cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Contestation, Expertise, and Time: An Ethnographic Case Study of the Swiss Citizens’ Assembly on Food Policy
Creators: name: Amos, Samira
Publisher: name: ETH Zurich
Year: 2023
Subjects: subject: Deliberation
subject: Citizens' assemblies
subject: Agonism/antagonism
subject: Democracy
subject: Deliberative democracy
subject: Ethnography
subject: Grounded theory
subject: Pluralism
subject: info:eu-repo/classification/ddc/570
subject: info:eu-repo/classification/ddc/300
subject: info:eu-repo/classification/ddc/320
subject: info:eu-repo/classification/ddc/333.7
subject: Life sciences
subject: Social sciences
subject: FOS: Social sciences
subject: Political science
subject: FOS: Political science
subject: Natural resources, energy and environment

description: For food system transformation, there is growing interest in deliberative participatory processes at the governance level, following good examples for other controversial issues such as climate policy. However, it is contested whether such citizens’ assemblies in their currently most implemented form can contribute to a profound sustainability transformation. In 2022, 85 citizens gathered to deliberate the Swiss food system transformation. The Swiss Citizens' Assembly on Food Policy (BEP) was unique in that it was the first national assembly and applied Scharmer's Theory U approach, which generates new collective intentions in a non-agonistic way. I focus on the question of whether the process’ framing was capable of realizing its transformational and democratic potential. Combining ethnographic approaches (participant observation, autoethnography, and semi-structured interviews) and constructivist grounded theory, I gained insights into how facilitators and citizens experienced the deliberative process and what emerged from these different experiences. I placed these emergences in the context of contestation, expertise, and time, drawing on critiques related to sustainability transformation by both deliberative and agonistic scholars. My results indicate that the BEP could empower collective action and make a more citizen-led democracy imaginable. However, proactive measures are needed to address structural problems and societal ideas that impede a truly democratic and transformative deliberative process. This includes (1) enhancing contestatory forms of communication next to harmonic ones in consensus-seeking cultures, (2) challenging the dominance of rational argumentation in Western policy-making processes and empowering citizens’ ways of knowing, and, especially in polarized contexts, (3) recognizing plurality within a narrow consensus-oriented framework. These insights have been echoed in numerous studies of participatory and deliberative processes, but are rarely applied in citizens’ assemblies in Western democracies. By proactively experimenting with the above, food democracy can be envisioned.
Additional file 2: Table S1. of The transcription factor scleraxis is a critical regulator of cardiac fibroblast phenotype
Creators: name: Rushita Bagchi
name: Roche, Patricia
name: Aroutiounova, Nina
name: Espira, Leon
name: Abrenica, Bernard
name: Schweitzer, Ronen
name: Czubryt, Michael
Publisher: name: Figshare
Year: 2016
Subjects: subject: Space Science
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Pharmacology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Cancer
subject: Inorganic Chemistry
subject: Hematology
subject: Computational Biology

description: Echocardiographic parameters. Table S2. Antibodies used in the study. Table S3. Primers used for qPCR analysis. Table S4. Primers used for site-directed mutagenesis of ÎąSMA proximal promoter. Table S5. Primers used for nested PCR generation of ScxÎ Î . Table S6. Probes used for electrophoretic mobility shift assay. Table S7. Primers used for chromatin immunoprecipitation assay. (DOCX 34 kb)
High-Performance Byzantine Fault Tolerant Consensus
Creators: name: Gebauer, Petr
Publisher: name: ETH Zurich
Year: 2023
Subjects: Byzantine fault tolerance
Hardware offload

description: Byzantine fault tolerance is a well-studied strategy for increasing systems’ resilience to attacks but there is also renewed interest in it due to its use in blockchains. Due to its high demands on both computational resources and network, it is a target of a number of optimizations on CPUs as well as a topic for hardware acceleration. This thesis paves the road towards offloading of the Practical Byzantine fault tolerance (PBFT) protocol to FPGAs by presenting a high-performance modular PBFT consensus implementation, which can be used as a platform for future hardware accelerator experiments. We show that compared to moduBFT, a previous implementation exploring the potential for future hardware offloading, we reach multiple times the throughput without an increase in latency. Our modular approach allows for measuring the performance of different parts of the implementation as well as offloading different parts of the protocol. Moreover, unlike moduBFT, our choice of C as im- plementation language brings explicit memory management, which we expect to aid in the use of hardware accelerators. We measure the performance under different scenarios, analyze bottlenecks and discuss different offloading strategies and how they can be incorporated into our implementation.
Code & Data Availability
Creators: name: Ke, Junsheng
Publisher: name: figshare
Year: 2024
Subjects: classificationCode: 310302
subject: Community ecology (excl. invasive species ecology)

description: These are R code, dataset (OTU table, environmental and oomycetes data) for the article "Abiotic factors and plant communities shape the distribution of soil pathogenic oomycetes across large spatial scales", as well as the ITS database and corresponding dataset of life history types for identification of pathogenic oomycetes.
Crosbyarachne silvestris Georgescu 1973
Creators: name: Marjan Komnenov
name: Eva Pitta
name: Konstantina Zografou
name: Maria Chatzaki
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Araneae
Linyphiidae
Crosbyarachne
Crosbyarachne silvestris

