gebhart/patrepeval huggingface dataset:
Accuracy assessment of an automatic image-based PET/CT registration for ultrasound-guided biopsies and ablations (2011)

The multimodal fusion of spatially tracked real-time ultrasound (US) with a prior CT scan has demonstrated clinical utility, accuracy, and positive impact upon clinical outcomes when used for guidance during biopsy and radiofrequency ablation in the treatment of cancer. Additionally, the combination of CT-guided procedures with positron emission tomography (PET) may not only enhance navigation, but add valuable information regarding the specific location and volume of the targeted masses which may be invisible on CT and US. The accuracy of this fusion depends on reliable, reproducible registration methods between PET and CT. This can avoid extensive manual efforts to correct registration which can be long and tedious in an interventional setting. In this paper, we present a registration workflow for PET/CT/US fusion by analyzing various image metrics based on normalized mutual information and cross-correlation, using both rigid and affine transformations to automatically align PET and CT. Registration is performed between the CT component of the prior PET-CT and the intra-procedural CT scan used for navigation to maximize image congruence. We evaluate the accuracy of the PET/CT registration by computing fiducial and target registration errors using anatomical landmarks and lesion locations respectively. We also report differences to gold-standard manual alignment as well as the root mean square errors for CT/US fusion. Ten patients with prior PET/CT who underwent ablation or biopsy procedures were selected for this study. Studies show that optimal results were obtained using a crosscorrelation based rigid registration with a landmark localization error of 1.1 +/- 0.7 mm using a discrete graphminimizing scheme. We demonstrate the feasibility of automated fusion of PET/CT and its suitability for multi-modality ultrasound guided navigation procedures.
Supplementary Figure 4 from Adipocytes Impair Leukemia Treatment in Mice (2023)

Supplementary Figure 4 from Adipocytes Impair Leukemia Treatment in Mice
Multisensory Processes: A Balancing Act across the Lifespan (2016)

Multisensory processes are fundamental in scaffolding perception, cognition, learning, and behavior. How and when stimuli from different sensory modalities are integrated rather than treated as separate entities is poorly understood. We review how the relative reliance on stimulus characteristics versus learned associations dynamically shapes multisensory processes. We illustrate the dynamism in multisensory function across two timescales: one long term that operates across the lifespan and one short term that operates during the learning of new multisensory relations. In addition, we highlight the importance of task contingencies. We conclude that these highly dynamic multisensory processes, based on the relative weighting of stimulus characteristics and learned associations, provide both stability and flexibility to brain functions over a wide range of temporal scales.
Supplemental Movie 2 from YAP Enhances Tumor Cell Dissemination by Promoting Intravascular Motility and Reentry into Systemic Circulation (2023)

&lt;p&gt;Movie over 12 hours of the head of a zebrafish embryo injected with EV control A375 cells.&lt;/p&gt;
A learning support system for beginners in pencil drawing (2003)

A picture is one of important research subjects to make our life spiritually rich. Most studies on pictures, however, only propose some substitute functions of actual drawing or painting materials. There is no system that evaluates pictures drawn by users and gives advice about them. We propose a learning support system of beginner's pencil drawing that is the basis of pictures. Our system receives a motif data set and a user's sketch image, and returns advice to the user. The processing is composed of the four functions: feature extraction of motifs, feature extraction of sketches, error identification, and generation and presentation of advice. We developed and experimented a prototype system limited to treat a basic motif and principal advice. As a result, the validity of the proposed system was confirmed.
Predicting spontaneous preterm birth risk is improved when quantitative ultrasound data are included with prior clinical data (2021)

Predicting women at risk for spontaneous preterm birth (sPTB) has been medically challenging due to lack of signs and symptoms of preterm labor until intervention is too late. Hypothesis: advanced statistical modeling predicts sPTB risk from quantitative ultrasound (QUS) plus prior data (prior birth history through first clinical cervical length) better than that of prior data alone. Study population included 250 full-term births (FTBs) and 25sPTBs. QUS scans (Siemens S2000 &amp; MC9-4) were performed using a standard cervical length approach by registered diagnostic medical sonographers. Two cervical QUS scans were conducted at 20 ± 2 and 24 ± 2 wk gestation. Multiple QUS features were processed from calibrated raw radiofrequency backscattered ultrasonic signals. Two statistical models designed to determine sPTB risk were compared: (1) QUS plus prior data and (2) prior data alone. Test ROC AUC compared both models. Using statistical methods, QUS plus prior data identified women at risk for sPTB with better AUC (0.68; std error 0.01; 95% CI, 0.66–0.70) than that of prior data alone (0.63; std error 0.01; 95% CI, 0.61–0.65). Even with only 25 sPTBs, data suggest that there is value added for predicting sPTB when QUS data are included with prior data. [R01HD089935.]
ChemInform Abstract: Concise Syntheses of 1,2‐L‐chiro‐Inositol Conjugates and Oligomers. A Novel Class of Saccharide Mimics with Promising Molecular Properties. (1996)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Clinical Benefits of Conversion Surgery for Unresectable Pancreatic Ductal Adenocarcinoma: A Single-Institution, Retrospective Analysis (2021)

