Explorative search of distributed bio-data to answer complex biomedical questions.

BACKGROUND: The huge amount of biomedical-molecular data increasingly produced is providing scientists with potentially valuable information. Yet, such data quantity makes difficult to find and extract those data that are most reliable and most related to the biomedical questions to be answered, which are increasingly complex and often involve many different biomedical-molecular aspects. Such questions can be addressed only by comprehensively searching and exploring different types of data, which frequently are ordered and provided by different data sources. Search Computing has been proposed for the management and integration of ranked results from heterogeneous search services. Here, we present its novel application to the explorative search of distributed biomedical-molecular data and the integration of the search results to answer complex biomedical questions. RESULTS: A set of available bioinformatics search services has been modelled and registered in the Search Computing framework, and a Bioinformatics Search Computing application (Bio-SeCo) using such services has been created and made publicly available at http://www.bioinformatics.deib.polimi.it/bio-seco/seco/. It offers an integrated environment which eases search, exploration and ranking-aware combination of heterogeneous data provided by the available registered services, and supplies global results that can support answering complex multi-topic biomedical questions. CONCLUSIONS: By using Bio-SeCo, scientists can explore the very large and very heterogeneous biomedical-molecular data available. They can easily make different explorative search attempts, inspect obtained results, select the most appropriate, expand or refine them and move forward and backward in the construction of a global complex biomedical query on multiple distributed sources that could eventually find the most relevant results. Thus, it provides an extremely useful automated support for exploratory integrated bio search, which is fundamental for Life Science data driven knowledge discovery.

On catching the preparatory phase of damaging earthquakes: an example from central Italy.

How, when and where large earthquakes are generated remain fundamental unsolved scientific questions. Intercepting when a fault system starts deviating from its steady behavior by monitoring the spatio-temporal evolution and dynamic source properties of micro-to-small earthquakes can have high potential as tool for identifying the preparatory phase of large earthquakes. We analyze the seismic activity that preceded the Mw 6.3 earthquake that hit L'Aquila on 6 April 2009 in central Italy, and we show that the seismic catalog information can be transformed into features allowing us to track in a statistical framework the spatio-temporal evolution of seismicity. Features associated to foreshocks show different patterns from the background seismicity that occurred in the previous years. We show that features ensemble allows to clearly capture the activation phase of the main event. Nonetheless, foreshocks share similar clustering properties of previous seismic sequences not culminating in large earthquakes, and thus generating questions on their use as potential precursor for earthquake sequences prone to evolve into catastrophic sequences.

The preparatory process of the 2023 Mw 7.8 Türkiye earthquake.

To verify the existence of a preparatory process for the 6 February 2023, Mw 7.8 Kahramanmaras earthquake, southern Türkiye, we analyze the temporal evolution of seismic catalog information for ~ 7500 earthquakes with magnitudes ML ≥ 1.5, which occurred along the main segments of the East Anatolian Fault (EAF) since 2014. We find the EAF fault segments showing different temporal patterns in the proportion of nonclustered seismicity, which we interpret as temporal variation of coupling. We also study the evolution of the b-value, fractal dimension and energy rate. These seismic features show for the Amanos and Pazarcik fault segments a long-term trend during the period 2020-2022 that might correspond to a quiescence phase. The latter is followed by a change in earthquakes clustering and characteristics that starts about eight months before the Mw 7.8 Kahramanmaras event. Our observations confirm the existence of a long-lasting preparatory phase for the 2023, Mw 7.8 Kahramanmaras earthquake and can stimulate new investigations on the East Anatolian Fault mechanic. Intercepting when a fault starts deviating from its steady behavior, might be the key for identifying the preparatory phase of large earthquakes and mitigate seismic risk.

Regulation of deep carbon degassing by gas-rock-water interactions in a seismic region of Southern Italy.