description: Crosbyarachne silvestris (Georgescu, 1973)
(Figs 59–63)
Material examined. Site 7 (c: 1 ♀).
Distribution. Italy, Austria, Romania, Serbia, F.Y. Republic of Macedonia, Bulgaria (Helsdingen, 2015); NE- Greece (present data).
Chorotype. Carpatho-Balkanic.
description: Published as part of Marjan Komnenov, Eva Pitta, Konstantina Zografou & Maria Chatzaki, 2016, Discovering the still unexplored arachnofauna of the National Park of Dadia-Lefkimi-Soufli, NE Greece: a taxonomic review with description of new species, pp. 1-66 in Zootaxa 4096 (1) on page 27, DOI: 10.11646/zootaxa.4096.1.1, http://zenodo.org/record/263078
GT4Py: A Python framework for the development of high-performance weather and climate applications
Creators: name: Bianco, Mauro
name: Ehrengruber, Till
name: Farabullini, Nicoletta
name: Gopal, Abishek
name: Groner, Linus
name: Häuselmann, Rico
name: Kardos, Péter
name: Kellerhals, Samuel
name: Luz, Magdalena
name: Müller, Christoph
name: Gonzales Paredes, Enrique
name: Röthlin, Matthias
name: Thaler, Felix
name: Vogt, Hannes
name: Weber, Benjamin
name: Schulthess, Thomas
Publisher: name: ETH Zurich
Year: 2023

description: GT4Py is a Python framework for weather and climate applications simplifying the development and maintenance of high-performance codes in prototyping and production environments. GT4Py separates model development from hardware architecture dependent optimizations, instead of intermixing both together in source code, as regularly done in lower-level languages like Fortran, C, or C+. Domain scientists focus solely on numerical modeling using a declarative embedded domain specific language supporting common computational patterns of dynamical cores and physical parametrizations. An optimizing toolchain then transforms this high-level representation into a finely-tuned implementation for the target hardware architecture. This separation of concerns allows performance engineers to implement new optimizations or support new hardware architectures without requiring changes to the application, increasing productivity for domain scientists and performance engineers alike. We will present recent developments in the project: support for non-cartesian meshes, a new programming interface enabling operator composition, and a redesigned intermediate representation that separates stateful from stateless computations, simplifying the creation of optimization passes. We further showcase a performance comparison of the ICON model between the original Fortran implementation using openACC and a GT4Py-enabled version developed as part of the EXCLAIM project.
MOESM2 of A community-wide school health project for the promotion of smoke-free homes
Creators: name: Loke, Alice
name: Y. Mak
Publisher: name: Figshare
Year: 2015
Subjects: subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Cancer
subject: Science Policy

description: Additional file 2: 2011 Smoke-free Home Health fair Questionnaire.
Diplocephalus graecus
Creators: name: Marjan Komnenov
name: Eva Pitta
name: Konstantina Zografou
name: Maria Chatzaki
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Araneae
Linyphiidae
Diplocephalus
Diplocephalus graecus

description: Diplocephalus graecus (O. P.-Cambridge, 1872)
Material examined. Site 6 (a: 1 ♀), Site 13 (a: 1 ♀).
Distribution. Portugal, Spain—Balearic Islands, France, Belgium, Britain, Italy, Romania, F. Y. Republic of Macedonia, Bulgaria, Greece, Morocco, Tunisia (Komnenov, 2014). Chorotype. Mediterranean.
description: Published as part of Marjan Komnenov, Eva Pitta, Konstantina Zografou & Maria Chatzaki, 2016, Discovering the still unexplored arachnofauna of the National Park of Dadia-Lefkimi-Soufli, NE Greece: a taxonomic review with description of new species, pp. 1-66 in Zootaxa 4096 (1) on page 28, DOI: 10.11646/zootaxa.4096.1.1, http://zenodo.org/record/263078
MOESM1 of A community-wide school health project for the promotion of smoke-free homes
Creators: name: Loke, Alice
name: Y. Mak
Publisher: name: Figshare
Year: 2015
Subjects: subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy

description: Additional file 1: Questionnaires for students on smoke-free homes.
Simulating Aquaplanet Using ICON with a GT4Py DSL Dynamical Core
Creators: name: Müller, Christoph
name: Burgdorfer, Nina
name: Cossevin, Erwan
name: Ehrengruber, Till
name: Farabullini, Nicoletta
name: Gopal, Abishek
name: Groner, Linus
name: Häuselmann, Rico
name: Hupp, Daniel
name: Jucker, Jonas
name: Kardos, Péter
name: Kellerhals, Samuel
name: Leutwyler, David
name: Luz, Magdalena
name: Osuna, Carlos
name: Gonzales Paredes, Enrique
name: Pothapakula, Praveen Kumar
name: Röthlin, Matthias
name: Thaler, Felix
name: Vogt, Hannes
name: Weber, Benjamin
name: Zeman, Christian
name: Bianco, Mauro
name: Dipankar, Anurag
name: Lapillonne, Xavier
Publisher: name: ETH Zurich
Year: 2023

