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2022 ◽  
Author(s):  
Caibin Sheng ◽  
Rui Lopes ◽  
Gang Li ◽  
Sven Schuierer ◽  
Annick Waldt ◽  
...  

Droplet-based single-cell omics, including single-cell RNA sequencing (scRNAseq), single cell CRISPR perturbations (e.g., CROP-seq) and single-cell protein and transcriptomic profiling (e.g., CITE-seq) hold great promise for comprehensive cell profiling and genetic screening at the single cell resolution, yet these technologies suffer from substantial noise, among which ambient signals present in the cell suspension may be the predominant source. Current efforts to address this issue are highly specific to a certain technology, while a universal model to describe the noise across these technologies may reveal this common source thereby improving the denoising accuracy. To this end, we explicitly examined these unexpected signals and observed a predictable pattern in multiple datasets across different technologies. Based on the finding, we developed single cell Ambient Remover (scAR) which uses probabilistic deep learning to deconvolute the observed signals into native and ambient composition. scAR provides an efficient and universal solution to count denoising for multiple types of single-cell omics data, including single cell CRISPR screens, CITE-seq and scRNAseq. It will facilitate the application of single-cell omics technologies.


Sensors ◽  
2022 ◽  
Vol 22 (2) ◽  
pp. 649
Author(s):  
David Ferreira ◽  
Samuel Silva ◽  
Francisco Curado ◽  
António Teixeira

Speech is our most natural and efficient form of communication and offers a strong potential to improve how we interact with machines. However, speech communication can sometimes be limited by environmental (e.g., ambient noise), contextual (e.g., need for privacy), or health conditions (e.g., laryngectomy), preventing the consideration of audible speech. In this regard, silent speech interfaces (SSI) have been proposed as an alternative, considering technologies that do not require the production of acoustic signals (e.g., electromyography and video). Unfortunately, despite their plentitude, many still face limitations regarding their everyday use, e.g., being intrusive, non-portable, or raising technical (e.g., lighting conditions for video) or privacy concerns. In line with this necessity, this article explores the consideration of contactless continuous-wave radar to assess its potential for SSI development. A corpus of 13 European Portuguese words was acquired for four speakers and three of them enrolled in a second acquisition session, three months later. Regarding the speaker-dependent models, trained and tested with data from each speaker while using 5-fold cross-validation, average accuracies of 84.50% and 88.00% were respectively obtained from Bagging (BAG) and Linear Regression (LR) classifiers, respectively. Additionally, recognition accuracies of 81.79% and 81.80% were also, respectively, achieved for the session and speaker-independent experiments, establishing promising grounds for further exploring this technology towards silent speech recognition.


