| 1. |
- Blösch, Günter, et al.
(författare)
-
Twenty-three unsolved problems in hydrology (UPH) - a community perspective
- 2019
-
Ingår i: Hydrological Sciences Journal. - : Informa UK Limited. - 0262-6667 .- 2150-3435. ; 64:10, s. 1141-1158
-
Tidskriftsartikel (refereegranskat)abstract
- This paper is the outcome of a community initiative to identify major unsolved scientific problems in hydrology motivated by a need for stronger harmonisation of research efforts. The procedure involved a public consultation through online media, followed by two workshops through which a large number of potential science questions were collated, prioritised, and synthesised. In spite of the diversity of the participants (230 scientists in total), the process revealed much about community priorities and the state of our science: a preference for continuity in research questions rather than radical departures or redirections from past and current work. Questions remain focused on the process-based understanding of hydrological variability and causality at all space and time scales. Increased attention to environmental change drives a new emphasis on understanding how change propagates across interfaces within the hydrological system and across disciplinary boundaries. In particular, the expansion of the human footprint raises a new set of questions related to human interactions with nature and water cycle feedbacks in the context of complex water management problems. We hope that this reflection and synthesis of the 23 unsolved problems in hydrology will help guide research efforts for some years to come.
|
|
| 2. |
- Klionsky, Daniel J., et al.
(författare)
-
Guidelines for the use and interpretation of assays for monitoring autophagy
- 2012
-
Ingår i: Autophagy. - : Informa UK Limited. - 1554-8635 .- 1554-8627. ; 8:4, s. 445-544
-
Forskningsöversikt (refereegranskat)abstract
- In 2008 we published the first set of guidelines for standardizing research in autophagy. Since then, research on this topic has continued to accelerate, and many new scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Accordingly, it is important to update these guidelines for monitoring autophagy in different organisms. Various reviews have described the range of assays that have been used for this purpose. Nevertheless, there continues to be confusion regarding acceptable methods to measure autophagy, especially in multicellular eukaryotes. A key point that needs to be emphasized is that there is a difference between measurements that monitor the numbers or volume of autophagic elements (e.g., autophagosomes or autolysosomes) at any stage of the autophagic process vs. those that measure flux through the autophagy pathway (i.e., the complete process); thus, a block in macroautophagy that results in autophagosome accumulation needs to be differentiated from stimuli that result in increased autophagic activity, defined as increased autophagy induction coupled with increased delivery to, and degradation within, lysosomes (in most higher eukaryotes and some protists such as Dictyostelium) or the vacuole (in plants and fungi). In other words, it is especially important that investigators new to the field understand that the appearance of more autophagosomes does not necessarily equate with more autophagy. In fact, in many cases, autophagosomes accumulate because of a block in trafficking to lysosomes without a concomitant change in autophagosome biogenesis, whereas an increase in autolysosomes may reflect a reduction in degradative activity. Here, we present a set of guidelines for the selection and interpretation of methods for use by investigators who aim to examine macroautophagy and related processes, as well as for reviewers who need to provide realistic and reasonable critiques of papers that are focused on these processes. These guidelines are not meant to be a formulaic set of rules, because the appropriate assays depend in part on the question being asked and the system being used. In addition, we emphasize that no individual assay is guaranteed to be the most appropriate one in every situation, and we strongly recommend the use of multiple assays to monitor autophagy. In these guidelines, we consider these various methods of assessing autophagy and what information can, or cannot, be obtained from them. Finally, by discussing the merits and limits of particular autophagy assays, we hope to encourage technical innovation in the field.
|
|
| 3. |
- Birney, Ewan, et al.
(författare)
-
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
- 2007
-
Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 447:7146, s. 799-816
-
Tidskriftsartikel (refereegranskat)abstract
- We report the generation and analysis of functional data from multiple, diverse experiments performed on a targeted 1% of the human genome as part of the pilot phase of the ENCODE Project. These data have been further integrated and augmented by a number of evolutionary and computational analyses. Together, our results advance the collective knowledge about human genome function in several major areas. First, our studies provide convincing evidence that the genome is pervasively transcribed, such that the majority of its bases can be found in primary transcripts, including non-protein-coding transcripts, and those that extensively overlap one another. Second, systematic examination of transcriptional regulation has yielded new understanding about transcription start sites, including their relationship to specific regulatory sequences and features of chromatin accessibility and histone modification. Third, a more sophisticated view of chromatin structure has emerged, including its inter-relationship with DNA replication and transcriptional regulation. Finally, integration of these new sources of information, in particular with respect to mammalian evolution based on inter- and intra-species sequence comparisons, has yielded new mechanistic and evolutionary insights concerning the functional landscape of the human genome. Together, these studies are defining a path for pursuit of a more comprehensive characterization of human genome function.
|
|
| 4. |
|
|
| 5. |
- Clark, Eric, et al.