description: We present the results of our efforts porting the dynamical core of the ICON climate and numerical weather prediction (NWP) model to GT4Py. GT4Py is a Domain Specific Language (DSL) designed for weather and climate applications, which allows domain scientists to write performance portable climate and weather code within a high level Python-based frontend. Porting code to GT4Py greatly improves readability as compared to equivalent GPU-accelerated codes written in Fortran + OpenACC. Additionally the DSL allows for a separation of concerns between the domain scientists, software engineers and optimization experts. The fine grained and automatic integration of the DSL generated code back into the Fortran ICON code enables us to compare the original Fortran code to the DSL generated code by running both versions. We call this the verification mode of the integration. On the other hand, in the substitution mode, only the DSL generated version of the code is executed. After a thorough verification process of the model porting, we present results from the Aquaplanet idealized experiment on a global icosahedral grid of resolution ~80km. We also compare the performance of ICON with GT4Py dycore with the standard ICON-NWP model running on GPUs.
Gahrliepia (Gateria) saduski Womersley 1952
Creators: name: Nielsen, David H.
name: Robbins, Richard G.
name: Rueda, Leopoldo M.
Publisher: name: Zenodo
Year: 2021
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Trombidiformes
Trombiculidae
Gahrliepia
Gahrliepia saduski

description: Gahrliepia (Gateria) saduski Womersley, 1952:
PAL
Gahrliepia saduski Radford, 1954 a
Gahrliepia (Gahrliepia) saduski, Womersley & Audy 1957
Gahrliepia (Gateria) saduski, Vercammen-Grandjean 1968c
description: Published as part of Nielsen, David H., Robbins, Richard G. & Rueda, Leopoldo M., 2021, Annotated world checklist of the Trombiculidae and Leeuwenhoekiidae (1758 - 2021) (Acari: Trombiculoidea), with notes on nomenclature, taxonomy, and distribution, pp. 1-243 in Zootaxa 4967 (1) on page 27, DOI: 10.11646/zootaxa.4967.1.1, http://zenodo.org/record/4745510
Additional file 1: of Expression of the Acidothermus cellulolyticus E1 endoglucanase in Caldicellulosiruptor bescii enhances its ability to deconstruct crystalline cellulose
Creators: name: Daehwan Chung
name: Young, Jenna
name: Minseok Cha
name: Brunecky, Roman
name: Bomble, Yannick
name: Himmel, Michael
name: Westpheling, Janet
Publisher: name: Figshare
Year: 2015
Subjects: subject: Biochemistry
subject: Space Science
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Evolutionary Biology
subject: Sociology
subject: FOS: Sociology
subject: Immunology
subject: FOS: Clinical medicine
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Figure S1. Plasmid map of chromosomal knock-in vector in C. bescii for extracellular expression of E1 (Acel0614). Figure S2. Relative quantification of enzymatic activity of the extracellular fraction of C. bescii expressing E1 (Acel0614) on Avicel and carboxymethylcellulose. Table S1. The list of Glycoside Hydrolase Family 5 (GH5) catalytic domains in Caldicellulosiruptor bescii and their sequence homology with the GH5 domain in E1 from A. cellulolyticus. Table S2. Primers used in this study.
Ipa terrenus L. Koch 1879
Creators: name: Marjan Komnenov
name: Eva Pitta
name: Konstantina Zografou
name: Maria Chatzaki
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Araneae
Linyphiidae
Ipa
Ipa terrenus

description: Ipa terrenus (L. Koch, 1879)
Material examined. Site 6 (c: 1 ♂).
Distribution. Czech Republic, Slovakia, Italy, Romania, F.Y. Republic of Macedonia, Bulgaria, NE-Greece, Ukraine, eastern and southern part of European Russia, Azerbaijan, Russia—C- and S-Siberia, NW-Turkey (Komnenov, 2014; present data).
Chorotype. Euro-Siberian.
description: Published as part of Marjan Komnenov, Eva Pitta, Konstantina Zografou & Maria Chatzaki, 2016, Discovering the still unexplored arachnofauna of the National Park of Dadia-Lefkimi-Soufli, NE Greece: a taxonomic review with description of new species, pp. 1-66 in Zootaxa 4096 (1) on page 28, DOI: 10.11646/zootaxa.4096.1.1, http://zenodo.org/record/263078
Additional file 1: Table S1. of Neuroprotective effect of a novel Chinese herbal decoction on cultured neurons and cerebral ischemic rats
Creators: name: Ip, Fanny
name: Zhao, Yu-Ming
name: Kim-Wan Chan
name: Cheng, Elaine
name: Tong, Estella
name: Oormila Chandrashekar
name: Guang-Miao Fu
name: Zhong-Zhen Zhao
name: Ip, Nancy
Publisher: name: Figshare
Year: 2016
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Neuroscience
subject: Physiology
subject: Pharmacology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Assessments of physiological parameters before, during and after ischemia (MCAO) in control and PSR pre-treated rats. Figure S1. Representative TTC-stained brain slices for sham and MCAO rats, with the latter animals divided into 4 groups that were pre-treated with vehicle, 1.1 g/kg, 2.2 g/kg or 5.5 g/kg PSR. Figure S2. Representative TTC-stained brain slices for sham and MCAO rats, with the latter animals divided into 4 groups that were post-treated with vehicle, 1.1 g/kg, 2.2 g/kg or 5.5 g/kg PSR. (DOCX 3065 kb)
Waste Management in the Seychelles – Pathways for Systemic Change: USYS TdLab Transdisciplinary Case Study 2018
Creators: name: Krütli, Pius
name: Nef, Danny
name: Zumwald, Marius
name: Haupt, Mélanie
name: Harlay, Jérôme
name: Stauffacher, Michael
Publisher: name: ETH Zurich
Year: 2019

