TY  - GEN
A1  - Cox, Tom
A1  - Maris, Tom
A1  - Soetart, Karline
A1  - Conley, Daniel
A1  - van Damme, Stefan
A1  - Meire, Patrick
A1  - Middelburg, Jack J.
A1  - Vos, Matthijs
A1  - Struyf, Eric
T1  - A macro-tidal freshwater ecosystem recovering from hypereutrophication : the Schelde lease study
N2  - We report a 40 year record of eutrophication and hypoxia on an estuarine ecosystem and its recovery from hypereutrophication. After decades of high inorganic nutrient concentrations and recurring anoxia and hypoxia, we observe a paradoxical increase in chlorophyll-a concentrations with decreasing nutrient inputs. We hypothesise that algal growth was inhibited due to hypereutrophication, either by elevated ammonium concentrations, severe hypoxia or the production of harmful substances in such a reduced environment. We study the dynamics of a simple but realistic mathematical model, incorporating the assumption of algal growth inhibition. It shows a high algal biomass, net oxygen production equilibrium with low ammonia inputs, and a low algal biomass, net oxygen consumption equilibrium with high ammonia inputs. At intermediate ammonia inputs it displays two alternative stable states. Although not intentional, the numerical output of this model corresponds to observations, giving extra support for assumption of algal growth inhibition. Due to potential algal growth inhibition, the recovery of hypereutrophied systems towards a classical eutrophied state, will need reduction of waste loads below certain thresholds and will be accompanied by large fluctuations in oxygen concentrations. We conclude that also flow-through systems, heavily influenced by external forcings which partly mask internal system dynamics, can display multiple stable states.
T3  - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - paper 144 
KW  - Estuary SW Netherlands
KW  - southern North-Sea
KW  - Past 50 years
KW  - Westerschelde estuary
KW  - Marine ecosystems
Y1  - 2009
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus-45180
ER  - 
TY  - JOUR
A1  - Middeldorp, Christel M.
A1  - Mahajan, Anubha
A1  - Horikoshi, Momoko
A1  - Robertson, Neil R.
A1  - Beaumont, Robin N.
A1  - Bradfield, Jonathan P.
A1  - Bustamante, Mariona
A1  - Cousminer, Diana L.
A1  - Day, Felix R.
A1  - De Silva, N. Maneka
A1  - Guxens, Monica
A1  - Mook-Kanamori, Dennis O.
A1  - St Pourcain, Beate
A1  - Warrington, Nicole M.
A1  - Adair, Linda S.
A1  - Ahlqvist, Emma
A1  - Ahluwalia, Tarunveer Singh
A1  - Almgren, Peter
A1  - Ang, Wei
A1  - Atalay, Mustafa
A1  - Auvinen, Juha
A1  - Bartels, Meike
A1  - Beckmann, Jacques S.
A1  - Bilbao, Jose Ramon
A1  - Bond, Tom
A1  - Borja, Judith B.
A1  - Cavadino, Alana
A1  - Charoen, Pimphen
A1  - Chen, Zhanghua
A1  - Coin, Lachlan
A1  - Cooper, Cyrus
A1  - Curtin, John A.
A1  - Custovic, Adnan
A1  - Das, Shikta
A1  - Davies, Gareth E.
A1  - Dedoussis, George V.
A1  - Duijts, Liesbeth
A1  - Eastwood, Peter R.
A1  - Eliasen, Anders U.
A1  - Elliott, Paul
A1  - Eriksson, Johan G.
A1  - Estivill, Xavier
A1  - Fadista, Joao
A1  - Fedko, Iryna O.
A1  - Frayling, Timothy M.
A1  - Gaillard, Romy
A1  - Gauderman, W. James
A1  - Geller, Frank
A1  - Gilliland, Frank
A1  - Gilsanz, Vincente
A1  - Granell, Raquel
A1  - Grarup, Niels
A1  - Groop, Leif
A1  - Hadley, Dexter
A1  - Hakonarson, Hakon
A1  - Hansen, Torben
A1  - Hartman, Catharina A.
