MethodsX
○ Elsevier BV
Preprints posted in the last 90 days, ranked by how well they match MethodsX's content profile, based on 16 papers previously published here. The average preprint has a 0.01% match score for this journal, so anything above that is already an above-average fit.
Engman, V.; Lamon, S.; Mason, S.
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1Sex steroid hormones are not exclusively localised in the circulation and can be found in numerous extragonadal tissues, in concentrations unrelated to the circulating fraction. Existing methodology to measure intramuscular steroid hormone concentrations includes both immune-based assays and liquid chromatography-mass spectrometry (LC-MS), the gold standard for hormone measurements. To date, no LC-MS based methods validation has been published on the measurement of intramuscular sex steroid hormones, despite clear biological relevance. Here, we describe the development and validation of a simple, high-throughput LC-MS Orbitrap method for the measurement of 10 intramuscular sex steroid hormones, including pregnenolone, progesterone, dehydroepiandrosterone, androstenedione, testosterone, epitestosterone, dihydrotestosterone, oestrone, oestradiol, and oestriol. In brief, isotope labelled standards were added to 5-6 milligrams of lyophilised muscle tissue, homogenised and extracted with ethyl acetate. The extracts were dried down and sequentially derivatised with 1-methylimidazole-2-sulfonyl chloride and hydroxylamine hydrochloride to target both the phenolic hydroxyl groups and ketone groups. The limit of detection was 1.0 {+/-} 1.0 pg/mg (range 0.36 - 3.26 pg/mg), with a R2 > 0.99 for all analytes. Matrix effects were 90-110% for all analytes except for dihydrotestosterone (143.6%), and precision was <10 CV% for all analytes in the presence of a muscle matrix. Our method allows for 20-40 samples to be prepared in [~]4 h, with a sample data acquisition time of 13 minutes. Moreover, our method provides the opportunity for specific analysis of steroid hormone concentrations in skeletal muscle, allowing target tissue specificity instead of relying on proxy measures from the circulation.
Nishizawa, C.; Seki, S.; Isomura, E. T.; Namikawa, M.; Harada, K.; Yokota, Y.; Aikawa, T.; Michigami, T.; Miyagawa, K.
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Osteocytes play a central role in bone remodeling, mineral metabolism, and skeletal homeostasis, but direct molecular analysis of human osteocytes remains technically challenging because they are embedded within the mineralized bone matrix. Surgically obtained human bone specimens provide valuable material for studying human bone biology; however, surface-associated cells, marrow-derived cells, and adherent soft tissues can confound downstream transcript analysis. Here, we describe a bone fragment-based protocol for preparing surgically obtained human bone specimens for molecular analysis of osteocyte-associated transcripts. The protocol consists of mechanical trimming, mincing into small bone fragments, repeated washing, and five sequential rounds of collagenase digestion to reduce non-osteocytic cellular components associated with the bone surface and marrow spaces. The remaining mineralized bone fragments are then frozen in liquid nitrogen, cryogenically pulverized, and lysed in TRIzol reagent for total RNA extraction. Histological validation using residual maxillary bone specimens showed that sequential collagenase digestion markedly reduced adherent soft tissue and extra-matrix nuclei while preserving osteocyte lacunar occupancy. This protocol provides a practical workflow for bone fragment-based RNA analysis focused on osteocyte-associated transcripts in human bone specimens. Specifications table O_TBL View this table: org.highwire.dtl.DTLVardef@1cec618org.highwire.dtl.DTLVardef@2f746forg.highwire.dtl.DTLVardef@1854247org.highwire.dtl.DTLVardef@1c26c1aorg.highwire.dtl.DTLVardef@1473a88_HPS_FORMAT_FIGEXP M_TBL C_TBL
Yasar, P.; Day, C. R.; Rodriguez, J.
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Transcriptional bursts regulate gene expression by altering burst size or burst frequency. Here, we present a protocol that integrates fixed-cell smFISH and live-cell single-molecule imaging to analyze estrogen-responsive transcriptional bursting of the TFF1 gene in human breast cancer cell lines. This workflow enables measurement of burst size, burst initiation, and active allele frequency to determine how endocrine disruptor chemicals modulate transcriptional bursting dynamics. For complete details on the use and execution of this protocol, please refer to Day, Yasar et al.1
Meslier, Q. A.; Migotsky, N.; Lamia, S. N.; Scheller, E. L.; Silva, M. J.