description: USYS TdLab Fallstudie
Additional file 1: of Generalized enrichment analysis improves the detection of adverse drug events from the biomedical literature
Creators: name: Winnenburg, Rainer
name: Nigam Shah
Publisher: name: Figshare
Year: 2016
Subjects: subject: Biochemistry
subject: Space Science
subject: Genetics
subject: FOS: Biological sciences
subject: Physiology
subject: Pharmacology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Performance of selected signal detection methods for drug classes on the OMOP reference set. Performance is measured for each of the four AE outcomes in terms of AUC using all achievable combinations of true positive and false positive rates after grouping the drugs into drug classes (ATC4). The performance of the different approaches is similar for each of the four outcomes, with the one exception of PRR 2nd level on acute myocardial infarction (AUC .612). Overall, both GEA and PRR methods perform best on GI bleed (AUCs from .897 to .935) and poorest on acute liver injury (AUCs from .812 to .853). Using PRR and AE terms aggregated to terms at IC 7â  10 improved performance in detecting associations with drug classes (ATC4) only for the outcomes GI bleed and acute myocardial infarction. (PDF 9 kb)
Additional file 5: of Generalized enrichment analysis improves the detection of adverse drug events from the biomedical literature
Creators: name: Winnenburg, Rainer
name: Nigam Shah
Publisher: name: Figshare
Year: 2016
Subjects: subject: Medicine
subject: Molecular Biology
subject: Pharmacology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Developmental Biology
subject: Cancer
subject: 111714 Mental Health
subject: FOS: Health sciences

description: True Positive Rates for the four OMOP outcomes at different abstraction levels. Drugs that are positively associated to “Acute Myocardial Infarction” in OMOP tend to be annotated in the literature (if at all) with more high-level terms, such as “Heart Diseases” or “Cardiovascular Diseases”. Thus, the number of true positive findings with GEA at a high abstraction level (IC 1–5.5) is double that from the number at low abstraction level (IC 7–10) for AMI. (PDF 4 kb)
Additional file 2 of CellTree: an R/bioconductor package to infer the hierarchical structure of cell populations from single-cell RNA-seq data
Creators: name: DuVerle, David
name: Sohiya Yotsukura
name: Seitaro Nomura
name: Aburatani, Hiroyuki
name: Tsuda, Koji
Publisher: name: Figshare
Year: 2016
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Developmental Biology
subject: Hematology
subject: Plant Biology

description: Gene probability distribution for topic 3. Per-topic gene probability distribution for Topic 3 of the hESC data model computed by cellTree. (PDF 56 kb)
Additional file 5 of CellTree: an R/bioconductor package to infer the hierarchical structure of cell populations from single-cell RNA-seq data
Creators: name: DuVerle, David
name: Sohiya Yotsukura
name: Seitaro Nomura
name: Aburatani, Hiroyuki
name: Tsuda, Koji
Publisher: name: Figshare
Year: 2016
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Developmental Biology
subject: Cancer
subject: Hematology

description: cellTree summary for hESC data. Full list of cell samples in the hESC data set, ordered and annotated by cellTree. (PDF 36 kb)
Additional file 6 of CellTree: an R/bioconductor package to infer the hierarchical structure of cell populations from single-cell RNA-seq data
Creators: name: DuVerle, David
name: Sohiya Yotsukura
name: Seitaro Nomura
name: Aburatani, Hiroyuki
name: Tsuda, Koji
Publisher: name: Figshare
Year: 2016
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Molecular Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Developmental Biology
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Hematology
subject: Plant Biology

description: GO BP Terms for hESC data. Full table of enriched GO BP terms for each topic in hESC data. (PDF 42 kb)
Additional file 11 of CellTree: an R/bioconductor package to infer the hierarchical structure of cell populations from single-cell RNA-seq data
Creators: name: DuVerle, David
name: Sohiya Yotsukura
name: Seitaro Nomura
name: Aburatani, Hiroyuki
name: Tsuda, Koji
Publisher: name: Figshare
Year: 2016
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Developmental Biology
subject: Cancer
subject: Hematology

description: cellTree summary for mouse cortical cells data. Full list of cell samples in the mouse cortical cells data set, ordered and annotated by cellTree. (PDF 150 kb)
Additional file 3 of CellTree: an R/bioconductor package to infer the hierarchical structure of cell populations from single-cell RNA-seq data
Creators: name: DuVerle, David
name: Sohiya Yotsukura
name: Seitaro Nomura
name: Aburatani, Hiroyuki
name: Tsuda, Koji
Publisher: name: Figshare
Year: 2016
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Molecular Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Developmental Biology
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Hematology
subject: Plant Biology

description: GO BP Terms for myoblast data. Full table of enriched GO BP terms for each topic in myoblast data. (PDF 36 kb)
Additional file 4 of CellTree: an R/bioconductor package to infer the hierarchical structure of cell populations from single-cell RNA-seq data
Creators: name: DuVerle, David
name: Sohiya Yotsukura
name: Seitaro Nomura
name: Aburatani, Hiroyuki
name: Tsuda, Koji
Publisher: name: Figshare
Year: 2016
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Molecular Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Developmental Biology
subject: Hematology
subject: Plant Biology

description: GO CC Terms for myoblast data. Full table of enriched GO CC terms for each topic in myoblast data. (PDF 38 kb)
Linyphia hortensis Sundevall 1830
Creators: name: Marjan Komnenov
name: Eva Pitta
name: Konstantina Zografou
name: Maria Chatzaki
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Araneae
Linyphiidae
Linyphia
Linyphia hortensis