(författare)
-
Foreword
- 2009
-
Ingår i: National Geographic countries of the world. - 9781426303890 ; , s. 4-5
-
Bokkapitel (populärvet., debatt m.m.)
|
|
| 6. |
- Clark, Eric, et al.
(författare)
-
Grepp på stadskrigsbilismen
- 2003
-
Ingår i: Tidrumsfragment : en vänbok till Bo Lenntorp. - 9197444839
-
Bokkapitel (övrigt vetenskapligt/konstnärligt)abstract
|
|
| 7. |
|
|
| 8. |
- Aad, G., et al.
(författare)
-
- 2011
-
swepub:Mat__t (refereegranskat)
|
|
| 9. |
- Clark, Eric, et al.
(författare)
-
Islands: ecologically unequal exchange and landesque capital
- 2012
-
Ingår i: Ecology and power: struggles over land and material resources in the past, present and future. - 9780415601467 ; , s. 52-67
-
Bokkapitel (refereegranskat)abstract
- Our purpose in this chapter is to give a brief perspective on islands in global historical-political ecology, focusing on ecologically unequal exchange and the formation of landesque capital. We emphasize how these processes are intertwined and recursively connected in broader contexts of uneven development. Empirical examples draw on our research into the historical-political ecology of islands and archipelagos which have since 1949 been geopolitically part of Taiwan, the Republic of China: Kinmen (Quemoy) Island in the Fukien Province of China, the Penghu Archipelago (Pescadores) in the Taiwan Strait, and Pongso no Tau (Lanyu, Orchid Island), a northern outlier of the Batanes Islands, southeast of Taiwan. The aim is not so much to draw comparisons between these cases as to draw connections, both between the processes of ecologically unequal exchange and formation of landesque capital, and between the peripheral islands and the global political economy/ecology of which they are part.
|
|
| 10. |
- Clark, Eric, et al.
(författare)
-
Isolating Connections - Connecting Isolations
- 2009
-
Ingår i: Geografiska Annaler. Series B. Human Geography. - 1468-0467. ; 91B:4, s. 311-323
-
Forskningsöversikt (refereegranskat)abstract
- The varied and distinct ways we connect can facilitate or impose isolation, our own or someone else's. Different forms of isolation are themselves interconnected and sometimes enrich our connecting. The relation between isolation and connection, we argue, is one of complementarity, like Calvino's 'two inseparable and complementary functions of life ... syntony, or participation in the world around us ... [and] focalization or constructive concentration.' Solitude sought can enhance connections. Imposed isolation weakens connections in ways both obvious and subtle. This contrast between sought and imposed underscores the influence of hierarchy and socially produced inequities, excesses of which fragment the social ties that could constrain or diminish these same inequities. Deep inequity degrades the quality of both connections and isolation, at significant costs to our health, ecology, economy, cultural diversity, and political vitality. From this vantage point, we cull ways to improve our syntony and our focalization, fulfilling by expressing those shared egalitarian moral sentiments that motivate connections of solidarity partly in the interest of being "left alone".
|
|
| 11. |
- Clark, Thomas, et al.
(författare)
-
Participation in evolution and sustainability
- 2012
-
Ingår i: Transactions of the Institute of British Geographers. - : Wiley. - 0020-2754. ; 37:4, s. 563-577
-
Tidskriftsartikel (refereegranskat)abstract
- The modern synthesis of genetics with evolution slanted our understanding of evolution and of ourselves by rejecting Darwin’s view of animals as participating in their own evolution. Defining evolution in terms of genetics, the modern synthesis indulges excessive individualism and distorted self-images as self-made. At the same time, such gene-centred thought, evoking images of master molecules making us who we are, hollows out volition and so also moral concerns and political alternatives. Drawing on the geography of thought, we argue that stubbornly tacit preformationist biological thought reflects and anchors social processes that limit adaptability in reaching toward sustainable living. We appeal for leveraging sustainability efforts by affirming in theory and in the public square an open image of human nature that recognises the participation of our ancestors in becoming who we are, obliging people to make their history together. Achieving the collective self-regulation sustainability requires may depend on correcting slanted reasoning about ourselves.
|
|
| 12. |
- Graham, Jesse R., et al.
