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  • 04. Solid Earth::04.08. Volcanology::04.08.06. Volcano monitoring  (5)
  • Polymorphism/mutation detection  (4)
  • Elsevier  (4)
  • Oxford University Press  (4)
  • Blackwell Publishing Ltd  (1)
  • American Chemical Society
  • International Union of Crystallography
  • Wiley
  • 2010-2014  (9)
  • 1995-1999
  • 2012  (9)
Collection
Keywords
Publisher
Years
  • 2010-2014  (9)
  • 1995-1999
Year
  • 1
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    Magma intrusion mechanisms and redistribution of seismogenic stress at Mt. Etna volcano (1997–1998) (2012)
    Blackwell Publishing Ltd
    Details
    Publication Date: 2017-04-04
    Description: Several volcanoes worldwide have shown changes in their stress state as a consequence of the deformation produced by the pressurization of a magmatic body. This study investigates seismic swarms occurring on the western flank of Mt. Etna in January 1997 - January 1998. Integrating seismic observations and geodetic data, we constrained the seismogenic fault system, and on the basis of stress tensor inversion and SHMAX analyses, we infer an inflating pressure source located at 5.5 km b.s.l. beneath the west portion of summit area. Evaluation of Coulomb failure stress (CFS) related to the proposed model, showed how a large part of the seismogenic fault underwent a significant CFS increase (500 kPa). We infer the presence of a sub-vertical faulted region, potentially weak, N50°E oriented beneath the western sector of Mt. Etna. This structure could be brought closer to failure thereby generating seismic swarms as the effect of elastic stress transfer induced by movement and/or overpressure of magmatic masses within the upper crust under the volcano.
    Description: This research was funded by the INGV–DPC 2007–2009 Agreement (Project V4_Flank).
    Description: Published
    Description: 339-348
    Description: 1.4. TTC - Sorveglianza sismologica delle aree vulcaniche attive
    Description: JCR Journal
    Description: restricted
    Keywords: Etna ; modelling ; Seismicity ; GPS monitoring ; 04. Solid Earth::04.08. Volcanology::04.08.06. Volcano monitoring
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: article
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  • 2
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    An emergent strategy for volcano hazard assessment: From thermal satellite monitoring to lava flow modeling (2012)
    Elsevier
    Details
    Publication Date: 2017-04-04
    Description: Spaceborne remote sensing techniques and numerical simulations have been combined in a web-GIS framework (LAV@HAZARD) to evaluate lava flow hazard in real time. By using the HOTSAT satellite thermal monitoring system to estimate time-varying TADR (time averaged discharge rate) and the MAGFLOW physicsbased model to simulate lava flow paths, the LAV@HAZARD platform allows timely definition of parameters and maps essential for hazard assessment, including the propagation time of lava flows and the maximum run-out distance. We used LAV@HAZARD during the 2008–2009 lava flow-forming eruption at Mt Etna (Sicily, Italy). We measured the temporal variation in thermal emission (up to four times per hour) during the entire duration of the eruption using SEVIRI and MODIS data. The time-series of radiative power allowed us to identify six diverse thermal phases each related to different dynamic volcanic processes and associated with different TADRs and lava flow emplacement conditions. Satellite-derived estimates of lava discharge rates were computed and integrated for the whole period of the eruption (almost 14 months), showing that a lava volume of between 32 and 61 million cubic meters was erupted of which about 2/3 was emplaced during the first 4 months. These time-varying discharge rates were then used to drive MAGFLOW simulations to chart the spread of lava as a function of time. TADRs were sufficiently low (b30 m3/s) that no lava flows were capable of flowing any great distance so that they did not pose a hazard to vulnerable (agricultural and urban) areas on the flanks of Etna.
