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Article ; Online: Evaluation of passive acoustic methods for ambient noise baseline and gas flow rate quantification at a proposed nearshore carbon capture and storage site in Australia

Haris, K. / Shajahan, Najeem / Bergès, Benoît / Kloser, Rudy J.

International Journal of Greenhouse Gas Control

2023 Volume 129

Abstract: Measurement, monitoring, and verification (MMV) is an integral component of carbon capture and storage (CCS) projects, providing valuable feedback for management practices and assuring integrity. Within an operational MMV equipment, hydrophone-based ... ...

Abstract	Measurement, monitoring, and verification (MMV) is an integral component of carbon capture and storage (CCS) projects, providing valuable feedback for management practices and assuring integrity. Within an operational MMV equipment, hydrophone-based passive acoustic techniques are used to establish ambient noise baseline and flow rate quantification at short range, specifically to facilitate ‘detect-attribute-quantify’ sequence of an MMV program. But nearshore environments are acoustically complex with overlapping components of biophony, geophony, anthropophony, and deployment noise resulting from multiple instruments used for MMV. These soundscape components can disproportionately dominate ambient noise levels, potentially masking acoustic signatures of bubbles used to quantify seabed gas seeps. Therefore, a robust baseline describing ambient noise variability across the range of frequencies associated with acoustic emissions of gas seeps is required, from which changes can be detected and monitored. In this context, multi-year hydrophone measurements (20 Hz to 24 kHz) from a proposed nearshore CCS site in Australia are analysed to establish a temporally resolved baseline, identifying key drivers causing overall ambient noise variability. These results are compared with acoustic bubble spectrum features and flow rate estimates from a controlled in situ gas release experiment. The experiment was performed using a custom-made bubble generator at 1, 10, and 25 m range from the hydrophone to understand the likelihood of detecting bubbles and quantifying flow rate at the proposed CCS site. Despite the complexities of nearshore environment, the evaluation highlights that low-cost hydrophone-based passive acoustic methods can provide a practical solution to complement quantification component of operational MMV programs.
Keywords	Life Science
Subject code	551
Language	English
Publishing country	nl
Document type	Article ; Online
ZDB-ID	2322650-X
ISSN	1878-0148 ; 1750-5836
ISSN (online)	1878-0148
ISSN	1750-5836
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Sounding out life in the deep using acoustic data from ships of opportunity.

Haris, K / Kloser, Rudy J / Ryan, Tim E / Downie, Ryan A / Keith, Gordon / Nau, Amy W

Scientific data

2021 Volume 8, Issue 1, Page(s) 23

Abstract: Shedding light on the distribution and ecosystem function of mesopelagic communities in the twilight zone (~200-1000 m depth) of global oceans can bridge the gap in estimates of species biomass, trophic linkages, and carbon sequestration role. Ocean ... ...

Abstract	Shedding light on the distribution and ecosystem function of mesopelagic communities in the twilight zone (~200-1000 m depth) of global oceans can bridge the gap in estimates of species biomass, trophic linkages, and carbon sequestration role. Ocean basin-scale bioacoustic data from ships of opportunity programs are increasingly improving this situation by providing spatio-temporal calibrated acoustic snapshots of mesopelagic communities that can mutually complement established global ecosystem, carbon, and biogeochemical models. This data descriptor provides an overview of such bioacoustic data from Australia's Integrated Marine Observing System (IMOS) Ships of Opportunity (SOOP) Bioacoustics sub-Facility. Until 30 September 2020, more than 600,000 km of data from 22 platforms were processed and made available to a publicly accessible Australian Ocean Data Network (AODN) Portal. Approximately 67% of total data holdings were collected by 13 commercial fishing vessels, fostering collaborations between researchers and ocean industry. IMOS Bioacoustics sub-Facility offers the prospect of acquiring new data, improved insights, and delving into new research challenges for investigating status and trend of mesopelagic ecosystems.
Language	English
Publishing date	2021-01-20
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2775191-0
ISSN	2052-4463 ; 2052-4463
ISSN (online)	2052-4463
ISSN	2052-4463
DOI	10.1038/s41597-020-00785-8
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Article ; Online: Simulator-generated training datasets as an alternative to using patient data for machine learning: An example in myocardial segmentation with MRI.