BackgroundUnresectable pancreatic ductal adenocarcinoma (UR-PDAC) has a poor prognosis. Conversion surgery is considered a promising strategy for improving the prognosis of UR-PDAC. This study aimed to investigate the clinical benefits of conversion surgery in patients with UR-PDAC.Methods: We retrospectively evaluated patients with PDAC who were referred to our department for possible surgical resection between January 2006 and December 2019. Conversion surgery was performed only in patients with UR-PDAC who could expect R0 resection. We analyzed the prognostic factors for overall survival among patients who underwent conversion surgery. Results: Overall, 638 patients with advanced pancreatic cancer were enrolled in this study. According to resectability, resectable cancer (R) was present in 180 patients, borderline resectable cancer (BR) in 60, unresectable locally advanced cancer (UR-LA) in 252, and unresectable cancer with distant metastasis (UR-M) in 146. Conversion surgery was performed in 20 of the 398 UR cases (5.1%). The median period between the initial therapy and conversion surgery was 15.5 months. According to the RECIST evaluation, the treatment response was CR in one patient, PR in 13, SD in five, and PD in one. Downstaging was pathologically determined in all cases. According to the Evans grading system, grade I was observed in four patients (20%), grade IIb in seven (35%), III in seven (35%), and IV in two (10%). We compared the overall survival period from initial treatment among patients undergoing conversion surgery; the median overall survival durations in the conversion surgery, R, BR, UR-LA, and UR-M groups were 73.7, 32.7, 22.7, 15.7, and 8.8 months, respectively. Multivariate analysis revealed that the presence or absence of CRT and the RECIST PR/CR for the main tumor were statistically significant prognostic factors for overall survival among patients undergoing conversion surgery (p = 0.004 and 0.03, respectively).Conclusion: In UR-PDAC, it is important to perform multidisciplinary treatment, including CRT with conversion surgery.
Lunaemycins, new cyclic hexapeptide antibiotics from the cave moonmilk-dweller Streptomyces lunaelactis MM109 T (2022)

Abstract Streptomyces lunaelactis strains have been isolated from moonmilk deposits which are calcium carbonate speleothems used for centuries in traditional medicine for their antimicrobial properties. Genome mining revealed that these strains are a remarkable example of a Streptomyces species with huge heterogeneity regarding their content in biosynthetic gene clusters (BGCs) for specialized metabolite production. BGC 28a is one of the cryptic BGCs that is only carried by a subgroup of S. lunaelactis strains for which in silico analysis predicted the production of nonribo-somal peptide antibiotics containing the non-proteogenic amino acid piperazic acid (Piz). Comparative metabolomics of culture extracts of S. lunaelactis strains either or not holding BGC 28a combined with MS/MS-guided peptidogenomics and 1 H/ 13 C NMR allowed to identify the cyclic hexapeptide with the amino acid sequence (D-Phe)-(L-HO-Ile)-(D-Piz)-(L-Piz)-(D-Piz)-(L-Piz), called lunaemycin A, as the main compound synthesized by BGC 28a. Molecular networking further identified 18 additional lunaemycins, 14 of them having their structure elucidated by HRMS/MS. Antimicrobial assays demonstrated a huge bactericidal activity of lunaemycins against Gram-positive bacteria including multi-drug resistant clinical isolates. Our work demonstrates how accurate in silico analysis of a cryptic BGC can highly facilitate the identification, the structural elucidation, and the bioactivity of its associated specialized metabolites.
Single-Master Dual-Slave Surgical Robot With Automated Relay of Suture Needle (2018)

Automating ubiquitous surgical subtasks such as suturing makes surgery more efficient, e.g., reduction of surgeon fatigue and/or surgery time. However, fully autonomous control in a surgical robot is still difficult due to individual differences in layout and deformation of human organs. In this paper, we propose a system consisting of a single master and dual slave, in which the operator commands one of the slaves manually through a master and the other slave autonomously moves. The operator inserts the needle to organ manually using one of the slaves (Slave A1) with a master. The other slave (Slave A2) automatically grasps the tip of the needle and pulls it out from the organ, and hands the needle back to Slave A1 automatically. Finally, Slave A1 regrasps the needle and the suturing is performed by repeating this procedure. The estimated external force is used to recognize the needle insertion by Slave A1, which is manually controlled with the master. This recognition of external force is used as a trigger to start the autonomous approach of Slave A2 to grasp the needle. We conducted single throwing and reinsertion in the experiment and compared the completion time using the proposed system and conventional bimanual teleoperation. The completion time was decreased by an average of 20% in total.
Author Correction: MYC-driven epigenetic reprogramming favors the onset of tumorigenesis by inducing a stem cell-like state (2018)