2022 ◽  
Author(s):  
◽  
Weiwei Wang

<p><b>This thesis uses continuous ambient noise data recorded by Ocean Bottom Seismometers (OBSs) to study seismic velocities in the upper crust of the overriding plate. The first and second projects (Chapters 3 and 4) focus on temporal seismic velocity variations in the northern Hikurangi subduction zone offshore the North Island, New Zealand, while the third project (Chapter 5) focuses on shear wave velocities in the southwestern Okinawa Trough offshore northeastern Taiwan. In the first project (Chapters 3), we investigate a region of frequent slow slip events (SSEs) offshore Gisborne, North Island, New Zealand. From September to October 2014, an SSE occurred with a slip over 250 mm and was recorded successfully by the Hikurangi Ocean Bottom Investigation of Tremor and Slow Slip deployment II (HOBITSS II). We apply coda wave interferometry on the ambient noise data acquired by nine OBSs deployed by the HOBITSS II to study the seismic velocity variations related to the SSE. The average velocity variations display a decrease on the order of 0.05% during the SSE, followed by an increase of similar magnitude afterwards. Two hypotheses are proposed to explain our observation. The first hypothesis, which has been suggested by previous studies, considers that the velocity decrease during the SSE is caused by more fluids migrating into the upper plate as the SSE breaks a low-permeability seal on the plate boundary. After the SSE, the fluids in the upper plate diffuse gradually and the velocity increases; The second hypothesis is that before the SSE, elastic strain accumulates causing contraction and reduction of porosity and therefore increase of velocity (the velocity increase between SSEs). During the SSE, the velocity decrease is caused by increased porosity as the SSE relieves the accumulated elastic strain on the plate interface, which results in dilation. After the SSE, stress and strain accumulate again, causing a porosity decrease and a velocity increase back to the original value. This study demonstrates that the velocity variations related to SSEs are observable and provides evidence for slow slip mechanism hypotheses.</b></p> <p>The second project (Chapter 4) focuses on the temporal seismic velocity variations associated with an SSE in 2019 offshore Gisborne, North Island, New Zealand. This is a later SSE in the same area as the first project (Chapters 3). Based on the success of the HOBITSS II, more ocean bottom instruments were deployed in the northern Hikurangi subduction zone from 2018 to 2019 (HOBITSS V). An SSE lasting approximately one month from the end of March to the beginning of May 2019 occurred during the deployment and was recorded by the network. The main slip was south of the deployment and the slip beneath the deployment was up to 150 mm. This study applies coda wave interferometry on the ambient noise data acquired by five OBSs and computes seismic velocity variations to investigate their relation to the SSE. A velocity decrease on the order of 0.015% during the SSE and an increase back to the original velocity value are observed at 1–2.5 s. This supports the two hypotheses proposed in Chapters 3: fluid migration and/or stain changes through the SSE cycle. In addition, velocity variations computed from individual stations show velocity increases before the SSE, which are destructively interfered in their average. Such a situation could occur if the SSE migrated across the network. If the velocity increases before the SSE from individual stations are real, they can be only explained by the hypothesis of crustal strain changes (the second hypothesis in project 1). However, fluid migration (the first hypothesis in project 1) may still happen concomitantly.</p> <p>The third project focuses on the tectonics in southwestern Okinawa Trough offshore northeastern Taiwan. The southwestern Okinawa Trough is an active back-arc basin, extending and rifting within the continental lithosphere. The tectonic development of the back-arc basin is still not well-understood. This study uses continuous ambient noise data recorded by 34 OBSs deployed by Academia Sinica at various periods from 2010 to 2018. Cross-correlations on vertical seismic components and pressure gauges are computed to construct Rayleigh/Scholte waves to study the shear wave velocity structure in the southwestern Okinawa Trough. Phase velocities are measured from the Rayleigh/Scholte waves. Shear velocities are inverted from the phase velocities. Results show the velocity in the south of the back-arc rifting axis near the axis is slower than the velocity in the north of the rifting axis, suggesting the velocity structure in the southwestern Okinawa Trough is asymmetric along the rifting axis. Previous studies have shown high heat flows (about 110mW/m 2 on average) in the south of the rifting axis. The low velocity in the south could be caused by the high heat flow that may be related to asymmetric back-arc extension and/or rifting. This study presents the shear wave velocity structure in the southwest Okinawa Trough is asymmetric along the rifting axis, which implies the back-arc extending/rifting is asymmetric in the study region. This study also suggests effective techniques for OBS noise corrections and unwrapping the cycle skipping of phase velocity measurements.</p> <p>In summary, this thesis represents three projects focusing on seismic velocities in two subduction zones using ambient noise data collected by OBSs. The first and second projects study the temporal velocity variations and the relation to SSEs. Both studies observe velocity decreases during the SSEs and increases after the SSEs, supporting two hypotheses of fluid migration and/or stain changes through the SSE cycle. The third project finds the shear velocity structure in the southwestern Okinawa Trough is asymmetric along the rifting center, which may imply the back-arc extension is asymmetric.</p>