    Description: Published
    Description: 197-207
    Description: 3.6. Fisica del vulcanismo
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: JCR Journal
    Description: reserved
    Keywords: Etna volcano Infrared remote sensing Numerical simulation GIS Lava hazard assessment ; 04. Solid Earth::04.08. Volcanology::04.08.99. General or miscellaneous ; 04. Solid Earth::04.08. Volcanology::04.08.06. Volcano monitoring ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk ; 05. General::05.01. Computational geophysics::05.01.01. Data processing ; 05. General::05.01. Computational geophysics::05.01.05. Algorithms and implementation ; 05. General::05.05. Mathematical geophysics::05.05.99. General or miscellaneous
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: article
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  • 3
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    Coupled use of COSPEC and satellite measurements to define the volumetric balance during effusive eruptions at Mt. Etna, Italy (2012)
    Elsevier
    Details
    Publication Date: 2017-04-04
    Description: Using Etna as a case study location, we examine the balance between the volume of magma supplied to the shallow volcanic system (using ground-based SO2 data) and the volume erupted (using satellite thermal data). We do this for three eruptions of Mt. Etna (Italy) during 2002 to 2006. We find that, during the three eruptions, 2.3×107 m3 or 24% of the degassed volume remained unerupted. However, variations in the degree of partitioning between supplied (Vsupply) and erupted (Verupt) magma occur within individual eruptions over the time scales of days. Consequently, we define and quantify three types of partitioning. In the first case, VsupplybVerupt, i.e. more lava is erupted than is supplied. In such a case previously degassed magma is erupted or magma can rise faster than it is able to degas, as occurred during the open phases of the 2002–2003 and 2004–2005 eruptions, respectively. In the second case, VsupplyNVerupt, i.e. less lava is erupted than is supplied. In such a case, magma can erupt in an explosive manner, as occurred during Phase II of the 2002–2003 eruption, or remain within or below the edifice. In the third case, Vsupply=Verupt, i.e. all supplied magma is erupted. During 2002–2006, over a total of 280 days of eruptive activity, this balancing case applied to 50% of the time.
    Description: Published
    Description: 47-53
    Description: JCR Journal
    Description: reserved
    Keywords: Etna ; thermal remote sensing ; SO2 flux ; Effusive eruption ; mass balance ; 04. Solid Earth::04.08. Volcanology::04.08.06. Volcano monitoring
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
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  • 4
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    Mapping and DOWNFLOW simulation of recent lava flow fields at Mount Etna (2012)
    Elsevier
    Details
    Publication Date: 2017-04-04
    Description: In recent years, progress in geographic information systems (GIS) and remote sensing techniques have allowed the mapping and studying of lava flows in unprecedented detail. A composite GIS technique is introduced to obtain high resolution boundaries of lava flow fields. This technique is mainly based on the processing of LIDAR-derived maps and digital elevation models (DEMs). The probabilistic code DOWNFLOW is then used to simulate eight large flow fields formed at Mount Etna in the last 25 years. Thanks to the collection of 6 DEMs representing Mount Etna at different times from 1986 to 2007, simulated outputs are obtained by running the DOWNFLOW code over pre-emplacement topographies. Simulation outputs are compared with the boundaries of the actual flow fields obtained here or derived from the existing literature. Although the selected fields formed in accordance with different emplacement mechanisms, flowed on different zones of the volcano over different topographies and were fed by different lava supplies of different durations, DOWNFLOW yields results close to the actual flow fields in all the cases considered. This outcome is noteworthy because DOWNFLOW has been applied by adopting a default calibration, without any specific tuning for the new cases considered here. This extensive testing proves that, if the pre-emplacement topography is available, DOWNFLOW yields a realistic simulation of a future lava flow based solely on a knowledge of the vent position. In comparison with deterministic codes, which require accurate knowledge of a large number of input parameters, DOWNFLOW turns out to be simple, fast and undemanding, proving to be ideal for systematic hazard and risk analyses.