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Serial in vivo microCT enables quantification of dynamic bone remodeling by capturing formation and resorption over time. This protocol uses Dragonfly to register pre- and post-intervention scans of rodent long bones through an intuitive drag-and-click workflow that requires no coding expertise. Rigid registration enables spatial mapping and quantification of formed, resorbed, and quiescent cortical and trabecular bone at periosteal and endosteal surfaces across multiple tibial regions, providing a non-destructive and complementary alternative to classic, fluorochrome-based dynamic histomorphometry. Graphical abstract O_FIG O_LINKSMALLFIG WIDTH=160 HEIGHT=200 SRC="FIGDIR/small/728585v1_ufig1.gif" ALT="Figure 1"> View larger version (35K): org.highwire.dtl.DTLVardef@e20e89org.highwire.dtl.DTLVardef@12872fcorg.highwire.dtl.DTLVardef@951694org.highwire.dtl.DTLVardef@1fd52f2_HPS_FORMAT_FIGEXP M_FIG C_FIG
Chuo, Y.; Li, J.; Duan, Y.; Wang, T.
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Shoulder impingement syndrome (SIS), including subacromial impingement and rotator cuff tendinitis, is commonly caused by repetitive swimming movements and associated shoulder joint dysfunction. Despite numerous available treatment options, no consensus exists on the most effective treatment option. Therefore, this systematic review and network meta-analysis aimed to investigate treatment methods for SIS in swimmers. Using a frequentist framework and Cochrane PICOS principles, we compared SIS treatments, constructed network evidence diagrams, and assessed heterogeneity. A total of 45 studies were included in the qualitative synthesis, and 42 contributed to the network meta-analysis, comprising 1752 participants, 9 treatment categories, and outcome measures. For pain outcomes, some adjunctive interventions combined with exercise showed favorable ranking probabilities, although several estimates were accompanied by wide confidence intervals. For shoulder range-of-motion outcomes, taping, acupuncture, manual therapy, and sport-specific training showed favorable effects in selected comparisons, particularly for external and internal rotation. According to surface under the cumulative ranking curve (SUCRA) rankings, exercise combined with medium-frequency therapy ranked highly for pain reduction, whereas exercise combined with acupuncture or extracorporeal shock wave therapy ranked highly for shoulder flexion. Exercise combined with taping ranked highly for external rotation, and exercise combined with manual therapy ranked highly for internal rotation. However, the interpretation of ranking results should remain cautious because uncertainty and inconsistency were present in some comparisons. Exercise-based rehabilitation appears to remain central to the management of SIS in swimmers. Several adjunctive interventions showed favorable findings for selected outcomes, especially pain relief and shoulder rotational function. However, the available evidence was affected by heterogeneity, inconsistency, and imprecision across some treatment comparisons. More rigorously designed swimmer-specific randomized controlled trials are needed before firm treatment hierarchies can be established. Trial registration: The protocol for this systematic review is registered with PROSPERO (www.crd.york.ac.uk/PROSPERO; registration number: CRD42024498851). The first submission of PROSPERO was on January 15, 2024, and it was revised and updated on March 25, 2026.
Monks, C. R.; Fester, S. A.; Nicks, C. J.; Coger, K.; Monks, J.
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Recent advances in tissue clearing protocols such as DISCO, CUBIC, Clarity, FUnGI, and PEGASOS have revolutionized our ability to label and image intact 3-dimensional (3D) biological structures using fluorescence microscopy. The lactating mammary gland particularly benefits from clearing due to its high degree of tissue opacity. Cleared mammary gland images are strikingly beautiful and complicated but are difficult to fully interpret without developing a series of quantitative techniques and assays to analyze and compare them. These approaches will ultimately be as varied as the biology each scientist wishes to study. Here, we present one strategy based on a modular, hybrid, deep-learning approach and classical image processing that can segment and measure alveoli, cell nuclei and myoepithelial cells in intact mammary tissue. We have developed two original, three-dimensional (3D) U-shaped encoder-decoder networks (U-Nets), AlveoliNet and MyoNet, and combined these with CellPose3 nuclear instance segmentation and SlideBook/SlideBook Synergy binary mask operations. This approach can be used to easily score 100,000s of cells in intact tissue and differentiated glands at different developmental stages, genetic backgrounds, or treatments. We demonstrate the utility of this approach for quantifying the change in proportion of myoepithelial cells over the pregnancy-lactation transition, driven by endoreplication in the gland postpartum. We present a complete methods pipeline for other laboratories to utilize our approach in their own studies using standard desktop computers. Competing InterestsColin Monks is co-founder and co-President of Intelligent Imaging Innovations, Inc. (3i) and receives a salary from it.
Kano, A.; Akiyama, Y.; Kamijo, Y.-I.; Hamaguchi, T.