(författare)
-
The pipeline project: Pre-publication independent replications of a single laboratory's research pipeline
- 2016
-
Ingår i: Journal of Experimental Social Psychology. - : Elsevier. - 1096-0465 .- 0022-1031. ; 66, s. 55-67
-
Tidskriftsartikel (refereegranskat)abstract
- This crowdsourced project introduces a collaborative approach to improving the reproducibility of scientific research, in which findings are replicated in qualified independent laboratories before (rather than after) they are published. Our goal is to establish a non-adversarial replication process with highly informative final results. To illustrate the Pre-Publication Independent Replication (PPIR) approach, 25 research groups conducted replications of all ten moral judgment effects which the last author and his collaborators had “in the pipeline” as of August 2014. Six findings replicated according to all replication criteria, one finding replicated but with a significantly smaller effect size than the original, one finding replicated consistently in the original culture but not outside of it, and two findings failed to find support. In total, 40% of the original findings failed at least one major replication criterion. Potential ways to implement and incentivize pre-publication independent replication on a large scale are discussed.
|
|
| 13. |
- Hamlett, Eric D., et al.
(författare)
-
Neuronal exosomes reveal Alzheimer's disease biomarkers in Down syndrome
- 2017
-
Ingår i: Alzheimer's & Dementia. - : Elsevier. - 1552-5260 .- 1552-5279. ; 13:5, s. 541-549
-
Tidskriftsartikel (refereegranskat)abstract
- INTRODUCTION: Individuals with Down syndrome (DS) exhibit Alzheimer's disease (AD) neuropathology and dementia early in life. Blood biomarkers of AD neuropathology would be valuable, as non-AD intellectual disabilities of DS and AD dementia overlap clinically. We hypothesized that elevations of amyloid-β (Aβ) peptides and phosphorylated-tau in neuronal exosomes may document preclinical AD.METHODS: AD neuropathogenic proteins Aβ1-42, P-T181-tau, and P-S396-tau were quantified by enzyme-linked immunosorbent assays in extracts of neuronal exosomes purified from blood of individuals with DS and age-matched controls.RESULTS: Neuronal exosome levels of Aβ1-42, P-T181-tau, and P-S396-tau were significantly elevated in individuals with DS compared with age-matched controls at all ages beginning in childhood. No significant gender differences were observed.DISCUSSION: These early increases in Aβ1-42, P-T181-tau, and P-S396-tau in individuals with DS may provide a basis for early intervention as targeted treatments become available.
|
|
| 14. |
- Jones, Gregory T., et al.
(författare)
-
Meta-Analysis of Genome-Wide Association Studies for Abdominal Aortic Aneurysm Identifies Four New Disease-Specific Risk Loci
- 2017
-
Ingår i: Circulation Research. - 0009-7330 .- 1524-4571. ; 120:2, s. 341-
-
Tidskriftsartikel (refereegranskat)abstract
- Rationale: Abdominal aortic aneurysm (AAA) is a complex disease with both genetic and environmental risk factors. Together, 6 previously identified risk loci only explain a small proportion of the heritability of AAA. Objective: To identify additional AAA risk loci using data from all available genome-wide association studies. Methods and Results: Through a meta-analysis of 6 genome-wide association study data sets and a validation study totaling 10 204 cases and 107 766 controls, we identified 4 new AAA risk loci: 1q32.3 (SMYD2), 13q12.11 (LINC00540), 20q13.12 (near PCIF1/MMP9/ZNF335), and 21q22.2 (ERG). In various database searches, we observed no new associations between the lead AAA single nucleotide polymorphisms and coronary artery disease, blood pressure, lipids, or diabetes mellitus. Network analyses identified ERG, IL6R, and LDLR as modifiers of MMP9, with a direct interaction between ERG and MMP9. Conclusions: The 4 new risk loci for AAA seem to be specific for AAA compared with other cardiovascular diseases and related traits suggesting that traditional cardiovascular risk factor management may only have limited value in preventing the progression of aneurysmal disease.
|
|
| 15. |
- Klionsky, Daniel J., et al.