A1  - Hattersley, Andrew T.
A1  - Hayes, M. Geoffrey
A1  - Hebebrand, Johannes
A1  - Heinrich, Joachim
A1  - Helgeland, Oyvind
A1  - Henders, Anjali K.
A1  - Henderson, John
A1  - Henriksen, Tine B.
A1  - Hirschhorn, Joel N.
A1  - Hivert, Marie-France
A1  - Hocher, Berthold
A1  - Holloway, John W.
A1  - Holt, Patrick
A1  - Hottenga, Jouke-Jan
A1  - Hypponen, Elina
A1  - Iniguez, Carmen
A1  - Johansson, Stefan
A1  - Jugessur, Astanand
A1  - Kahonen, Mika
A1  - Kalkwarf, Heidi J.
A1  - Kaprio, Jaakko
A1  - Karhunen, Ville
A1  - Kemp, John P.
A1  - Kerkhof, Marjan
A1  - Koppelman, Gerard H.
A1  - Korner, Antje
A1  - Kotecha, Sailesh
A1  - Kreiner-Moller, Eskil
A1  - Kulohoma, Benard
A1  - Kumar, Ashish
A1  - Kutalik, Zoltan
A1  - Lahti, Jari
A1  - Lappe, Joan M.
A1  - Larsson, Henrik
A1  - Lehtimaki, Terho
A1  - Lewin, Alexandra M.
A1  - Li, Jin
A1  - Lichtenstein, Paul
A1  - Lindgren, Cecilia M.
A1  - Lindi, Virpi
A1  - Linneberg, Allan
A1  - Liu, Xueping
A1  - Liu, Jun
A1  - Lowe, William L.
A1  - Lundstrom, Sebastian
A1  - Lyytikainen, Leo-Pekka
A1  - Ma, Ronald C. W.
A1  - Mace, Aurelien
A1  - Magi, Reedik
A1  - Magnus, Per
A1  - Mamun, Abdullah A.
A1  - Mannikko, Minna
A1  - Martin, Nicholas G.
A1  - Mbarek, Hamdi
A1  - McCarthy, Nina S.
A1  - Medland, Sarah E.
A1  - Melbye, Mads
A1  - Melen, Erik
A1  - Mohlke, Karen L.
A1  - Monnereau, Claire
A1  - Morgen, Camilla S.
A1  - Morris, Andrew P.
A1  - Murray, Jeffrey C.
A1  - Myhre, Ronny
A1  - Najman, Jackob M.
A1  - Nivard, Michel G.
A1  - Nohr, Ellen A.
A1  - Nolte, Ilja M.
A1  - Ntalla, Ioanna
A1  - Oberfield, Sharon E.
A1  - Oken, Emily
A1  - Oldehinkel, Albertine J.
A1  - Pahkala, Katja
A1  - Palviainen, Teemu
A1  - Panoutsopoulou, Kalliope
A1  - Pedersen, Oluf
A1  - Pennell, Craig E.
A1  - Pershagen, Goran
A1  - Pitkanen, Niina
A1  - Plomin, Robert
A1  - Power, Christine
A1  - Prasad, Rashmi B.
A1  - Prokopenko, Inga
A1  - Pulkkinen, Lea
A1  - Raikkonen, Katri
A1  - Raitakari, Olli T.
A1  - Reynolds, Rebecca M.
A1  - Richmond, Rebecca C.
A1  - Rivadeneira, Fernando
A1  - Rodriguez, Alina
A1  - Rose, Richard J.
A1  - Salem, Rany
A1  - Santa-Marina, Loreto
A1  - Saw, Seang-Mei
A1  - Schnurr, Theresia M.
A1  - Scott, James G.
A1  - Selzam, Saskia
A1  - Shepherd, John A.
A1  - Simpson, Angela
A1  - Skotte, Line
A1  - Sleiman, Patrick M. A.