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Distal radius fractures (DRFs) can delay return to activities of daily living and social participation because of postoperative pain, temporary joint immobilization, and limited wrist and forearm range of motion. The Ghost System developed at Saitama Prefectural University, Japan, combines visual action observation with tendon vibration stimulation and has shown potential as an adjunct to conventional rehabilitation. This Study Protocol describes a modified Ghost system intended to improve clinical implementation by replacing the head-mounted virtual reality display with iPad-based action observation and by using a wristband-type vibrator. This single-center, single-arm, open-label feasibility trial will enroll 10 adults after palmar locking plate fixation for DRF. The intervention will be delivered twice weekly during outpatient rehabilitation follow-up sessions from the early postoperative period (postoperative days 2-10 after enrollment) through the approved early postoperative rehabilitation period (generally up to postoperative week 8), in parallel with standard rehabilitation practices. Primary feasibility and preliminary clinical outcomes include device fit and acceptability, pain assessed using a 100-mm Visual Analog Scale, and wrist/forearm range of motion. Secondary implementation and safety outcomes include Disabilities of the Arm, Shoulder and Hand (DASH), Patient-Rated Wrist Evaluation (PRWE), Hand20 Questionnaire (HANDS-20), EuroQol 5 Dimensions 5 Levels (EQ-5D-5L), body ownership and hand-illusion questionnaires, setup time, setup errors, adherence, adverse events, and device incidents. We hypothesize that the modified Ghost system will be feasible and acceptable for early postoperative outpatient rehabilitation and will be delivered without serious device-related adverse events. Clinical outcomes will be summarized descriptively to inform a future controlled study rather than to establish efficacy.
El Bab, M.; Guvenis, A.
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Conflicting evidence on scatter correction (SC) methods plagues quantitative myocardial perfusion SPECT (MPI), hindering standardized clinical protocols. This simulation study, utilizing the SIMIND Monte Carlo program and a highly realistic 4D XCAT phantom, systematically evaluates Dual Energy Window (DEW, with k=0.5) and Triple Energy Window (TEW) SC techniques. We uniquely investigate their performance across various photopeak window widths (2, 4, and 6 keV) and novel overlapped/non-overlapped configurations specifically for Tc 99m MPI - parameters largely unexplored in realistic cardiac models. Images were reconstructed with OSEM under uncorrected (UC), SC, and combined attenuation and scatter corrected (ACSC) conditions. Quantitative analysis focused on signal-to-noise ratio (SNR), contrast-to-noise ratio (CNR), defect contrast, and relative noise to background (RNB). Our findings consistently show ACSCs superior performance in CNR, SNR, and defect contrast, confirming its critical role. Interestingly, SC alone reduced noise but compromised defect contrast relative to UC, highlighting a potential trade-off without attenuation correction. Crucially, this study reveals minimal influence of photopeak window width and overlap configuration on image quality, and no significant difference between DEW and TEW across most metrics. These results provide essential evidence for optimizing quantitative MPI protocols, suggesting that for Tc-99m, the choice between DEW and TEW, and specific window settings, may be less critical than ensuring robust attenuation correction.
Rai, K.; Olaosebikan, I. A.; Norouzi, P.; Pettipas, G.; Dadum, A. G.; Short, M.; Courtney, K. C.; Karatas Bristow, H.
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Transcription factors (TFs) are master regulators of gene expression and control a wide range of cellular functions including embryonic development, signaling pathways, immune response, and differentiation. A tight regulation of gene expression is crucial during all stages of life and changes in the TF function can lead to developmental abnormalities, diseases such as cancer, or resistance to treatment. Therefore, TFs are a promising class of drug targets, and the techniques that would contribute to the development of TF modulators are critical. Electrophoretic Mobility Shift Assay (EMSA) has been a primary tool to verify protein-DNA interactions, where a fluorescent, biotin, or isotope end-labelled DNA probe is used to quantify binding. Such labeling techniques, however, can be costly, time consuming, possess safety hazard risks and require capital equipment for imaging. Here, we optimized a label-free, staining-based EMSA to characterize a potential drug target, homeodomain (HD) TF Pre-B-cell leukemia homeobox-1 (Pbx1) and its binding partner Homeobox A9 (HoxA9). Staining the polyacrylamide EMSA gel with a DNA intercalating green cyanine dye - SYBR safe - allowed the visualization of Pbx1 homeodomain interactions with DNA at nanomolar concentrations and enabled quantitative determination of protein-DNA apparent binding affinity in the sub-micromolar range. Furthermore, a ternary complex of homeodomains of Pbx1 with HoxA9 and the DNA was also visible in the assay. We have shown that the staining-based EMSA can be used to evaluate inhibitors of Pbx1 that block the interaction with DNA. We have further validated the data from our assay with fluorophore labeling-based EMSA. Overall, using HD transcription factors Pbx1 and HoxA9 as a model, we have optimized a reliable and cost-effective staining-based EMSA that enables the high-sensitivity visualization and quantitative evaluation of transcription factor-DNA complexes without the need for end-labeled DNA probes. The streamlined workflow could be readily adapted to other DNA-binding proteins to study their interactions with the DNA, inhibitors, and other proteins.