Xanthis, Christos G / Filos, Dimitrios / Haris, Kostas / Aletras, Anthony H

Computer methods and programs in biomedicine

2020 Volume 198, Page(s) 105817

Abstract: Background and objective: Supervised Machine Learning techniques have shown significant potential in medical image analysis. However, the training data that need to be collected for these techniques in the field of MRI 1) may not be available, 2) may be ...

Abstract	Background and objective: Supervised Machine Learning techniques have shown significant potential in medical image analysis. However, the training data that need to be collected for these techniques in the field of MRI 1) may not be available, 2) may be available but the size is small, 3) may be available but not representative and 4) may be available but with weak labels. The aim of this study was to overcome these limitations through advanced MR simulations on a realistic computer model of human anatomy without using a real MRI scanner, without scanning patients and without having personnel and the associated expenses. Methods: The 4D-XCAT model was used with the coreMRI simulation platform for generating artificial short-axis MR-images for training a neural-network to automatic delineate the LV endocardium and epicardium. Its performance was assessed on real MR-images acquired from eight healthy volunteers. The neural-network was also trained on real MR-images from a publicly available dataset and its performance was assessed on the same volunteers' data. Results: The proposed solution demonstrated a performance of 94% (endocardium) and 90% DICE (epicardium) in real mid-ventricular slices, whereas a 10% addition of real MR-images in the artificial training dataset increased the performance to 97% DICE. The use of artificial MR-images that cover the entire LV yielded 85% (endocardium) and 88% DICE (epicardium) when combined with real MR data with an 80%-20% mix respectively. Conclusions: This study suggests a low-cost solution for constructing artificial training datasets for supervised learning techniques in the field of MR by using advanced MR simulations without the use of a real MRI scanner, without scanning patients and without having to use specialized personnel, such as technologists and radiologists.
MeSH term(s)	Heart Ventricles ; Humans ; Image Processing, Computer-Assisted ; Machine Learning ; Magnetic Resonance Imaging ; Myocardium ; Neural Networks, Computer
Language	English
Publishing date	2020-10-27
Publishing country	Ireland
Document type	Journal Article
ZDB-ID	632564-6
ISSN	1872-7565 ; 0169-2607
ISSN (online)	1872-7565
ISSN	0169-2607
DOI	10.1016/j.cmpb.2020.105817
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Article: A prospective randomized study of arthroscopic ACL reconstruction with adjustable- versus fixed-loop device for femoral side fixation.

Asif, Naiyer / Khan, Mohammad Jesan / Haris, K P / Waliullah, Shah / Sharma, Anubhav / Firoz, Danish

Knee surgery & related research

2021 Volume 33, Issue 1, Page(s) 42

Abstract: Purpose: Suspensory devices are extensively used in the management of anterior cruciate ligament (ACL) tear. They include fixed- and adjustable-loop devices. There are only a few studies comparing the efficacy of these two devices in the available ... ...

Abstract	Purpose: Suspensory devices are extensively used in the management of anterior cruciate ligament (ACL) tear. They include fixed- and adjustable-loop devices. There are only a few studies comparing the efficacy of these two devices in the available literature. Therefore, the aim of this study is to compare clinical outcomes between the adjustable-loop device (group I) and fixed-loop device (group II). Materials and methods: This was a prospective randomized study. Both groups were equivalent in demographic, preoperative, and intraoperative variables. Twenty-three patients underwent femoral side graft fixation with adjustable-loop and 20 with fixed-loop devices. Four patients were lost to follow-up. Assessment of clinical outcome was done with International Knee Documentation Committee (IKDC) score, Lysholm score, and knee stability tests (Lachman test and pivot shift test). Patient evaluation was performed preoperatively and finally postoperatively 2 years after surgery. Results: Postoperative IKDC scores of group I and II were 91.9 ± 3.6 and 91.5 ± 3.6, respectively, and Lysholm scores were 91.0 ± 3.6 and 91.4 ± 3.5, respectively, after 2 years; however, the difference in the outcomes was statistically insignificant (p > 0.05). Twenty patients (87%) in group I and 17 patients (85%) in group II had a negative Lachman test (p = 0.8). Twenty-two patients (95.7%) in group I and 19 patients (95%) in group II had a negative pivot shift test (p = 0.9). Conclusion: ACL reconstruction with fixed- and adjustable-loop suspensory devices for graft fixation gives equivalent and satisfactory clinical results. Level of evidence: 1.
Language	English
Publishing date	2021-12-04
Publishing country	England
Document type	Journal Article
ZDB-ID	2673841-7
ISSN	2234-2451 ; 2234-0726
ISSN (online)	2234-2451
ISSN	2234-0726
DOI	10.1186/s43019-021-00124-0
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Article ; Online: Identification and analysis of stable breathing periods in electrical impedance tomography recordings.