This study is focused on fluids characterization and circulations through the crust of the Irpinia region, an active seismic zone in Southern Italy, that has experienced several high-magnitude earthquakes, including a catastrophic one in 1980 (M = 6.9 Ms). Using isotopic geochemistry and the carbon­helium system in free and dissolved volatiles in water, this study aims to explore the processes at depth that can alter pristine chemistry of these natural fluids. Gas-rock-water interactions and their impact on CO2 emissions and isotopic composition are evaluated using a multidisciplinary model that integrates geochemistry and regional geological data. By analyzing the He isotopic signature in the natural fluids, the release of mantle-derived He on a regional scale in Southern Italy is verified, along with significant emissions of deep-sourced CO2. The proposed model, supported by geological and geophysical constraints, is based on the interactions between gas, rock, and water within the crust and the degassing of deep-sourced CO2. Furthermore, this study reveals that the Total Dissolved Inorganic Carbon (TDIC) in cold waters results from mixing between a shallow and a deeper carbon endmember that is equilibrated with carbonate lithology. In addition, the geochemical signature of TDIC in thermal carbon-rich water is explained by supplementary secondary processes, including equilibrium fractionation between solid, gas, and aqueous phases, as well as sinks such as mineral precipitation and CO2 degassing. These findings have important implications for developing effective monitoring strategies for crustal fluids in different geological contexts and highlight the critical need to understand gas-water-rock interaction processes that control fluid chemistry at depths that can affect the assessment of the CO2 flux in atmosphere. Finally, this study highlights that the emissions of natural CO2 from the seismically active Irpinia area are up to 4.08·10+9 mol·y-1, which amounts is in the range of worldwide volcanic systems.

GFZ wireless seismic array (GFZ-WISE), a wireless mesh network of seismic sensors: new perspectives for seismic noise array investigations and site monitoring.

Over the last few years, the analysis of seismic noise recorded by two dimensional arrays has been confirmed to be capable of deriving the subsoil shear-wave velocity structure down to several hundred meters depth. In fact, using just a few minutes of seismic noise recordings and combining this with the well known horizontal-to-vertical method, it has also been shown that it is possible to investigate the average one dimensional velocity structure below an array of stations in urban areas with a sufficient resolution to depths that would be prohibitive with active source array surveys, while in addition reducing the number of boreholes required to be drilled for site-effect analysis. However, the high cost of standard seismological instrumentation limits the number of sensors generally available for two-dimensional array measurements (i.e., of the order of 10), limiting the resolution in the estimated shear-wave velocity profiles. Therefore, new themes in site-effect estimation research by two-dimensional arrays involve the development and application of low-cost instrumentation, which potentially allows the performance of dense-array measurements, and the development of dedicated signal-analysis procedures for rapid and robust estimation of shear-wave velocity profiles. In this work, we present novel low-cost wireless instrumentation for dense two-dimensional ambient seismic noise array measurements that allows the real-time analysis of the surface-wavefield and the rapid estimation of the local shear-wave velocity structure for site response studies. We first introduce the general philosophy of the new system, as well as the hardware and software that forms the novel instrument, which we have tested in laboratory and field studies.

Detecting long-lasting transients of earthquake activity on a fault system by monitoring apparent stress, ground motion and clustering.

Damaging earthquakes result from the evolution of stress in the brittle upper-crust, but the understanding of the mechanics of faulting cannot be achieved by only studying the large ones, which are rare. Considering a fault as a complex system, microearthquakes allow to set a benchmark in the system evolution. Here, we investigate the possibility to detect when a fault system starts deviating from a predefined benchmark behavior by monitoring the temporal and spatial variability of different micro-and-small magnitude earthquakes properties. We follow the temporal evolution of the apparent stress and of the event-specific residuals of ground shaking. Temporal and spatial clustering properties of microearthquakes are monitored as well. We focus on a fault system located in Southern Italy, where the Mw 6.9 Irpinia earthquake occurred in 1980. Following the temporal evolution of earthquakes parameters and their time-space distribution, we can identify two long-lasting phases in the seismicity patterns that are likely related to high pressure fluids in the shallow crust, which were otherwise impossible to decipher. Monitoring temporal and spatial variability of micro-to-small earthquakes source parameters at near fault observatories can have high potential as tool for providing us with new understanding of how the machine generating large earthquakes works.