2022 ◽  
Author(s):  
◽  
Weiwei Wang

<p><b>This thesis uses continuous ambient noise data recorded by Ocean Bottom Seismometers (OBSs) to study seismic velocities in the upper crust of the overriding plate. The first and second projects (Chapters 3 and 4) focus on temporal seismic velocity variations in the northern Hikurangi subduction zone offshore the North Island, New Zealand, while the third project (Chapter 5) focuses on shear wave velocities in the southwestern Okinawa Trough offshore northeastern Taiwan. In the first project (Chapters 3), we investigate a region of frequent slow slip events (SSEs) offshore Gisborne, North Island, New Zealand. From September to October 2014, an SSE occurred with a slip over 250 mm and was recorded successfully by the Hikurangi Ocean Bottom Investigation of Tremor and Slow Slip deployment II (HOBITSS II). We apply coda wave interferometry on the ambient noise data acquired by nine OBSs deployed by the HOBITSS II to study the seismic velocity variations related to the SSE. The average velocity variations display a decrease on the order of 0.05% during the SSE, followed by an increase of similar magnitude afterwards. Two hypotheses are proposed to explain our observation. The first hypothesis, which has been suggested by previous studies, considers that the velocity decrease during the SSE is caused by more fluids migrating into the upper plate as the SSE breaks a low-permeability seal on the plate boundary. After the SSE, the fluids in the upper plate diffuse gradually and the velocity increases; The second hypothesis is that before the SSE, elastic strain accumulates causing contraction and reduction of porosity and therefore increase of velocity (the velocity increase between SSEs). During the SSE, the velocity decrease is caused by increased porosity as the SSE relieves the accumulated elastic strain on the plate interface, which results in dilation. After the SSE, stress and strain accumulate again, causing a porosity decrease and a velocity increase back to the original value. This study demonstrates that the velocity variations related to SSEs are observable and provides evidence for slow slip mechanism hypotheses.</b></p> <p>The second project (Chapter 4) focuses on the temporal seismic velocity variations associated with an SSE in 2019 offshore Gisborne, North Island, New Zealand. This is a later SSE in the same area as the first project (Chapters 3). Based on the success of the HOBITSS II, more ocean bottom instruments were deployed in the northern Hikurangi subduction zone from 2018 to 2019 (HOBITSS V). An SSE lasting approximately one month from the end of March to the beginning of May 2019 occurred during the deployment and was recorded by the network. The main slip was south of the deployment and the slip beneath the deployment was up to 150 mm. This study applies coda wave interferometry on the ambient noise data acquired by five OBSs and computes seismic velocity variations to investigate their relation to the SSE. A velocity decrease on the order of 0.015% during the SSE and an increase back to the original velocity value are observed at 1–2.5 s. This supports the two hypotheses proposed in Chapters 3: fluid migration and/or stain changes through the SSE cycle. In addition, velocity variations computed from individual stations show velocity increases before the SSE, which are destructively interfered in their average. Such a situation could occur if the SSE migrated across the network. If the velocity increases before the SSE from individual stations are real, they can be only explained by the hypothesis of crustal strain changes (the second hypothesis in project 1). However, fluid migration (the first hypothesis in project 1) may still happen concomitantly.</p> <p>The third project focuses on the tectonics in southwestern Okinawa Trough offshore northeastern Taiwan. The southwestern Okinawa Trough is an active back-arc basin, extending and rifting within the continental lithosphere. The tectonic development of the back-arc basin is still not well-understood. This study uses continuous ambient noise data recorded by 34 OBSs deployed by Academia Sinica at various periods from 2010 to 2018. Cross-correlations on vertical seismic components and pressure gauges are computed to construct Rayleigh/Scholte waves to study the shear wave velocity structure in the southwestern Okinawa Trough. Phase velocities are measured from the Rayleigh/Scholte waves. Shear velocities are inverted from the phase velocities. Results show the velocity in the south of the back-arc rifting axis near the axis is slower than the velocity in the north of the rifting axis, suggesting the velocity structure in the southwestern Okinawa Trough is asymmetric along the rifting axis. Previous studies have shown high heat flows (about 110mW/m 2 on average) in the south of the rifting axis. The low velocity in the south could be caused by the high heat flow that may be related to asymmetric back-arc extension and/or rifting. This study presents the shear wave velocity structure in the southwest Okinawa Trough is asymmetric along the rifting axis, which implies the back-arc extending/rifting is asymmetric in the study region. This study also suggests effective techniques for OBS noise corrections and unwrapping the cycle skipping of phase velocity measurements.</p> <p>In summary, this thesis represents three projects focusing on seismic velocities in two subduction zones using ambient noise data collected by OBSs. The first and second projects study the temporal velocity variations and the relation to SSEs. Both studies observe velocity decreases during the SSEs and increases after the SSEs, supporting two hypotheses of fluid migration and/or stain changes through the SSE cycle. The third project finds the shear velocity structure in the southwestern Okinawa Trough is asymmetric along the rifting center, which may imply the back-arc extension is asymmetric.</p>