    Description: Published
    Description: 27-39
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: 5.5. TTC - Sistema Informativo Territoriale
    Description: JCR Journal
    Description: reserved
    Keywords: LIDAR ; lava flow field ; lava flow simulation ; Digital elevation model ; Mount Etna ; 04. Solid Earth::04.08. Volcanology::04.08.06. Volcano monitoring ; 04. Solid Earth::04.08. Volcanology::04.08.07. Instruments and techniques ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: article
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  • 5
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    Pattern recognition of volcanic tremor data on Mt. Etna (Italy) with KKAnalysis — A software program for unsupervised classification (2012)
    Elsevier
    Details
    Publication Date: 2017-04-04
    Description: Continuous seismic monitoring plays a key role in the surveillance of the Mt. Etna volcano. Besides earthquakes, which often herald eruptive episodes, the persistent background signal, known as volcanic tremor, provides important information on the volcano status. Changes in the regimes of activity are usually concurrent with variations in tremor characteristics. As continuous recording leads rapidly to the accumulation of large amounts of data, parameter extraction and automated processing become crucial. We propose techniques of unsupervised classification and present a software, named KKAnalysis, developed for this purpose. Essentials of KKAnalysis are demonstrated on tremor data recorded on Mt. Etna during various states of volcanic activity encountered in 2007 and 2008. KKAnalysis is based on MATLAB and combines various unsupervised pattern recognition techniques, in particular self-organizing maps (SOM) and cluster analysis. An early software version was successfully applied to seismic signals recorded on Mt. Etna during the eruption in 2001. Since each situation may require different configurations, we designed KKAnalysis with a specific GUI allowing users to easily modify parameters. All results are given graphically, in screen plots and metafiles (MATLAB and TIF format), as well as in alphanumeric form. The synoptic visualization of results from SOM and cluster analysis facilitates an immediate inspection. The potential of this representation is demonstrated by focusing on data recorded during a flank eruption on May 13, 2008. Changes of tremor characteristics can be clearly identified at a very early stage, well before enhanced volcanic activity becomes visible in the time series. At the same time, data reduction to less than 1% of the original amount is achieved, which facilitates interpretation and storage of the essential information. Running the program in a typical configuration requires computing time less than 1 min, allowing an on-line application for early warning purposes at INGV–Sezione di Catania
    Description: Published
    Description: 953-961
    Description: 1.5. TTC - Sorveglianza dell'attività eruttiva dei vulcani
    Description: 5.6. TTC - Attività di Sala Operativa
    Description: JCR Journal
    Description: reserved
    Keywords: Self-Organizing Map ; Cluster Analysis ; K-means ; Fuzzy C-means ; Volcano Seismology ; Volcano Monitoring ; 04. Solid Earth::04.06. Seismology::04.06.08. Volcano seismology ; 04. Solid Earth::04.08. Volcanology::04.08.06. Volcano monitoring ; 05. General::05.01. Computational geophysics::05.01.01. Data processing ; 05. General::05.01. Computational geophysics::05.01.02. Cellular automata, fuzzy logic, genetic alghoritms, neural networks ; 05. General::05.02. Data dissemination::05.02.03. Volcanic eruptions
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: article
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  • 6
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    Maximizing signal-to-noise ratio in the random mutation capture assay (2012)
    Oxford University Press
    Details
    Publication Date: 2012-03-14
    Description: The ‘Random Mutation Capture’ assay allows for the sensitive quantitation of DNA mutations at extremely low mutation frequencies. This method is based on PCR detection of mutations that render the mutated target sequence resistant to restriction enzyme digestion. The original protocol prescribes an end-point dilution to about 0.1 mutant DNA molecules per PCR well, such that the mutation burden can be simply calculated by counting the number of amplified PCR wells. However, the statistical aspects associated with the single molecular nature of this protocol and several other molecular approaches relying on binary (on/off) output can significantly affect the quantification accuracy, and this issue has so far been ignored. The present work proposes a design of experiment (DoE) using statistical modeling and Monte Carlo simulations to obtain a statistically optimal sampling protocol, one that minimizes the coefficient of variance in the measurement estimates. Here, the DoE prescribed a dilution factor at about 1.6 mutant molecules per well. Theoretical results and experimental validation revealed an up to 10-fold improvement in the information obtained per PCR well, i.e. the optimal protocol achieves the same coefficient of variation using one-tenth the number of wells used in the original assay. Additionally, this optimization equally applies to any method that relies on binary detection of a small number of templates.