Zelter, A.; Riffle, M.; Merrihew, G. E.; Mutawe, B.; Shulman, N.; Sanders, J. A.; Noble, W. S.; Johnson Erickson, D. P.; Morimoto, A.; Shaver, B. A.; Steins, T. N.; Cao, N.; Ford, E. C.; Rudnick, P. A.; Chelsky, D.; Wan, K. H.; Inman, J. L.; Chang, H.; Snijders, A. M.; Mao, J.-H.; Celniker, S. E.; De Chant, J.; Obst-Huebl, L.; Nakamura, K.; Wu, C. C.; MacCoss, M. J.
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Ionizing radiation induces molecular responses that may be used to estimate exposure when physical dosimeters are unavailable. Here we present two large-scale proteomics datasets generated from mouse dorsal skin punch samples collected following controlled X-ray exposures spanning multiple doses, dose rates, and post-exposure time points. Experiment 1 comprised 96 samples (including 16 reference samples) collected 6 days after exposure to 0-75 cGy delivered at either 30 or 300 cGy/min. Experiment 2 comprised 936 samples (including 236 reference samples) exposed to 0-100 cGy at either 3 or 28 cGy/min dose rates and harvested between 7 and 150 days post-exposure. All samples were processed using a standardized workflow involving automated bead-based digestion and data-independent acquisition mass spectrometry. The datasets include multiple pooled reference sample types, process controls, and system suitability standards ensuring high quality data. All data presented are available via ProteomeXchange at several levels of processing, from raw files through normalized peptide- and protein-level abundance matrices suitable for biomarker discovery and machine learning applications. This dataset will facilitate generation of new insights into the biological changes and molecular signatures resulting from X-ray exposure in mice and may also help inform future studies in humans.
Dillon, T. M.; Quevedo Moreno, D.; Rutherford, E. K.; Ayers, B.; Salomon, B.; Kubi, B.; Thomas, J.; Roche, E.
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Minimally invasive endovascular procedures offer reduced surgical trauma, shorter recovery times, and improved outcomes, but rely on 2D fluoroscopic X-ray imaging, which provides limited depth perception and exposes patients and clinicians to ionizing radiation. Here we present an augmented reality (AR) system that fuses intravascular ultrasound (IVUS) and electromagnetic (EM) position tracking with preoperative computed tomography (CT) to produce an anatomically accurate, deformation-corrected navigational reference. A robotic device performs ECG-gated pullback of the IVUS probe, capturing 4D aortic motion across the cardiac cycle. We introduce a deep learning architecture for extracting vascular lumen boundaries and side-branch orifices from artifact-prone IVUS streams, and a semantically driven non-rigid CT-IVUS fusion pipeline robust to false positive landmarks. We evaluate the platform with trained surgeons in benchtop phantom studies and in-vivo ovine models, and demonstrate its application to fenestrated endovascular aneurysm repair (FEVAR). Compared to fluoroscopy alone, AR guidance significantly reduces cannulation time, radiation exposure, and cognitive workload, while improving procedural efficiency and safety. Our IVUS-EM and CT aortic datasets are released open source.
Lyng, K. D.; Machado, E. d. M.; Blumenfeld, M. B.; Guruhan, S.; Andreucci, A.; Sorensen, L. B.; Pourbordbari, N.; Vad, C. E.; Straszek, C. L.; Johansen, S. K.; Rathleff, M. S.; Vasconcelos, G. S. d.