A1  - Snieder, Harold
A1  - Sorensen, Thorkild I. A.
A1  - Standl, Marie
A1  - Steegers, Eric A. P.
A1  - Strachan, David P.
A1  - Straker, Leon
A1  - Strandberg, Timo
A1  - Taylor, Michelle
A1  - Teo, Yik-Ying
A1  - Thiering, Elisabeth
A1  - Torrent, Maties
A1  - Tyrrell, Jessica
A1  - Uitterlinden, Andre G.
A1  - van Beijsterveldt, Toos
A1  - van der Most, Peter J.
A1  - van Duijn, Cornelia M.
A1  - Viikari, Jorma
A1  - Vilor-Tejedor, Natalia
A1  - Vogelezang, Suzanne
A1  - Vonk, Judith M.
A1  - Vrijkotte, Tanja G. M.
A1  - Vuoksimaa, Eero
A1  - Wang, Carol A.
A1  - Watkins, William J.
A1  - Wichmann, H-Erich
A1  - Willemsen, Gonneke
A1  - Williams, Gail M.
A1  - Wilson, James F.
A1  - Wray, Naomi R.
A1  - Xu, Shujing
A1  - Xu, Cheng-Jian
A1  - Yaghootkar, Hanieh
A1  - Yi, Lu
A1  - Zafarmand, Mohammad Hadi
A1  - Zeggini, Eleftheria
A1  - Zemel, Babette S.
A1  - Hinney, Anke
A1  - Lakka, Timo A.
A1  - Whitehouse, Andrew J. O.
A1  - Sunyer, Jordi
A1  - Widen, Elisabeth E.
A1  - Feenstra, Bjarke
A1  - Sebert, Sylvain
A1  - Jacobsson, Bo
A1  - Njolstad, Pal R.
A1  - Stoltenberg, Camilla
A1  - Smith, George Davey
A1  - Lawlor, Debbie A.
A1  - Paternoster, Lavinia
A1  - Timpson, Nicholas J.
A1  - Ong, Ken K.
A1  - Bisgaard, Hans
A1  - Bonnelykke, Klaus
A1  - Jaddoe, Vincent W. V.
A1  - Tiemeier, Henning
A1  - Jarvelin, Marjo-Riitta
A1  - Evans, David M.
A1  - Perry, John R. B.
A1  - Grant, Struan F. A.
A1  - Boomsma, Dorret I.
A1  - Freathy, Rachel M.
A1  - McCarthy, Mark I.
A1  - Felix, Janine F.
T1  - The Early Growth Genetics (EGG) and EArly Genetics and Lifecourse Epidemiology (EAGLE) consortia
BT  - design, results and future prospects
JF  - European journal of epidemiology
N2  - The impact of many unfavorable childhood traits or diseases, such as low birth weight and mental disorders, is not limited to childhood and adolescence, as they are also associated with poor outcomes in adulthood, such as cardiovascular disease. Insight into the genetic etiology of childhood and adolescent traits and disorders may therefore provide new perspectives, not only on how to improve wellbeing during childhood, but also how to prevent later adverse outcomes. To achieve the sample sizes required for genetic research, the Early Growth Genetics (EGG) and EArly Genetics and Lifecourse Epidemiology (EAGLE) consortia were established. The majority of the participating cohorts are longitudinal population-based samples, but other cohorts with data on early childhood phenotypes are also involved. Cohorts often have a broad focus and collect(ed) data on various somatic and psychiatric traits as well as environmental factors. Genetic variants have been successfully identified for multiple traits, for example, birth weight, atopic dermatitis, childhood BMI, allergic sensitization, and pubertal growth. Furthermore, the results have shown that genetic factors also partly underlie the association with adult traits. As sample sizes are still increasing, it is expected that future analyses will identify additional variants. This, in combination with the development of innovative statistical methods, will provide detailed insight on the mechanisms underlying the transition from childhood to adult disorders. Both consortia welcome new collaborations. Policies and contact details are available from the corresponding authors of this manuscript and/or the consortium websites.