description: Linyphia hortensis Sundevall, 1830
Material examined. Site 4 (a:1 ♀).
Distribution. Europe, Turkey, Armenia, Azerbaijan, NW-Iran, Russia, Kazakhstan, Kyrgyzstan, Tajikistan, SE-Uzbekistan (Komnenov, 2014).
Chorotype. Euro-Siberian.
description: Published as part of Marjan Komnenov, Eva Pitta, Konstantina Zografou & Maria Chatzaki, 2016, Discovering the still unexplored arachnofauna of the National Park of Dadia-Lefkimi-Soufli, NE Greece: a taxonomic review with description of new species, pp. 1-66 in Zootaxa 4096 (1) on page 28, DOI: 10.11646/zootaxa.4096.1.1, http://zenodo.org/record/263078
Additional file 7 of CellTree: an R/bioconductor package to infer the hierarchical structure of cell populations from single-cell RNA-seq data
Creators: name: DuVerle, David
name: Sohiya Yotsukura
name: Seitaro Nomura
name: Aburatani, Hiroyuki
name: Tsuda, Koji
Publisher: name: Figshare
Year: 2016
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Developmental Biology
subject: Hematology
subject: Plant Biology

description: GO CC Terms for hESC data. Full table of enriched GO CC terms for each topic in hESC data. (PDF 35 kb)
Additional file 1 of CellTree: an R/bioconductor package to infer the hierarchical structure of cell populations from single-cell RNA-seq data
Creators: name: DuVerle, David
name: Sohiya Yotsukura
name: Seitaro Nomura
name: Aburatani, Hiroyuki
name: Tsuda, Koji
Publisher: name: Figshare
Year: 2016
Subjects: subject: Space Science
subject: Molecular Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Developmental Biology
subject: Cancer
subject: Hematology

description: Approximate Backbone Tree Construction Algorithm. Pseudo-code of the algorithm and heuristics used by cellTree to build a Backbone Tree representation of the cell population. (PDF 102 kb)
Additional file 8 of CellTree: an R/bioconductor package to infer the hierarchical structure of cell populations from single-cell RNA-seq data
Creators: name: DuVerle, David
name: Sohiya Yotsukura
name: Seitaro Nomura
name: Aburatani, Hiroyuki
name: Tsuda, Koji
Publisher: name: Figshare
Year: 2016
Subjects: subject: Biochemistry
subject: Space Science
subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Cell Biology
subject: Molecular Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Developmental Biology
subject: Cancer
subject: Hematology
subject: Plant Biology

description: GO MF Terms for hESC data. Full table of enriched GO MF terms for each topic in hESC data. (PDF 31 kb)
Additional file 10 of CellTree: an R/bioconductor package to infer the hierarchical structure of cell populations from single-cell RNA-seq data
Creators: name: DuVerle, David
name: Sohiya Yotsukura
name: Seitaro Nomura
name: Aburatani, Hiroyuki
name: Tsuda, Koji
Publisher: name: Figshare
Year: 2016
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Developmental Biology
subject: Cancer
subject: Hematology

description: cellTree summary for mouse embryonic cells data. Full list of cell samples in the mouse embryonic cells data set, ordered and annotated by cellTree. (PDF 59 kb)
Additional file 1: of The Norwegian national project for ethics support in community health and care services
Creators: name: Magelssen, Morten
name: Gjerberg, Elisabeth
name: Pedersen, Reidar
name: FĂ¸Rde, Reidun
name: Lillemoen, Lillian
Publisher: name: Figshare
Year: 2016
Subjects: subject: Molecular Biology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Cancer
subject: Science Policy
subject: Computational Biology

description: English translation of the two questionnaires used in the study. (DOCX 112Â kb)
Additional file 1: Table S1. of Heterogeneous natural selection on oxidative phosphorylation genes among fishes with extreme high and low aerobic performance
Creators: name: Feifei Zhang
name: Broughton, Richard
Publisher: name: Figshare
Year: 2015
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Species list with mitochondrial genome accession number from NCBI. Table S2. PCR primers used for nuclear markers used in this study. Table S3. GenBank accession number of nuclear gene (rag1, rag2, tmo4c4, zic1, myh6, and btbd7) sequences of studied species. Figure S1. Phylogeny of six fish groups based on Bayesian and maximum likelihood methods. Figure S2. Summary of selection on all mitochondrial genes. Table S4. Number of amino acid sites showing positive selection signals in each mitochondrial gene on relevant branches. Table S5. Positively selected amino acid sites for each gene on various branches. (DOCX 351 kb)
Exploring Abstract Reasoning Methods Working with Disentangled Visual Attributes
Creators: name: Di Stefano, Francesco
Publisher: name: ETH Zurich
Year: 2023