(författare)
-
Guidelines for the use and interpretation of assays for monitoring autophagy in higher eukaryotes
- 2008
-
Ingår i: Autophagy. - : Landes Bioscience. - 1554-8627 .- 1554-8635. ; 4:2, s. 151-175
-
Forskningsöversikt (refereegranskat)abstract
- Research in autophagy continues to accelerate,1 and as a result many new scientists are entering the field. Accordingly, it is important to establish a standard set of criteria for monitoring macroautophagy in different organisms. Recent reviews have described the range of assays that have been used for this purpose.2,3 There are many useful and convenient methods that can be used to monitor macroautophagy in yeast, but relatively few in other model systems, and there is much confusion regarding acceptable methods to measure macroautophagy in higher eukaryotes. A key point that needs to be emphasized is that there is a difference between measurements that monitor the numbers of autophagosomes versus those that measure flux through the autophagy pathway; thus, a block in macroautophagy that results in autophagosome accumulation needs to be differentiated from fully functional autophagy that includes delivery to, and degradation within, lysosomes (in most higher eukaryotes) or the vacuole (in plants and fungi). Here, we present a set of guidelines for the selection and interpretation of the methods that can be used by investigators who are attempting to examine macroautophagy and related processes, as well as by reviewers who need to provide realistic and reasonable critiques of papers that investigate these processes. This set of guidelines is not meant to be a formulaic set of rules, because the appropriate assays depend in part on the question being asked and the system being used. In addition, we emphasize that no individual assay is guaranteed to be the most appropriate one in every situation, and we strongly recommend the use of multiple assays to verify an autophagic response.
|
|
| 16. |
- Schweinsberg, Martin, et al.
(författare)
-
Same data, different conclusions : Radical dispersion in empirical results when independent analysts operationalize and test the same hypothesis
- 2021
-
Ingår i: Organizational Behavior and Human Decision Processes. - : Elsevier BV. - 0749-5978 .- 1095-9920. ; 165, s. 228-249
-
Tidskriftsartikel (refereegranskat)abstract
- In this crowdsourced initiative, independent analysts used the same dataset to test two hypotheses regarding the effects of scientists' gender and professional status on verbosity during group meetings. Not only the analytic approach but also the operationalizations of key variables were left unconstrained and up to individual analysts. For instance, analysts could choose to operationalize status as job title, institutional ranking, citation counts, or some combination. To maximize transparency regarding the process by which analytic choices are made, the analysts used a platform we developed called DataExplained to justify both preferred and rejected analytic paths in real time. Analyses lacking sufficient detail, reproducible code, or with statistical errors were excluded, resulting in 29 analyses in the final sample. Researchers reported radically different analyses and dispersed empirical outcomes, in a number of cases obtaining significant effects in opposite directions for the same research question. A Boba multiverse analysis demonstrates that decisions about how to operationalize variables explain variability in outcomes above and beyond statistical choices (e.g., covariates). Subjective researcher decisions play a critical role in driving the reported empirical results, underscoring the need for open data, systematic robustness checks, and transparency regarding both analytic paths taken and not taken. Implications for orga-nizations and leaders, whose decision making relies in part on scientific findings, consulting reports, and internal analyses by data scientists, are discussed.
|
|
| 17. |
- Wang, Li-San, et al.
(författare)
-
Rarity of the Alzheimer Disease-Protective APP A673T Variant in the United States.
- 2015
-
Ingår i: JAMA neurology. - : American Medical Association (AMA). - 2168-6157 .- 2168-6149. ; 72:2
-
Tidskriftsartikel (refereegranskat)abstract
- Recently, a rare variant in the amyloid precursor protein gene (APP) was described in a population from Iceland. This variant, in which alanine is replaced by threonine at position 673 (A673T), appears to protect against late-onset Alzheimer disease (AD). We evaluated the frequency of this variant in AD cases and cognitively normal controls to determine whether this variant will significantly contribute to risk assessment in individuals in the United States.
|
|
| 18. |
- Washburn, Anthony N., et al.
(författare)
-
Data from a pre-publication independent replication initiative examining ten moral judgement effects
- 2016
-
Ingår i: Scientific Data. - : Nature Research (part of Springer Nature): Fully open access journals / Nature Publishing Group. - 2052-4463. ; 3
-
Tidskriftsartikel (refereegranskat)abstract
- We present the data from a crowdsourced project seeking to replicate findings in independent laboratories before (rather than after) they are published. In this Pre-Publication Independent Replication (PPIR) initiative, 25 research groups attempted to replicate 10 moral judgment effects from a single laboratory's research pipeline of unpublished findings. The 10 effects were investigated using online/lab surveys containing psychological manipulations (vignettes) followed by questionnaires.
|
|
| 19. |
|
|
| 20. |
|
|
| 21. |
- Anderberg, Stefan, 1957-, et al.