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ObjectiveTo investigate the long-term (defined as [≥]12 months) prognosis of knee pain and knee function in adults and adolescents with patellofemoral pain (PFP). DesignSystematic review with meta-analysis and meta-regressions. Data sourcesMEDLINE, OVID, CENTRAL, Web of Science, OpenGrey, and International Patellofemoral Research Retreat abstract books. Eligibility criteria for selecting studiesProspective studies of patients clinically diagnosed with PFP, aged <40 years, with a long-term follow-up (minimum of 12 months). Primary outcomes were self-reported pain intensity (worst, during activity, and usual) and function. Meta-analyses and meta-regressions were performed where appropriate. Narrative synthesis was performed for those not included in the metanalysis. Risk of bias was assessed using the Quality In Prognosis Studies (QUIPS) tool, and certainty of evidence using GRADE. ResultsA total of 42 studies (n = 3,230) were included. At 12 months, meta-analysis indicated reduction in worst pain (SMD 1.36; 95% CI 0.85-1.86), pain during activity (SMD 1.36; 95% CI 0.61-2.11), and resting pain (SMD 0.91; 95% CI: 0.75- 1.08). No significant reduction was found for usual pain. We found improvement in self-reported function (investigated using the Anterior Knee Pain Scale (AKPS) MD 14.60; 95% CI 11.60-17.61), FIQ (MD 3.33; 95% CI: 2.46- 4.20) and the Western Ontario McMaster Universities Osteoarthritis Index (WOMAC) (MD -7.73; 95% CI: -10.36 to - 5.10). Extended follow-up ([≥]60 months) suggested more variable improvements. Meta-regression showed no association between age and 12-month function, while older age was modestly associated with greater improvement in activity-related pain at extended follow-up. Overall, a considerable proportion of participants continued to report persistent symptoms, and heterogeneity across studies was substantial. Certainty of evidence ranged from very low to moderate across outcomes investigated. ConclusionPain and self-reported function generally improve over time, particularly within the first 12 months. However, substantial heterogeneity and persistent symptoms in a considerable proportion of patients at extended follow-up indicate that recovery is not universal and trajectories are highly variable. What is already knownO_LIPatellofemoral Pain (PFP) is a very common condition in both adolescents and adults. C_LIO_LIMultiple treatments modalities exist, including patient education and exercise therapy. C_LIO_LIPeople suffering from PFP request more knowledge on the long-term prognosis. C_LI What are the new findings?O_LIThis systematic review and meta-analysis provide the most comprehensive synthesis to date of long-term outcomes ([≥]12 months) in adolescents and adults with patellofemoral pain. C_LIO_LIPain and self-reported knee function generally improve at the group level over time, particularly within the first 12 months. C_LIO_LIDespite group-level improvement, a substantial proportion of individuals continue to report persistent symptoms, indicating that patellofemoral pain is often not fully self-limiting. C_LIO_LILong-term outcomes are highly heterogeneous, with different pain constructs demonstrating distinct trajectories across follow-up periods. C_LIO_LIMeta-regression identified no consistent prognostic associations, suggesting that current study-level variables explain little of the variability in long-term outcomes. C_LI How might this study affect research, practice or policy?O_LIClinicians should communicate that while improvement is common in patellofemoral pain, persistent symptoms are frequent, highlighting the need for realistic prognostic expectations and long-term management strategies. C_LIO_LIFuture research should prioritise harmonised outcome measures and long-term follow-up to better understand recovery trajectories and identify subgroups at risk of persistent symptoms. C_LI
Evering, M. G.; Schwartz, K. S.; Goebel, C. E.; Stanhewicz, A. E.; Greaney, J. L.
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Background: Despite the common use of local heating and intradermal microdialysis perfusion of acetylcholine (ACh) to probe cutaneous endothelium and nitric oxide (NO)-dependent dilation, sex differences in microvascular responsiveness to these stimuli in healthy young adults remain incompletely understood. Methods: Cutaneous vasodilation was assessed in response to local heating to 39{degrees}C and 42{degrees}C and graded perfusion of ACh (10-10 to 10-1 mol/L) alone or concurrently with 15 mM NG-nitro-L-arginine methyl ester (L-NAME; NO synthase inhibitor) using laser-Doppler flowmetry coupled with intradermal microdialysis in 80 young adults (40 females). Results: Local heating to 42{degrees}C elicited greater endothelium- and NO-dependent dilation than heating to 39{degrees}C in both groups (p<0.001), but no sex differences were observed at either temperature (p=0.65). ACh-induced endothelium-dependent dilation also was not different between sexes (p=0.08), but the NO-dependent component was greater in females than in males (p=0.01). In young females, menstrual cycle day (range: day 2-33) was not associated with endothelium- or NO-dependent dilation in response to any stimulus (all p[≥]0.19), regardless of hormonal contraceptive use. Conclusions: Taken together, these findings suggest that sex differences in microvascular NO bioavailability in healthy young adults depend on the stimulus used to elicit cutaneous vasodilation and, in females, microvascular endothelium- and NO-dependent dilation are not meaningfully influenced by menstrual cycle phase.
Costa, A.; Suits, A.; Miller, J.; Ferencik, M.; German, D. M.; Shalen, E. F.; Choudhary, G.; Szidonya, L.; Nguyen, M.; Mallak, N.; Obrzut, S.; Masri, A.