2022 ◽  
Author(s):  
◽  
Weiwei Wang

<p><b>This thesis uses continuous ambient noise data recorded by Ocean Bottom Seismometers (OBSs) to study seismic velocities in the upper crust of the overriding plate. The first and second projects (Chapters 3 and 4) focus on temporal seismic velocity variations in the northern Hikurangi subduction zone offshore the North Island, New Zealand, while the third project (Chapter 5) focuses on shear wave velocities in the southwestern Okinawa Trough offshore northeastern Taiwan. In the first project (Chapters 3), we investigate a region of frequent slow slip events (SSEs) offshore Gisborne, North Island, New Zealand. From September to October 2014, an SSE occurred with a slip over 250 mm and was recorded successfully by the Hikurangi Ocean Bottom Investigation of Tremor and Slow Slip deployment II (HOBITSS II). We apply coda wave interferometry on the ambient noise data acquired by nine OBSs deployed by the HOBITSS II to study the seismic velocity variations related to the SSE. The average velocity variations display a decrease on the order of 0.05% during the SSE, followed by an increase of similar magnitude afterwards. Two hypotheses are proposed to explain our observation. The first hypothesis, which has been suggested by previous studies, considers that the velocity decrease during the SSE is caused by more fluids migrating into the upper plate as the SSE breaks a low-permeability seal on the plate boundary. After the SSE, the fluids in the upper plate diffuse gradually and the velocity increases; The second hypothesis is that before the SSE, elastic strain accumulates causing contraction and reduction of porosity and therefore increase of velocity (the velocity increase between SSEs). During the SSE, the velocity decrease is caused by increased porosity as the SSE relieves the accumulated elastic strain on the plate interface, which results in dilation. After the SSE, stress and strain accumulate again, causing a porosity decrease and a velocity increase back to the original value. This study demonstrates that the velocity variations related to SSEs are observable and provides evidence for slow slip mechanism hypotheses.</b></p> <p>The second project (Chapter 4) focuses on the temporal seismic velocity variations associated with an SSE in 2019 offshore Gisborne, North Island, New Zealand. This is a later SSE in the same area as the first project (Chapters 3). Based on the success of the HOBITSS II, more ocean bottom instruments were deployed in the northern Hikurangi subduction zone from 2018 to 2019 (HOBITSS V). An SSE lasting approximately one month from the end of March to the beginning of May 2019 occurred during the deployment and was recorded by the network. The main slip was south of the deployment and the slip beneath the deployment was up to 150 mm. This study applies coda wave interferometry on the ambient noise data acquired by five OBSs and computes seismic velocity variations to investigate their relation to the SSE. A velocity decrease on the order of 0.015% during the SSE and an increase back to the original velocity value are observed at 1–2.5 s. This supports the two hypotheses proposed in Chapters 3: fluid migration and/or stain changes through the SSE cycle. In addition, velocity variations computed from individual stations show velocity increases before the SSE, which are destructively interfered in their average. Such a situation could occur if the SSE migrated across the network. If the velocity increases before the SSE from individual stations are real, they can be only explained by the hypothesis of crustal strain changes (the second hypothesis in project 1). However, fluid migration (the first hypothesis in project 1) may still happen concomitantly.</p> <p>The third project focuses on the tectonics in southwestern Okinawa Trough offshore northeastern Taiwan. The southwestern Okinawa Trough is an active back-arc basin, extending and rifting within the continental lithosphere. The tectonic development of the back-arc basin is still not well-understood. This study uses continuous ambient noise data recorded by 34 OBSs deployed by Academia Sinica at various periods from 2010 to 2018. Cross-correlations on vertical seismic components and pressure gauges are computed to construct Rayleigh/Scholte waves to study the shear wave velocity structure in the southwestern Okinawa Trough. Phase velocities are measured from the Rayleigh/Scholte waves. Shear velocities are inverted from the phase velocities. Results show the velocity in the south of the back-arc rifting axis near the axis is slower than the velocity in the north of the rifting axis, suggesting the velocity structure in the southwestern Okinawa Trough is asymmetric along the rifting axis. Previous studies have shown high heat flows (about 110mW/m 2 on average) in the south of the rifting axis. The low velocity in the south could be caused by the high heat flow that may be related to asymmetric back-arc extension and/or rifting. This study presents the shear wave velocity structure in the southwest Okinawa Trough is asymmetric along the rifting axis, which implies the back-arc extending/rifting is asymmetric in the study region. This study also suggests effective techniques for OBS noise corrections and unwrapping the cycle skipping of phase velocity measurements.</p> <p>In summary, this thesis represents three projects focusing on seismic velocities in two subduction zones using ambient noise data collected by OBSs. The first and second projects study the temporal velocity variations and the relation to SSEs. Both studies observe velocity decreases during the SSEs and increases after the SSEs, supporting two hypotheses of fluid migration and/or stain changes through the SSE cycle. The third project finds the shear velocity structure in the southwestern Okinawa Trough is asymmetric along the rifting center, which may imply the back-arc extension is asymmetric.</p>