(författare)
-
Green and sustainable Øresund region : Eco-branding Copenhagen and Malmö
- 2013
-
Ingår i: Urban Sustainability. - East Lansing, Michigan : Michigan State University Press. - 9781611860559 ; , s. 591-610
-
Bokkapitel (refereegranskat)abstract
- In this chapter we discuss the recent development of the region and analyze the relation between environmental quality in the region and policy programs to undergird the image of Øresund, Copenhagen, and Malmö as green environmental forerunners of urban sustainability. Have the latter had marked impact on the environment? Or has eco-branding primarily capitalized on previous environmental improvement—much of which was exogenously driven? Is this a place where sustainable living is in the becoming? Our aim is not to provide exhaustive answers to these questions, but more modestly to present an analysis supporting the relevance of these questions while indicating conclusions that more thorough analyses may reach.
|
|
| 22. |
- Anderberg, Stefan, et al.
(författare)
-
Green sustainable Öresund region - or eco-branding Copenhagen and Malmö?
- 2013
-
Ingår i: Sustainability: a global urban context. - 9781611860559 ; , s. 591-610
-
Bokkapitel (refereegranskat)abstract
- A positive image of a city or region attracts people, investors and enterprises. High-quality environment and local sustainability initiatives can be used for creating a positive image. A growing number of regions and cities around the world have in recent years attempted to exploit this opportunity through sustainable development strategies and innovative environmental initiatives combined with green image marketing. The Øresund region in Southern Scandinavia is an example of such a region that has gone to great effort to brand itself as green and sustainable. One of the central visions for the region when the Øresund cooperation was launched in 1994--after the decision to build a bridge across the Sound (Øresund) connecting Denmark and Sweden--was to become “one of the cleanest big city regions in Europe”. This goal was representative of the new environmental policy agenda that had emerged in the early 1990s. Environmental efforts came to be considered important not only for the sake of health, quality of life, and sustainability, but also for stimulating growth and enhancing attractiveness of the region. Stimulating environmentally sustainable development signals that this is an advanced region and encourages environmental innovations and export of related products and services. Particularly the major cities Copenhagen and Malmö have developed sustainability profiles and eco-branding strategies. They are often mentioned, particularly in European contexts, as eco-city forerunners and achieve high rankings in international comparisons. In this chapter we discuss the recent development of the region--the decades prior to and the decade since the rise of eco-branding in the region--and analyze the relation between environmental quality in the region and policy programs to undergird the image of Øresund, Copenhagen and Malmö as green environmental forerunners of urban sustainability. Have the latter had marked impact on the environment? Or has eco-branding primarily capitalized on previous environmental improvement--much of which was exogenously driven? Is this a place where sustainable living is in the becoming? Our aim is not to provide exhaustive answers to these questions, but more modestly to present an analysis supporting the relevance of these questions while indicating conclusions which more thorough analyses may reach.
|
|
| 23. |
|
|
| 24. |
- Clark, Andrew G., et al.
(författare)
-
Evolution of genes and genomes on the Drosophila phylogeny
- 2007
-
Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 450:7167, s. 203-218
-
Tidskriftsartikel (refereegranskat)abstract
- Comparative analysis of multiple genomes in a phylogenetic framework dramatically improves the precision and sensitivity of evolutionary inference, producing more robust results than single-genome analyses can provide. The genomes of 12 Drosophila species, ten of which are presented here for the first time (sechellia, simulans, yakuba, erecta, ananassae, persimilis, willistoni, mojavensis, virilis and grimshawi), illustrate how rates and patterns of sequence divergence across taxa can illuminate evolutionary processes on a genomic scale. These genome sequences augment the formidable genetic tools that have made Drosophila melanogaster a pre-eminent model for animal genetics, and will further catalyse fundamental research on mechanisms of development, cell biology, genetics, disease, neurobiology, behaviour, physiology and evolution. Despite remarkable similarities among these Drosophila species, we identified many putatively non-neutral changes in protein-coding genes, non-coding RNA genes, and cis-regulatory regions. These may prove to underlie differences in the ecology and behaviour of these diverse species.
|
|
| 25. |
|
|