KW  - Genetics
KW  - Consortium
KW  - Childhood traits and disorders
KW  - Longitudinal
Y1  - 2019
U6  - https://doi.org/10.1007/s10654-019-00502-9
SN  - 0393-2990
SN  - 1573-7284
VL  - 34
IS  - 3
SP  - 279
EP  - 300
PB  - Springer
CY  - Dordrecht
ER  - 
TY  - JOUR
A1  - Mattis, Toni
A1  - Beckmann, Tom
A1  - Rein, Patrick
A1  - Hirschfeld, Robert
T1  - First-class concepts
BT  - Reified architectural knowledge beyond dominant decompositions
JF  - Journal of object technology : JOT / ETH Zürich, Department of Computer Science
N2  - Ideally, programs are partitioned into independently maintainable and understandable modules. As a system grows, its architecture gradually loses the capability to accommodate new concepts in a modular way. While refactoring is expensive and not always possible, and the programming language might lack dedicated primary language constructs to express certain cross-cutting concerns, programmers are still able to explain and delineate convoluted concepts through secondary means: code comments, use of whitespace and arrangement of code, documentation, or communicating tacit knowledge. <br /> Secondary constructs are easy to change and provide high flexibility in communicating cross-cutting concerns and other concepts among programmers. However, such secondary constructs usually have no reified representation that can be explored and manipulated as first-class entities through the programming environment. <br /> In this exploratory work, we discuss novel ways to express a wide range of concepts, including cross-cutting concerns, patterns, and lifecycle artifacts independently of the dominant decomposition imposed by an existing architecture. We propose the representation of concepts as first-class objects inside the programming environment that retain the capability to change as easily as code comments. We explore new tools that allow programmers to view, navigate, and change programs based on conceptual perspectives. In a small case study, we demonstrate how such views can be created and how the programming experience changes from draining programmers' attention by stretching it across multiple modules toward focusing it on cohesively presented concepts. Our designs are geared toward facilitating multiple secondary perspectives on a system to co-exist in symbiosis with the original architecture, hence making it easier to explore, understand, and explain complex contexts and narratives that are hard or impossible to express using primary modularity constructs.
KW  - software engineering
KW  - modularity
KW  - exploratory programming
KW  - program
KW  - comprehension
KW  - remodularization
KW  - architecture recovery
Y1  - 2022
U6  - https://doi.org/10.5381/jot.2022.21.2.a6
SN  - 1660-1769
VL  - 21
IS  - 2
SP  - 1
EP  - 15
PB  - ETH Zürich, Department of Computer Science
CY  - Zürich
ER  - 
TY  - JOUR
A1  - Kellmann, Michael
A1  - Patrick, Tom
A1  - Botterill, Cal
A1  - Wilson, Clare
T1  - The recovery-cue and its use in applied settings : practical suggestions regarding assessment and monotoring of recovery
Y1  - 2002
SN  - 0-7360-3400-5
ER  - 
TY  - BOOK
A1  - Bein, Leon
A1  - Braun, Tom
A1  - Daase, Björn
A1  - Emsbach, Elina
A1  - Matthes, Leon
A1  - Stiede, Maximilian
A1  - Taeumel, Marcel
A1  - Mattis, Toni
A1  - Ramson, Stefan
A1  - Rein, Patrick
A1  - Hirschfeld, Robert
A1  - Mönig, Jens
T1  - SandBlocks
T1  - SandBlocks
BT  - Integration visueller und textueller Programmelemente in Live-Programmiersysteme
BT  - integration of visual and textual elements in live programming systems
N2  - Visuelle Programmiersprachen werden heutzutage zugunsten textueller Programmiersprachen nahezu nicht verwendet, obwohl visuelle Programmiersprachen einige Vorteile bieten. Diese reichen von der Vermeidung von Syntaxfehlern, über die Nutzung konkreter domänenspezifischer Notation bis hin zu besserer Lesbarkeit und Wartbarkeit des Programms. Trotzdem greifen professionelle Softwareentwickler nahezu ausschließlich auf textuelle Programmiersprachen zurück.