description: The capacity for abstract reasoning is a cornerstone of human intelligence, and replicating this in machine learning models presents a complex challenge. This study focuses on the RAVEN dataset, a standard for assessing abstract reasoning abilities. Building upon the foundational work of Hersche et al., which employed Vector Symbolic Architectures (VSA) for reasoning, we delve deeper into making the reasoning mechanism learnable. Central to our exploration is the introduction of the AxR-Learners Framework, which incorporates the Learnable Formula. This innovative model is designed to autonomously adapt, allowing for a more flexible and tailored approach to abstract reasoning tasks. Our findings highlight the efficacy of the Learnable Formula in enhancing machine reasoning, suggesting a promising avenue for the evolution of more sophisticated artificial intelligence systems.
Additional file 2: of Socioeconomic gradients in the effects of universal school-based health behaviour interventions: a systematic review of intervention studies
Creators: name: Moore, Graham
name: Littlecott, Hannah
name: Turley, Ruth
name: Waters, Elizabeth
name: Murphy, Simon
Publisher: name: Figshare
Year: 2015
Subjects: subject: Medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Developmental Biology
subject: Science Policy

description: Search strategy. (DOCX 18 kb)
Additional file 3: of Socioeconomic gradients in the effects of universal school-based health behaviour interventions: a systematic review of intervention studies
Creators: name: Moore, Graham
name: Littlecott, Hannah
name: Turley, Ruth
name: Waters, Elizabeth
name: Murphy, Simon
Publisher: name: Figshare
Year: 2015
Subjects: subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Developmental Biology
subject: Science Policy

description: Prisma checklist. (PDF 248 kb)
Additional file 1: of Development and validation of a score to identify in the Emergency Department patients who may benefit from a time-critical intervention: a cohort study
Creators: name: Challen, Kirsty
name: Bradburn, Mike
name: Goodacre, Steve
Publisher: name: Figshare
Year: 2015
Subjects: subject: Medicine
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: FOS: Biological sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Science Policy
subject: Hematology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Development and validation of a score to identify patients who may benefit from a time-critical intervention in the Emergency Department. (DOCX 88 kb)
MOESM2 of Avian influenza infection dynamics under variable climatic conditions, viral prevalence is rainfall driven in waterfowl from temperate, south-east Australia
Creators: name: Ferenczi, Marta
name: Beckmann, Christa
name: Warner, Simone
name: Loyn, Richard
name: O’Riley, Kim
name: Xinlong Wang
name: Klaassen, Marcel
Publisher: name: Figshare
Year: 2016
Subjects: subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology

description: Additional file 2. Odds ratios (OR) and AICs for linear models describing the effects of rainfall anomaly, temperature anomaly and “ENSO drought/wet” factor on bird number for five waterfowl species. An OR > 1 indicates a positive, whereas an OR  1 means that bird numbers were higher when rainfall anomaly was higher and OR
Pelecopsis elongata Wider 1834
Creators: name: Marjan Komnenov
name: Eva Pitta
name: Konstantina Zografou
name: Maria Chatzaki
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Araneae
Linyphiidae
Pelecopsis
Pelecopsis elongata

description: Pelecopsis elongata (Wider, 1834)
Material examined. Site 1 (b: 1 ♀), Site 2 (b: 1 ♀).
Distribution. France, Belgium, Netherlands, Britain, Finland, Norway, Sweden, Estonia, Latvia, Lithuania, Belarus, Poland, Germany, Italy, Switzerland, Liechtenstein, Austria, Czech Republic, Slovakia, Ukraine, European part of Russia, Romania, Hungary, Slovenia, Croatia, Serbia, Bulgaria, F. Y. Republic of Macedonia, Albania, Greece, Cyprus (Komnenov, 2014; Vrenozi & Deltshev, 2012); Israel (Tanasevitch, 2013).
Chorotype. European.
description: Published as part of Marjan Komnenov, Eva Pitta, Konstantina Zografou & Maria Chatzaki, 2016, Discovering the still unexplored arachnofauna of the National Park of Dadia-Lefkimi-Soufli, NE Greece: a taxonomic review with description of new species, pp. 1-66 in Zootaxa 4096 (1) on page 30, DOI: 10.11646/zootaxa.4096.1.1, http://zenodo.org/record/263078
Gahrliepia (Gateria) shanyangensis Huang 1986
Creators: name: Nielsen, David H.
name: Robbins, Richard G.
name: Rueda, Leopoldo M.
Publisher: name: Zenodo
Year: 2021
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Trombidiformes
Trombiculidae
Gahrliepia
Gahrliepia shanyangensis

description: Gahrliepia (Gateria) shanyangensis Huang, 1986 a:
PAL
Gahrliepia shanyangensis Huang, 1986 a
Gateria (Gateria) shanyangensis, Wen & Gui 2000
description: Published as part of Nielsen, David H., Robbins, Richard G. & Rueda, Leopoldo M., 2021, Annotated world checklist of the Trombiculidae and Leeuwenhoekiidae (1758 - 2021) (Acari: Trombiculoidea), with notes on nomenclature, taxonomy, and distribution, pp. 1-243 in Zootaxa 4967 (1) on page 27, DOI: 10.11646/zootaxa.4967.1.1, http://zenodo.org/record/4745510
Additional file 14: Figure S9. of Knockout of Vdac1 activates hypoxia-inducible factor through reactive oxygen species generation and induces tumor growth by promoting metabolic reprogramming and inflammation
Creators: name: M. Brahimi-Horn
name: Giuliano, Sandy
name: Saland, Estelle
name: Lacas-Gervais, Sandra
name: Sheiko, Tatiana
name: Pelletier, Joffrey
name: Bourget, Isabelle
name: Bost, Frédéric
name: Féral, Chloé
name: Boulter, Etienne
name: Tauc, Michel
name: Ivan, Mircea
name: Garmy-Susini, Barbara
name: Popa, Alexandra
name: Mari, Bernard
name: Jean-Emmanuel Sarry
name: Craigen, William
name: Pouysségur, Jacques
name: Mazure, Nathalie
Publisher: name: Figshare
Year: 2015
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Molecular Biology
subject: Physiology
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology

