In Proceedings of the 36th International Conference on Machine Learning, vol. 97, pp. 3152–3162, PMLR 1117
• Song C, Heuveline V (2019). Uncertainty Assessment of the Blood Damage in a FDA Blood Pump, Proceedings of the 3rd International Conference on Uncertainty Quantification in Computational Sciences and Engineering (UNCECOMP 2019),pp.640-652 1123
• Ghosh S, Rey M, Wittig U, Müller W (2019). Bio-entity recognition for SABIO-RK database, F1000Research 8 1271
• P BJ, Praveen C, Christian K, Röpke FK (2019). Second Order Finite Volume Scheme for Euler Equations with Gravity which is Well-Balanced for General Equations of State and Grid Systems, Communications in Computational Physics 26(2):599-630 1285
• Vogel P (2019). Assessing predictive performance: From precipitation forecasts over the tropics to receiver operating characteristic curves and back (Doctoral Thesis), PhD Thesis, Faculty of Mathematics, Karlsruhe Institute of Technology 1336
• Stoehr N, Yilmaz E, Brockschmidt M, Stühmer J (2019). Disentangling interpretable generative parameters of random and real-world graphs, In NeurIPS Workshop on Graph Representation Learning 1519