Haris, K / Vogt, B / Strodthoff, C / Pessoa, D / Cheimariotis, G-A / Rocha, B / Petmezas, G / Weiler, N / Paiva, R P / de Carvalho, P / Maglaveras, N / Frerichs, I

Physiological measurement

2021 Volume 42, Issue 6

Abstract: ... ...

Abstract	Objective
MeSH term(s)	Electric Impedance ; Humans ; Respiration ; Tidal Volume ; Tomography ; Tomography, X-Ray Computed
Language	English
Publishing date	2021-06-29
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1149545-5
ISSN	1361-6579 ; 0967-3334
ISSN (online)	1361-6579
ISSN	0967-3334
DOI	10.1088/1361-6579/ac08e5
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Article ; Online: Fetal iGRASP cine CMR assisting in prenatal diagnosis of complicated cardiac malformation with impact on delivery planning.

Bhat, Misha / Haris, Kostas / Bidhult, Sebastian / Liuba, Petru / Aletras, Anthony H / Hedström, Erik

Clinical physiology and functional imaging

2019 Volume 39, Issue 4, Page(s) 231–235

Abstract: Limited visualization of the fetal heart and vessels by fetal ultrasound due to suboptimal fetal position, patient habitus and skeletal calcification may lead to missed diagnosis, overdiagnosis and parental uncertainty. Counselling and delivery planning ... ...

Abstract	Limited visualization of the fetal heart and vessels by fetal ultrasound due to suboptimal fetal position, patient habitus and skeletal calcification may lead to missed diagnosis, overdiagnosis and parental uncertainty. Counselling and delivery planning may in those cases also be tentative. The recent fetal cardiac magnetic resonance (CMR) reconstruction method utilizing tiny golden-angle iGRASP (iterative Golden-angle RAdial Sparse Parallel MRI) allows for cine imaging of the fetal heart for use in clinical practice. This case describes an unbalanced common atrioventricular canal where limited ultrasound image quality and visibility of the aortic arch precluded confirming or ruling out presence of a ventricular septal defect. Need of prostaglandins or neonatal intervention was thus uncertain. Cardiovascular magnetic resonance imaging confirmed ultrasound findings and added value by ruling out a significant ventricular septal defect and diagnosing arch hypoplasia. This confirmed the need of patient relocation for delivery at a paediatric cardiothoracic surgery centre and prostaglandins could be initiated before the standard postnatal ultrasound. The applied CMR method can thus improve diagnosis of complicated fetal cardiac malformation and has direct clinical impact.
MeSH term(s)	Clinical Decision-Making ; Female ; Fetal Heart/abnormalities ; Fetal Heart/diagnostic imaging ; Fetal Heart/physiopathology ; Heart Defects, Congenital/diagnostic imaging ; Heart Defects, Congenital/physiopathology ; Heart Defects, Congenital/therapy ; Humans ; Labor, Obstetric ; Magnetic Resonance Imaging, Cine ; Predictive Value of Tests ; Pregnancy ; Prenatal Diagnosis/methods ; Reproducibility of Results ; Ultrasonography, Prenatal
Language	English
Publishing date	2019-03-08
Publishing country	England
Document type	Case Reports ; Video-Audio Media
ZDB-ID	2071203-0
ISSN	1475-097X ; 1475-0961
ISSN (online)	1475-097X
ISSN	1475-0961
DOI	10.1111/cpf.12566
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Article ; Online: Validation and quantification of left ventricular function during exercise and free breathing from real-time cardiac magnetic resonance images.

Edlund, Jonathan / Haris, Kostas / Ostenfeld, Ellen / Carlsson, Marcus / Heiberg, Einar / Johansson, Sebastian / Östenson, Björn / Jin, Ning / Aletras, Anthony H / Steding-Ehrenborg, Katarina

Scientific reports

2022 Volume 12, Issue 1, Page(s) 5611

Abstract: Exercise cardiovascular magnetic resonance (CMR) can unmask cardiac pathology not evident at rest. Real-time CMR in free breathing can be used, but respiratory motion may compromise quantification of left ventricular (LV) function. We aimed to develop ... ...