description: Autophagy was detected in Vdac1 −/− MEF. (A) Representative images of electron micrographs of Wt and Vdac1 −/− MEF incubated in normoxia (Nx) for 24 h. Vdac1 −/− MEF showed autophagosomes with double membranes (arrow). (B) Wt and Vdac1 −/− MEF lysates were analyzed in the absence (−) or presence of chloroquine (CQ) by immunoblotting to LC3. ARD1 was used as a loading control. The ratio of LC3-II/ARD1 was measured.
Sintula retroversus
Creators: name: Marjan Komnenov
name: Eva Pitta
name: Konstantina Zografou
name: Maria Chatzaki
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Araneae
Linyphiidae
Sintula
Sintula retroversus

description: Sintula retroversus (O. P.-Cambridge, 1875)
Material examined. Site 1 (b: 1 ♀), Site 2 (a: 1 ♂; b: 1 ♀).
Distribution. Britain—Channel Islands, France, Italy, Slovakia, Ukraine, Hungary, Romania, Slovenia, Croatia, Albania, F. Y. Republic of Macedonia, Bulgaria, Greece, Cyprus, Turkey, Armenia, Azerbaijan (Komnenov, 2014; Vrenozi & Deltshev, 2012).
Chorotype. S-Europeo-Caucasian.
description: Published as part of Marjan Komnenov, Eva Pitta, Konstantina Zografou & Maria Chatzaki, 2016, Discovering the still unexplored arachnofauna of the National Park of Dadia-Lefkimi-Soufli, NE Greece: a taxonomic review with description of new species, pp. 1-66 in Zootaxa 4096 (1) on page 30, DOI: 10.11646/zootaxa.4096.1.1, http://zenodo.org/record/263078
Implementing a Forward-Secure Cloud Storage System
Creators: name: Khalil, Younis
Publisher: name: ETH Zurich
Year: 2023

description: Cloud storage is used extensively, yet the promises of storage providers on security and privacy remain in doubt: most times, cloud storage providers retain control of the encryption keys used to encrypt data at rest. This means that the providers can theoretically access the stored data at any time. To mitigate the issue of trust, we aim to present a cloud storage system with forward-secure deletion, which makes use of a puncturable key-wrapping (PKW) scheme. Data is end-to-end encrypted with data encryption keys (DEKs) to provide fine-grained secure file storage, relying on cloud storage providers only for the availability of their service, but taking back control of security and privacy.
The DEKs are protected using PKW, the forward security of which allows for an operation called “shred”, which not only deletes a file but also makes it irrecoverable by cryptographic means. We explore the feasibility of forward-secure file storage, evaluate the performance, and propose extensions to the PKW scheme to support file hierarchies.
Learning to Bid in Repeated Karma Auctions: Towards more Efficient and Fair Resource Allocations
Creators: name: Berriaud, Damien
Publisher: name: ETH Zurich
Year: 2023
Subjects: Dynamics resource allocation
Artificial currency mechanisms
Karma games
Repeated auctions
Online learning
Stochastic optimization
Incomplete information
Regret analysis
info:eu-repo/classification/ddc/621.3
Electric engineering

description: In a world of finite resources, optimal allocation problems are destined to play a very central role. When the allocation problem is repeated, karma mechanisms allow a population of self-interested agents to achieve fair yet socially efficient allocations. 
In such schemes, agents trade the immediate access to a resource for its access in the future by means of an artificial karma currency in a succession of auctions. 
Thus far, the problem of learning an optimal bidding strategy from the perspective of a single agent attracted little work. There are however many results in the related ad auction literature, where the currency keeps its value outside the auctions.
We first study a simplified setting where karma is only issued at the start of an episode and devise a simple practical strategy that is asymptotically optimal when the competing bids are independent of an agent bidding behavior, which intuitively occurs when the population grows large. We moreover show that the learning dynamics that arise from the simultaneous adoption of such strategies converge and that the incentive for any agent to deviate unilaterally decreases to zero as the number of agents augments. 
We then extend our analysis to support gains of karma throughout the episode and propose strategies with similar guarantees of performance and convergence.
Additional file 2: Table S1. of Knockout of Vdac1 activates hypoxia-inducible factor through reactive oxygen species generation and induces tumor growth by promoting metabolic reprogramming and inflammation
Creators: name: M. Brahimi-Horn
name: Giuliano, Sandy
name: Saland, Estelle
name: Lacas-Gervais, Sandra
name: Sheiko, Tatiana
name: Pelletier, Joffrey
name: Bourget, Isabelle
name: Bost, Frédéric
name: Féral, Chloé
name: Boulter, Etienne
name: Tauc, Michel
name: Ivan, Mircea
name: Garmy-Susini, Barbara
name: Popa, Alexandra
name: Mari, Bernard
name: Jean-Emmanuel Sarry
name: Craigen, William
name: Pouysségur, Jacques
name: Mazure, Nathalie
Publisher: name: Figshare
Year: 2015
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Physiology
subject: Developmental Biology
subject: Cancer
subject: Computational Biology