2022 ◽  
Vol 9 (1) ◽  
Author(s):  
Shindy Rosalia ◽  
Sri Widiyantoro ◽  
Phil R. Cummins ◽  
Tedi Yudistira ◽  
Andri Dian Nugraha ◽  
...  

AbstractThis paper presents the depth inversion of Rayleigh wave group velocity to obtain an S-wave velocity model from seismic ambient noise cross-correlation in western Java, Indonesia. This study utilizes the vertical component data of a temporary seismograph network deployed in 2016, which was used in a previous study to estimate fundamental mode Rayleigh wave group velocity maps. In this study, the Neighborhood Algorithm was applied to invert the Rayleigh wave group velocities into 1D shear-wave velocity (Vs) profiles, which were then interpolated to produce a high-resolution, pseudo-3D Vs model. These tomographic images of Vs extend to ~ 20 km depth and show a pronounced NE-SW contrast of low and high Vs in the depth range 1–5 km that correlates well with the Bouguer anomaly map. We interpret the low Vs in the northeastern part of the study area as associated with alluvial and volcanic products from the Sunda Shelf and modern volcanic arc, whereas the high Vs in the southwestern part is associated with volcanic arc products from earlier episodes of subduction. We also obtained the depth of the northern Java Basin, which is in the range of 5–6 km, and the Garut Basin, which extends to 5 km depth. For greater depths, Vs gradually increases throughout western Java, which reflects the crystalline basement. This study provides estimates of the shallow crustal Vs structure underneath West Java with higher resolution than previous tomographic studies, which could be useful for supporting future earthquake studies in the region.


2022 ◽  
Vol 12 (1) ◽  
Author(s):  
Mita Uthaman ◽  
Chandrani Singh ◽  
Arun Singh ◽  
Niptika Jana ◽  
Arun Kumar Dubey ◽  
...  

AbstractAmbient noise characteristics are perused to assess the station performance of 27 newly constructed broadband seismic stations across Sikkim Himalaya and adjoining Himalayan foreland basin, installed to study the seismogenesis and subsurface structure of the region. Power spectral densities obtained at each station, compared against the global noise limits, reveal that observed vertical component noise levels are within the defined global limits. However, the horizontal components marginally overshoot the limits due to the tilt effect. Ambient noise conditions significantly vary with different installation techniques, analysis revealing that seismic sensors buried directly in the ground have reduced long-period noise in comparison to pier installations. Tectonic settings and anthropogenic activities are also noted to cause a significant rise across short-period and microseism noise spectrum, varying spatially and temporally across the region. Day-time records higher cultural noise than night-time, while the microseism noise dominates during the monsoonal season. An assessment of the effect of the nationwide lockdown imposed due to COVID-19 pandemic revealed a significant decrease in the short-period noise levels at stations installed across the foreland basin marked with higher anthropogenic activity. Our study summarizes the overall ambient noise patterns, validating the stability and performance of the seismic stations across the Sikkim Himalayas.


2022 ◽  
Vol 71 (2) ◽  
pp. 024301-024301
Author(s):  
Ren Chao ◽  
◽  
Huang Yi-Wang ◽  
Xia Zhi ◽  
◽  
...  

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