Abstract	Exercise cardiovascular magnetic resonance (CMR) can unmask cardiac pathology not evident at rest. Real-time CMR in free breathing can be used, but respiratory motion may compromise quantification of left ventricular (LV) function. We aimed to develop and validate a post-processing algorithm that semi-automatically sorts real-time CMR images according to breathing to facilitate quantification of LV function in free breathing exercise. A semi-automatic algorithm utilizing manifold learning (Laplacian Eigenmaps) was developed for respiratory sorting. Feasibility was tested in eight healthy volunteers and eight patients who underwent ECG-gated and real-time CMR at rest. Additionally, volunteers performed exercise CMR at 60% of maximum heart rate. The algorithm was validated for exercise by comparing LV mass during exercise to rest. Respiratory sorting to end expiration and end inspiration (processing time 20 to 40 min) succeeded in all research participants. Bias ± SD for LV mass was 0 ± 5 g when comparing real-time CMR at rest, and 0 ± 7 g when comparing real-time CMR during exercise to ECG-gated at rest. This study presents a semi-automatic algorithm to retrospectively perform respiratory sorting in free breathing real-time CMR. This can facilitate implementation of exercise CMR with non-ECG-gated free breathing real-time imaging, without any additional physiological input.
MeSH term(s)	Exercise/physiology ; Heart/physiology ; Humans ; Magnetic Resonance Imaging/methods ; Retrospective Studies ; Ventricular Function, Left/physiology
Language	English
Publishing date	2022-04-04
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2615211-3
ISSN	2045-2322 ; 2045-2322
ISSN (online)	2045-2322
ISSN	2045-2322
DOI	10.1038/s41598-022-09366-8
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Article ; Online: Multifractal detrended fluctuation analysis to characterize phase couplings in seahorse (Hippocampus kuda) feeding clicks.

Haris, K / Chakraborty, Bishwajit / Menezes, A / Sreepada, R A / Fernandes, W A

The Journal of the Acoustical Society of America

2014 Volume 136, Issue 4, Page(s) 1972–1981

Abstract: Nonlinear phenomena in animal vocalizations fundamentally includes known features, namely, frequency jump, subharmonics, biphonation, and deterministic chaos. In the present study, the multifractal detrended fluctuation analysis (MFDFA) has been employed ...

Abstract	Nonlinear phenomena in animal vocalizations fundamentally includes known features, namely, frequency jump, subharmonics, biphonation, and deterministic chaos. In the present study, the multifractal detrended fluctuation analysis (MFDFA) has been employed to characterize the phase couplings revealed in the feeding clicks of Hippocampus kuda yellow seahorse. The fluctuation function Fq(s), generalized Hurst exponent h(q), multifractal scaling exponent τ(q), and the multifractal spectrum f(α) calculated in the procedure followed were analyzed to comprehend the underlying nonlinearities in the seahorse clicks. The analyses carried out reveal long-range power-law correlation properties in the data, substantiating the multifractal behavior. The resulting h(q) spectrum exhibits a distinct characteristic pattern in relation to the seahorse sex and size, and reveals a spectral blind spot in the data that was not possible to detect by conventional spectral analyses. The corresponding multifractal spectrum related width parameter Δh(q) is well clustered, defining the individual seahorse clicks. The highest degree of multifractality is evident in the 18 cm male seahorse, signifying greater heterogeneity. A further comparison between the seahorse body size and weight (wet) with respect to the width parameter Δh(q) and the second-order Hurst exponent h(q=2) underscores the versatility of MFDFA as a robust statistical tool to analyze bioacoustic observations.
MeSH term(s)	Acoustics ; Animals ; Body Size ; Feeding Behavior ; Female ; Fractals ; Male ; Models, Theoretical ; Sex Factors ; Signal Processing, Computer-Assisted ; Smegmamorpha/physiology ; Sound Spectrography ; Time Factors ; Vocalization, Animal
Language	English
Publishing date	2014-10
Publishing country	United States
Document type	Comparative Study ; Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	219231-7
ISSN	1520-8524 ; 0001-4966
ISSN (online)	1520-8524
ISSN	0001-4966
DOI	10.1121/1.4895713
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Article: Increased Nociceptive Responses in Streptozotocin-Induced Diabetic Rats and the Related Expression of Spinal NR2B Subunit of

Ismail, Che Aishah Nazariah / Suppian, Rapeah / Abd Aziz, Che Badariah / Haris, Khalilah / Long, Idris

Diabetes & metabolism journal

2018 Volume 43, Issue 2, Page(s) 222–235

Abstract: Background: This study investigated the role of NR2B in a modulated pain process in the painful diabetic neuropathy (PDN) rat using various pain stimuli.: Methods: Thirty-two Sprague-Dawley male rats were randomly allocated into four groups (: ... ...