Damit Entwickler diese Vorteile visueller Programmiersprachen nutzen können, aber trotzdem nicht auf die ihnen bekannten textuellen Programmiersprachen verzichten müssen, gibt es die Idee, textuelle und visuelle Programmelemente gemeinsam in einer Programmiersprache nutzbar zu machen. Damit ist dem Entwickler überlassen wann und wie er visuelle Elemente in seinem Programmcode verwendet.

Diese Arbeit stellt das SandBlocks-Framework vor, das diese gemeinsame Nutzung visueller und textueller Programmelemente ermöglicht. Neben einer Auswertung visueller Programmiersprachen, zeigt es die technische Integration visueller Programmelemente in das Squeak/Smalltalk-System auf, gibt Einblicke in die Umsetzung und Verwendung in Live-Programmiersystemen und diskutiert ihre Verwendung in unterschiedlichen Domänen.
N2  - Nowadays, visual programming languages exist but are rarely used because textual languages dominate the field. Even though visual languages can offer many virtues - such as protection from syntax errors, concise notation for specific domains, improved readability and maintainability of programs – professional software developers tend to only employ textual programming languages.

We propose an approach to combine both textual and visual elements in a shared programming system. Developers can rely on the familiar textual representation of source code but also leverage the programming experience with a visual language as needed.

This work presents the SandBlocks framework, which enables a joint experience of visual and textual programming elements. It discusses the virtues of visual languages and related work, describes a technical integration of visual elements into the Squeak/Smalltalk programming system, sketches potential workflows in live programming systems, and illustrates applications for several domains.
T3  - Technische Berichte des Hasso-Plattner-Instituts für Digital Engineering an der Universität Potsdam - 132 
KW  - Programmieren
KW  - Benutzerinteraktion
KW  - visuelle Sprachen
KW  - Liveness
KW  - Smalltalk
KW  - programming
KW  - user interaction
KW  - visual languages
KW  - liveness
KW  - Smalltalk
Y1  - 2020
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-439263
SN  - 978-3-86956-482-1
SN  - 1613-5652
SN  - 2191-1665
IS  - 132
PB  - Universitätsverlag Potsdam
CY  - Potsdam
ER  - 
TY  - JOUR
A1  - Freitas da Cruz, Harry
A1  - Pfahringer, Boris
A1  - Martensen, Tom
A1  - Schneider, Frederic
A1  - Meyer, Alexander
A1  - Böttinger, Erwin
A1  - Schapranow, Matthieu-Patrick
T1  - Using interpretability approaches to update "black-box" clinical prediction models
BT  - an external validation study in nephrology
JF  - Artificial intelligence in medicine : AIM
N2  - Despite advances in machine learning-based clinical prediction models, only few of such models are actually deployed in clinical contexts. Among other reasons, this is due to a lack of validation studies. In this paper, we present and discuss the validation results of a machine learning model for the prediction of acute kidney injury in cardiac surgery patients initially developed on the MIMIC-III dataset when applied to an external cohort of an American research hospital. To help account for the performance differences observed, we utilized interpretability methods based on feature importance, which allowed experts to scrutinize model behavior both at the global and local level, making it possible to gain further insights into why it did not behave as expected on the validation cohort. The knowledge gleaned upon derivation can be potentially useful to assist model update during validation for more generalizable and simpler models. We argue that interpretability methods should be considered by practitioners as a further tool to help explain performance differences and inform model update in validation studies.
KW  - Clinical predictive modeling
KW  - Nephrology
KW  - Validation
KW  - Interpretability
KW  - methods
Y1  - 2021
U6  - https://doi.org/10.1016/j.artmed.2020.101982
SN  - 0933-3657
SN  - 1873-2860
VL  - 111
PB  - Elsevier
CY  - Amsterdam
ER  -