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Background Bone-avid tracer myocardial scintigraphy for the diagnosis of transthyretin amyloid cardiomyopathy (ATTR-CM) has traditionally employed imaging at one or 3-hour intervals. Technetium-99m hydroxydiphosphonate (99mTc-HDP) has unique characteristics that may enable earlier imaging. We investigated the diagnostic concordance of immediate versus 1-hour acquisitions. Methods Consecutive patients with suspected ATTR-CM underwent planar imaging and SPECT/CT immediately and at 1-hour following the administration of 99mTc-HDP. Perugini grades and heart to contralateral lung (H/CL) ratios were assessed. Target-to-background ratios (TBRs) were calculated on the SPECT/CT acquisitions using the left ventricular (LV) septum and three background regions: aorta, LV blood-pool, and vertebrae. We assessed diagnostic concordance using Cohen's Kappa ({kappa}), temporal stability using paired t-tests, and correlation between timepoints using Pearson's coefficient (r). The 1-hour SPECT/CT interpretation served as the protocol reference standard. Results Forty-eight patients (83% male; median age, 80 [73-85] years) were evaluated. One-hour SPECT/CT identified 19 positive and 29 negative cases. Immediate SPECT/CT demonstrated 100% diagnostic concordance with the 1-hour reference standard ({kappa} = 1.000; 95% CI: 1.00 to 1.00; p < 0.001). The LV septum/LV Blood-Pool TBR showed the highest correlation (r = 0.956; 95% CI: 0.922 to 0.975; p < 0.001). The LV Septum/Aorta TBR demonstrated high correlation (r = 0.918; 95% CI: 0.857 to 0.953; p < 0.001) and remained stable in the ATTR-negative cohort (-0.02; 95% CI: -0.08 to 0.04; p = 0.54). Significant decrease in the LV Septum/Vertebrae TBR in the ATTR-negative (-0.55; 95% CI: -0.64 to -0.47; p < 0.001) and ATTR-positive cohorts (-1.14; 95% CI: -1.39 to -0.89; p < 0.001) was observed. Conclusions Immediate 99mTc-HDP SPECT/CT is diagnostically concordant with standard 1-hour protocols. By leveraging SPECT/CT and the favorable kinetics of 99mTc-HDP, immediate-phase imaging can accurately reproduce 1-hour acquisitions in cases of suspected ATTR-CM. This expedited approach may improve nuclear laboratory throughput and patient satisfaction.
Durrans, J.; Aberdein, N.; Stafford, P.; Ridge, L.; Herigstad, M.
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Microcomputed tomography (micro-CT) is a useful tool that can be utilised for 3D structural characterisation and volumetric quantification of small biological specimens. Its potential application is particularly valuable within the field of cardiac development, where phenotypic profiling at the whole organ, cell, and molecular level is often most informative within the same sample. Consequently, this study sought to develop a multimodal imaging protocol to enable 3D phenotypic characterisation of embryonic avian hearts (iodine-based contrast X-ray imaging) prior to immunohistochemistry-based cell and molecular analysis. Micro-CT parameters were tested to establish an optimal protocol for 3D analysis of embryonic cardiac specimens across multiple developmental timepoints. Optimised parameters provided reliable and reproducible 3D analysis of cardiac macrostructures. Sodium thiosulphate treatment of X-ray imaged hearts effectively reversed the iodine-based contrast stain whilst maintaining antigen availability of nuclear, membranous, and cytoplasmic targets in traditional downstream imaging studies. Together, this study demonstrates a robust and highly efficient multimodal imaging strategy to comprehensively characterise cardiac morphology in avian embryos and may serve as a versatile foundation for a broad range of bioimaging applications within the wider scientific community.
Williams, J.; Gibson, R.; Campsie, P.; Dalby, M. J.; Riddell, J. S.; Purcell, M.; Coupaud, S.; Childs, P. G.; Reid, S.
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Spinal cord injury (SCI) causes rapid and severe bone loss in the paralysed lower limbs, particularly at the distal femur and proximal tibia, where fragility fracture risk is high. In vitro nanoscale vibration at 1 kHz has been shown to promote osteogenic differentiation and inhibit osteoclastogenesis, suggesting potential as a targeted mechanical intervention. This study aimed to develop and evaluate a wearable device for delivering and monitoring localised nanovibration at the distal femur in individuals with SCI. The device delivered continuous sinusoidal nanoscale stimulation at 1 kHz via a bone-conduction transducer, with an opposing accelerometer used to monitor transmitted vibration in real time. Design and target-site selection were refined through two healthy-volunteer investigations comparing the distal femur, proximal tibia, and distal tibia. Bovine femur experiments characterised vibration transmission under controlled benchtop conditions. Preliminary repeated-use feasibility was assessed in one individual with motor-complete SCI. Healthy volunteer testing showed that although the ankle initially produced the highest transmitted amplitudes, these were highly variable, and positioning was inconsistent. Within the knee region, the distal femur provided the most practical and repeatable site for a wearable application. In bovine femur experiments, scanning laser vibrometry demonstrated measurable vibration on the condylar surface opposite the transducer, and depth-resolved measurements confirmed that nanoscale vibration remained detectable within bone. A gel interface layer reduced the transmitted amplitude. In the feasibility evaluation, 61 sessions were completed over 14 weeks, with logged accelerometry confirming repeated nanoscale vibration transmission. These findings establish feasibility and support further device optimisation and translational studies.