Abstract	Background: This study investigated the role of NR2B in a modulated pain process in the painful diabetic neuropathy (PDN) rat using various pain stimuli. Methods: Thirty-two Sprague-Dawley male rats were randomly allocated into four groups ( Results: DM rats showed a significant reduction in pain threshold in response to the tactile and thermal stimuli and higher nociceptive response during the formalin test accompanied by the higher expression of phosphorylated spinal NR2B in both sides of the spinal cord. Ifenprodil treatment for both doses showed anti-allodynic and anti-nociceptive effects with lower expression of phosphorylated and total spinal NR2B. Conclusion: We suggest that the pain process in the streptozotocin-induced diabetic rat that has been modulated is associated with the higher phosphorylation of the spinal NR2B expression in the development of PDN, which is similar to other models of neuropathic rats.
MeSH term(s)	Analgesics/pharmacology ; Animals ; Behavior, Animal/drug effects ; Diabetes Mellitus, Experimental/chemically induced ; Diabetic Neuropathies/drug therapy ; Diabetic Neuropathies/metabolism ; Disease Models, Animal ; Hyperalgesia/drug therapy ; Male ; Nociceptive Pain/drug therapy ; Nociceptive Pain/metabolism ; Nociceptors/metabolism ; Pain Measurement ; Phosphorylation/drug effects ; Piperidines/pharmacology ; Rats ; Rats, Sprague-Dawley ; Receptors, N-Methyl-D-Aspartate/metabolism ; Spinal Cord/drug effects ; Spinal Cord/metabolism ; Streptozocin/pharmacology
Chemical Substances	Analgesics ; NR2B NMDA receptor ; Piperidines ; Receptors, N-Methyl-D-Aspartate ; Streptozocin (5W494URQ81) ; ifenprodil (R8OE3P6O5S)
Language	English
Publishing date	2018-11-19
Publishing country	Korea (South)
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2602402-0
ISSN	2233-6087 ; 2233-6079
ISSN (online)	2233-6087
ISSN	2233-6079
DOI	10.4093/dmj.2018.0020
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Article: Seabed habitat mapping employing single and multi-beam backscatter data: A case study from the western continental shelf of India

Haris, K / Chakraborty, Bishwajit / Ingole, Baban / Menezes, Andrew / Srivastava, Ratan

Continental shelf research. 2012 Oct. 1, v. 48

2012

Abstract: Acoustic backscatter from multi-beam echo-sounder (MBES) and dual-frequency single-beam echo-sounding systems (SBES) operable at 95kHz and 33/210kHz, respectively, were used to study the distribution of sediment texture and benthic macro-fauna along the ... ...

Abstract	Acoustic backscatter from multi-beam echo-sounder (MBES) and dual-frequency single-beam echo-sounding systems (SBES) operable at 95kHz and 33/210kHz, respectively, were used to study the distribution of sediment texture and benthic macro-fauna along the central part of the western continental shelf of India (off Goa). To characterize the continental shelf seafloor, single-beam and multi-beam backscatter signals were acquired along with grab sediment samples. The relationships between processed acoustic backscatter strength, grain size, and benthic macro-fauna abundance were demonstrated employing clustering technique (PCA) and Geographic Information System (GIS) based mapping. The clustering analysis delineated that the backscatter values at three frequencies are strongly correlated with both substrate type and faunal functional groups. The preferences of deposit feeders (soft body benthic macro-fauna) for the fine-sediment regions and filter feeders (hard body benthic macro-fauna) for coarse sediment regions were linked to the variations in sediment granulometry as well as backscatter strengths in the study area. This study further demonstrates the utility of high frequency backscatter data employing echo-sounding systems towards the interpretation of seafloor sediments and benthic habitat characteristics across large areas of seafloor.
Keywords	acoustics ; case studies ; cluster analysis ; continental shelf ; geographic information systems ; habitats ; sediments ; texture ; India
Language	English
Dates of publication	2012-1001
Size	p. 40-49.
Publishing place	Elsevier Ltd
Document type	Article
ISSN	0278-4343
DOI	10.1016/j.csr.2012.08.010
Database	NAL-Catalogue (AGRICOLA)

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