    Keywords: Polymorphism/mutation detection
    Print ISSN: 0305-1048
    Electronic ISSN: 1362-4962
    Topics: Biology
    Published by Oxford University Press
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  • 7
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    Direct, genome-wide assessment of DNA mutations in single cells (2012)
    Oxford University Press
    Details
    Publication Date: 2012-03-14
    Description: DNA mutations are the inevitable consequences of errors that arise during replication and repair of DNA damage. Because of their random and infrequent occurrence, quantification and characterization of DNA mutations in the genome of somatic cells has been difficult. Random, low-abundance mutations are currently inaccessible by standard high-throughput sequencing approaches because they cannot be distinguished from sequencing errors. One way to circumvent this problem and simultaneously account for the mutational heterogeneity within tissues is whole genome sequencing of a representative number of single cells. Here, we show elevated mutation levels in single cells from Drosophila melanogaster S2 and mouse embryonic fibroblast populations after treatment with the powerful mutagen N -ethyl- N -nitrosourea. This method can be applied as a direct measure of exposure to mutagenic agents and for assessing genotypic heterogeneity within tissues or cell populations.
    Keywords: Polymorphism/mutation detection
    Print ISSN: 0305-1048
    Electronic ISSN: 1362-4962
    Topics: Biology
    Published by Oxford University Press
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  • 8
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    Identification of high-confidence somatic mutations in whole genome sequence of formalin-fixed breast cancer specimens (2012)
    Oxford University Press
    Details
    Publication Date: 2012-08-08
    Description: The utilization of archived, formalin-fixed paraffin-embedded (FFPE) tumor samples for massive parallel sequencing has been challenging due to DNA damage and contamination with normal stroma. Here, we perform whole genome sequencing of DNA isolated from two triple-negative breast cancer tumors archived for 〉11 years as 5 µm FFPE sections and matched germline DNA. The tumor samples show differing amounts of FFPE damaged DNA sequencing reads revealed as relatively high alignment mismatch rates enriched for C·G 〉 T·A substitutions compared to germline samples. This increase in mismatch rate is observable with as few as one million reads, allowing for an upfront evaluation of the sample integrity before whole genome sequencing. By applying innovative quality filters incorporating global nucleotide mismatch rates and local mismatch rates, we present a method to identify high-confidence somatic mutations even in the presence of FFPE induced DNA damage. This results in a breast cancer mutational profile consistent with previous studies and revealing potentially important functional mutations. Our study demonstrates the feasibility of performing genome-wide deep sequencing analysis of FFPE archived tumors of limited sample size such as residual cancer after treatment or metastatic biopsies.
    Keywords: Polymorphism/mutation detection
    Print ISSN: 0305-1048
    Electronic ISSN: 1362-4962
    Topics: Biology
    Published by Oxford University Press
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  • 9
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    Fluorescent signatures for variable DNA sequences (2012)
    Oxford University Press
    Details
    Publication Date: 2012-11-25
    Description: Life abounds with genetic variations writ in sequences that are often only a few hundred nucleotides long. Rapid detection of these variations for identification of genetic diseases, pathogens and organisms has become the mainstay of molecular science and medicine. This report describes a new, highly informative closed-tube polymerase chain reaction (PCR) strategy for analysis of both known and unknown sequence variations. It combines efficient quantitative amplification of single-stranded DNA targets through LATE-PCR with sets of Lights-On/Lights-Off probes that hybridize to their target sequences over a broad temperature range. Contiguous pairs of Lights-On/Lights-Off probes of the same fluorescent color are used to scan hundreds of nucleotides for the presence of mutations. Sets of probes in different colors can be combined in the same tube to analyze even longer single-stranded targets. Each set of hybridized Lights-On/Lights-Off probes generates a composite fluorescent contour, which is mathematically converted to a sequence-specific fluorescent signature. The versatility and broad utility of this new technology is illustrated in this report by characterization of variant sequences in three different DNA targets: the rpoB gene of Mycobacterium tuberculosis, a sequence in the mitochondrial cytochrome C oxidase subunit 1 gene of nematodes and the V3 hypervariable region of the bacterial 16 s ribosomal RNA gene. We anticipate widespread use of these technologies for diagnostics, species identification and basic research.
    Keywords: Polymorphism/mutation detection
    Print ISSN: 0305-1048
    Electronic ISSN: 1362-4962
    Topics: Biology
    Published by Oxford University Press
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