Miller, R. J.; Yi, J.; Shanbhag, A.; Patel, K. K.; Ruddy, T. D.; Einstein, A. J.; Feher, A.; Miller, E. J.; Liang, J. X.; Ramirez, G.; Slipczuk, L.; Travin, M. I.; Alexanderson, E.; Carvajal-Juarez, I.; Packard, R. R. S.; Al-Mallah, M.; Acampa, W.; Knight, S.; Le, V. T.; Mason, S.; Wopperer, S.; Chareonthaitawee, P.; Buechel, R. R.; Rosamond, T. L.; Berman, D. S.; Dey, D.; Di Carli, M. F.; Slomka, P.
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AimsExercise capacity is a powerful predictor of cardiovascular risk. In patients unable to exercise, body composition analysis can potentially be used to estimate cardiorespiratory fitness. We developed a body composition "fitness" score, then validated its utility in two external populations. Methods and ResultsWe included patients from four sites undergoing single photon emission computed tomography (SPECT) and twelve sites undergoing positron emission tomography (PET). We quantified body composition using deep learning. We evaluated associations between body composition and good exercise capacity (defined as completing [≥]7 minutes on a Bruce protocol) then developed a body composition "fitness" score. We then assessed the associations of "fitness" score with exercise capacity and all-cause mortality in external populations. In total, 36471 patients were included with median age 67 (interquartile range 58 - 74). Median skeletal muscle density was higher among patients with good exercise capacity. In the external SPECT population, the body composition "fitness" score had higher prediction performance for good exercise capacity (AUC 0.771, 95% CI 0.752 - 0.789) than age (AUC 0.717, p<0.01). In the external PET population, high body composition "fitness" score was associated with lower cardiovascular death (adjusted hazard ratio 0.70, 95% CI 0.62 - 0.79, p<0.001). ConclusionsWe demonstrated that a comprehensive body composition "fitness" score could identify patients with good cardiorespiratory fitness. This approach transforms routinely acquired CT data into a surrogate marker of fitness which can be applied in patients undergoing PET, or other CT imaging, where exercise testing is not performed. Graphical AbstractOverview of study design. The overall population (n=36471) was split as outlined above. Body composition was analyzed from available computed tomography imaging. The distribution of body composition measures were analyzed in the combined single photon emission computed tomography (SPECT) populations. A body composition "fitness" score was derived to predict good exercise capacity in the internal population, with associations assessed in the two external testing populations. O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=110 SRC="FIGDIR/small/26352573v1_ufig1.gif" ALT="Figure 1"> View larger version (50K): org.highwire.dtl.DTLVardef@1b98c3eorg.highwire.dtl.DTLVardef@a64282org.highwire.dtl.DTLVardef@1589559org.highwire.dtl.DTLVardef@b5423f_HPS_FORMAT_FIGEXP M_FIG C_FIG
Gill, J.; Saija, C.; Sagar, V.; Zuberi, Z.; Bajpai, A.; Rhode, K.; Leung, L. W.; Gallagher, M. M.
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Background Pulse-field ablation (PFA) is regarded as a non-thermal ablation modality, but there is an increasing range of complications that could be due to thermal effects. Methods The hydrogel undergoes permanent colour change when a target temperature is reached allowing direct visualisation of the surface thermal footprint and depth. Comparative lesion sets using a variable loop circular catheter (VP), circular over-the-wire catheter (PS) and pentaspline catheter (FP) were performed. Protocols included single and stacked applications with variation of force, irrigation, and voltage. The hydrogel lesions were analysed en-face and by section using digital image analysis. Results All 3 PFA catheters tested had significant thermal footprints. The VP catheter had the largest mean surface footprint (156.1mm2) and thermal depth (1.31mm) compared to the other two catheters (PS 55.4mm2 & 1.1mm, FP 29.8mm2 & 1.05mm, p<0.005). Increasing irrigation showed a trend to reduce thermal footprint but did not achieve statistical significance. Increasing voltage increased thermal footprint, but increasing force had negligible effect. Stacked lesions incrementally increased thermal lesion footprint and depth in all catheters. Thermal depths of up to 2.4mm were observed. Areas of darkening and degradation of the hydrogel were observed with the VP and FP catheters, consisting of up to 47% of lesion area. No darkening was observed with the PS catheter. Conclusions There are significant thermal footprints in all the systems tested. Temperatures exceeding 60oC have been demonstrated, comparable to radiofrequency ablation, and this may explain the mechanism of injury in some reports of collateral damage during PFA.