description: Main biological functions associated with the alterations of Vdac1 −/− MEF compared to Wt MEF (Wt) in normoxia (Nx) or hypoxia (Hx). Significant categories of (A) diseases and functions, (B) canonical pathways, and (C) upstream regulators associated with the comparison of wild-type (Wt) and Vdac1 −/− MEF in Nx or Hx using IPATM. Activation z-score (cut-off = 2) or –log10 p value (cut-off = 2) are represented.
Additional file 15: Figure S11. of Knockout of Vdac1 activates hypoxia-inducible factor through reactive oxygen species generation and induces tumor growth by promoting metabolic reprogramming and inflammation
Creators: name: M. Brahimi-Horn
name: Giuliano, Sandy
name: Saland, Estelle
name: Lacas-Gervais, Sandra
name: Sheiko, Tatiana
name: Pelletier, Joffrey
name: Bourget, Isabelle
name: Bost, Frédéric
name: Féral, Chloé
name: Boulter, Etienne
name: Tauc, Michel
name: Ivan, Mircea
name: Garmy-Susini, Barbara
name: Popa, Alexandra
name: Mari, Bernard
name: Jean-Emmanuel Sarry
name: Craigen, William
name: Pouysségur, Jacques
name: Mazure, Nathalie
Publisher: name: Figshare
Year: 2015
Subjects: subject: Biophysics
subject: Biochemistry
subject: Space Science
subject: Cell Biology
subject: Molecular Biology
subject: Physiology
subject: FOS: Biological sciences
subject: Developmental Biology
subject: Cancer
subject: Computational Biology

description: Red blood cells are present in Vdac1 −/− RAS MEF tumor tissue. (A) 20 mg of tumor tissue derived from Wt (1, 2, and 3) and Vdac1 −/− RAS MEF (4, 5, and 6) tumors were resuspended in RLT buffer before DNA/RNA/protein extraction. (B) Quantification of the number of blood vessels/microscopic field of CD31-positive vessels ± SEM of tumor tissue derived from Wt RAS (1, 2, and 3) and Vdac1 −/− RAS MEF (4, 5, and 6). (C) Average of the quantification of CD31-positive vessels ± SEM per microscopic field in Wt RAS MEF-derived tumors (Wt RAS MEF) and Vdac1 −/− RAS MEF-derived tumors (Vdac1 −/− RAS MEF). Statistical significance, p
Additional file 16: Figure S12. of Knockout of Vdac1 activates hypoxia-inducible factor through reactive oxygen species generation and induces tumor growth by promoting metabolic reprogramming and inflammation
Creators: name: M. Brahimi-Horn
name: Giuliano, Sandy
name: Saland, Estelle
name: Lacas-Gervais, Sandra
name: Sheiko, Tatiana
name: Pelletier, Joffrey
name: Bourget, Isabelle
name: Bost, Frédéric
name: Féral, Chloé
name: Boulter, Etienne
name: Tauc, Michel
name: Ivan, Mircea
name: Garmy-Susini, Barbara
name: Popa, Alexandra
name: Mari, Bernard
name: Jean-Emmanuel Sarry
name: Craigen, William
name: Pouysségur, Jacques
name: Mazure, Nathalie
Publisher: name: Figshare
Year: 2015
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Physiology
subject: Developmental Biology
subject: Marine Biology
subject: Cancer
subject: Computational Biology

description: Immunohistochemical staining for VEGFA of tumor sections. (A) Negative control using secondary antibody only on Wt RAS MEFs. (B) VEGFA immunodetection in sections of Wt and Vdac1 −/− RAS MEF-derived tumor using 4X (top panels), 20X (middle panels), and 40X (bottom panels) magnification.
Additional file 12: Figure S7. of Knockout of Vdac1 activates hypoxia-inducible factor through reactive oxygen species generation and induces tumor growth by promoting metabolic reprogramming and inflammation
Creators: name: M. Brahimi-Horn
name: Giuliano, Sandy
name: Saland, Estelle
name: Lacas-Gervais, Sandra
name: Sheiko, Tatiana
name: Pelletier, Joffrey
name: Bourget, Isabelle
name: Bost, Frédéric
name: Féral, Chloé
name: Boulter, Etienne
name: Tauc, Michel
name: Ivan, Mircea
name: Garmy-Susini, Barbara
name: Popa, Alexandra
name: Mari, Bernard
name: Jean-Emmanuel Sarry
name: Craigen, William
name: Pouysségur, Jacques
name: Mazure, Nathalie
Publisher: name: Figshare
Year: 2015
Subjects: subject: Biochemistry
subject: Space Science
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Physiology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Developmental Biology

description: Glucose and glutamine metabolism. (A) Wt and Vdac1 −/− MEF were cultured for 2 days in Nx or Hx in the presence of 2-deoxy-d-glucose (2DG, 1 μM) or without glucose (−Gluc). The cell number was measured on a Beckman Coulter apparatus (squares). The percentage of cell mortality was measured by trypan blue exclusion (black dots). The mean ± SEM is representative of two independent experiments carried out in duplicate. (B) The glutamate concentration in the media of Wt and Vdac1 −/− MEF cultured in normoxia (Nx) or hypoxia 1 % O2 (Hx) was measured at day 7 using a YSI 2700 apparatus. Vdac1 −/− MEF convert little or no glutamine into glutamate compared to Wt MEF.