Maharshi, A.; Ladha, B.; Malani, R.; Palaskar, P.
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Background: Accurate evaluation of fine motor abilities is a key aspect of neurological rehabilitation. However, conventional approaches like goniometry are limited by variations among raters and their difficulty in detecting active movement. On the other hand, computer vision-based software delivers non-invasive and quantitative analysis of hand movements. An innovative computer-vision-based software tool, F.A.I.R. Chance(C), was developed to track and analyze individual finger joint movements on a camera-equipped laptop and give real-time numerical feedback. However, its metrics require validation in a healthy population before the tool can be used for clinical purposes. Objective: To assess the reliability and validity of finger movement assessment by the F.A.I.R. Chance computer vision-based tool in healthy adult participants. Methods: An observational cross-sectional study was done at MGM School of Physiotherapy, comprising 30 healthy participants between 18 and 60 years of age. Finger movements like flexion, extension, abduction, and adduction were measured with a standard handheld goniometer. These same finger movements were then measured with the tool at two time points separated by a 30-minute interval to determine the test-retest reliability. The tool's measurements were compared with the goniometric measurements to determine its concurrent validity. Test retest reliability was checked by the Intra-class Correlation Coefficient ICC (2,1), while concurrent validity was tested through Pearson's correlation coefficients. Results: Metacarpophalangeal and proximal interphalangeal joint motions demonstrated moderate to good test-retest reliability (ICC: 0.716-0.953) for the F.A.I.R. Chance tool. However, distal interphalangeal joint movements had lower consistency. Good reliability (ICC: 0.754-0.908) was seen for movements of abduction and adduction in the fingers. Strong concurrent validity for extension movements of the metacarpophalangeal joints (r=0.760-0.914) and moderate concurrent validity for flexion movements of the metacarpophalangeal joints (r=0.427-0.604) was demonstrated for all fingers for the F.A.I.R. Chance tool. Concurrent validity for adduction and abduction movements demonstrated a low to fair correlation with goniometric measurements (r=0.210-0.440). This is consistent with previous research showing poor agreement between goniometry and adduction-abduction movements of the fingers. Conclusion: The F.A.I.R. Chance tool shows good reliability and acceptable concurrent validity to assess fine motor movements in the healthy adult population. This sets a basis for further clinical study of the tool in the target population with fine motor impairments. Keywords: artificial intelligence; assistive technology; computer vision; fine motor evaluation; hand function;
Choo, T. W. J.; Yap, A. A. M.; Kawaja, A.; Chao, V. T. T.; Ng, C. J.; Olivo, M.; Bi, R.
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Blood pressure (BP) is a vital sign which is measured to diagnose and manage hypertension. However, current methods to measure BP use inflatable cuffs which cause discomfort and limit the frequency at which measurements can be made, or intra-arterial catheters which are invasive and pose infection risks. Here, we propose and evaluate the use of Diffuse Speckle Pulsatile Flowmetry (DSPF) as a cuffless BP measurement method to address these limitations. DSPF is a laser speckle-based technique which simultaneously records blood flow rate and blood volume (i.e. photoplethysmography or PPG) signals from relatively deep vascular tissue. Using information from these signals, we studied DSPFs effectiveness in measuring systolic BP (SBP) and diastolic BP (DBP) through an outpatient study in which 133 patients were recruited, and in measuring beat-to-beat BP waveforms through an inpatient study in which two patients were recruited. In the outpatient study, the DSPF method was able to achieve mean absolute errors (MAEs) of 4.17 mmHg and 2.42 mmHg for SBP and DBP respectively compared to conventional cuff-based methods. It was also able to fulfil the requirements of the AAMI/ESH/ISO 81060-2:2018 standard for BP measurement devices and attain an "A" grade according to the British Hypertension Society grading scheme. For the inpatient study, it produced BP waveforms which had MAEs of 2.35 mmHg and 3.06 mmHg compared to arterial-line measurements for the two patients, respectively. Compared to PPG which has been studied more extensively as a cuffless BP measurement method, we found through ablation studies that DSPF was able to reach significantly lower MAEs and hence better accuracies. DSPF augments the performance of PPG-only methods by leveraging additional information from the blood flow rate signal, and we therefore find it to be a superior cuffless BP measurement method which can potentially be used in outpatient, inpatient, and remote settings.