The original version of this Article contained an error in the spelling of the author Miriam Gaggianesi, which was incorrectly given as Miriam Giaggianesi. Furthermore, the affiliation details for Gabriella Gaudioso, Valentina Vaira, and Silvano Bosari incorrectly omitted 'Division of Pathology, Fondazione IRCCS Ca' Granda Ospedale Maggiore Policlinico, Milan, 20122, Italy'. Finally, the affiliation details for Alice Turdo, Miriam Gaggianesi, Aurora Chinnici and Elisa Lipari were incorrectly given as 'Dipartimento di Biotecnologie Mediche e Medicina Legale Sezione di Biochimica Medica, Facoltà di Medicina e Chirurgia, Policlinico "P.Giaccone", Università di Palermo, Palermo, 90127, Italy'. The correct affiliation is 'Department of Surgical, Oncological and Stomatological Sciences, University of Palermo, Palermo, 90127, Italy'. These errors have now been corrected in both the PDF and HTML versions of the Article.
Stressed Skin Insulating Core Panel House - Design, Construction and Evaluation (1994)

This paper describes three projects related to stressed skin insulating core (SSIC) panel construction: the energy and cost estimating software -SIP Scheming, the Stressed Skin Insulating Core Panel Demonstration House design and construction, and the Experimental University Housing testing. . INTRODUCTIONThe housing projects involve the design, construction, and evaluation of stressed skin insulating core (SSIC) panels.SIP Scheming is software that can be used to evaluate the energy performance of SSIC panels and estimate their cost.Stressed skin insulating core panels employ a "sandwich" of lightweight insulating core material faced with two layers of structural sheathing; the result is a highly energy efficient structure. SIP SCHEMINGSIP Scheming is an energy design and cost estimating tool for the Macintosh computer.Used during the schematic design phase, it features an intuitive graphic (non-numerical input and output) interface so that it can be used and understood by those with relatively little technical knowledge.The calculations include the effects of conduction, solar radiation, internal gains, ventilation, daylighting, and mass for all building types.The output is a loads analysis for 24 hours for each of four days.The software can export cost estimates for SSIC panels, 3D building geometry information to ArchiCAD, and Loads Description Lan gu age input files for DOE-2.SIP Scheming is designed for users who are visually oriented.This visual aspect combined with cost estimating makes it ideal for marketing and sales of SSIC panels.We anticipate SIP Scheming will be used by panel sales personnel, architects, engineers, building designers, developers and builders.
Conjure: Automatic Generation of Constraint Models from Problem Specifications (Extended Abstract) (2023)

When solving a combinatorial problem, the formulation or model of the problem is critical to the efficiency of the solver. Automating the modelling process has long been of interest given the expertise and time required to develop an effective model of a particular problem. We describe a method to automatically produce constraint models from a problem specification written in the abstract constraint specification language Essence. Our approach is to incrementally refine the specification into a concrete model by applying a chosen refinement rule at each step. Any non-trivial specification may be refined in multiple ways, creating a diverse space of models to choose from. The handling of symmetries is a particularly important aspect of automated modelling. We show how modelling symmetries may be broken automatically as they enter a model during refinement, removing the need for an expensive symmetry detection step following model formulation. Our approach is implemented in a system called Conjure. We compare the models produced by Conjure to constraint models from the literature that are known to be effective. Our empirical results confirm that Conjure can reproduce successfully the kernels of the constraint models of 42 benchmark problems found in the literature.
O1‐07‐05: Novel CSF biomarkers for frontotemporal lobar degenerations (2010)

Frontotemporal lobar degeneration (FTLD) represents a group of neurodegenerative disorders which lead to progressive behavioral and/or language abnormalities. Two major forms of FTLD account for 90% of cases: FTLD with TDP-43 pathology (FTLD-TDP) and FTLD with tau pathology (FTLD-Tau). Currently, there are no reliable and well-validated antemortem biomarkers for FTLD-TDP or FTLD-Tau. To identify antemortem cerebrospinal fluid (CSF) diagnostic biomarkers that can potentially distinguish between the two main subtypes of FTLD. CSF samples were collected ante-mortem from 23 FTLD patients with known pathology to form a training set as part of a comparative biomarker study that additionally included 33 living cognitively normal subjects and 66 patients with autopsy-confirmed Alzheimer's disease. CSF samples were also collected from 80 patients clinically diagnosed with frontotemporal dementia (FTD) without autopsy, and 8 patients with amyotrophic lateral sclerosis (ALS). Levels of 151 novel analytes were measured via a targeted multiplex panel enriched in neuropeptides, cytokines, and growth factors, along with levels of CSF biomarkers for AD. CSF levels of multiple analytes differed between FTLD-TDP and FTLD-Tau, including cell death proteins, neuropeptides, and chemokines. Classification by either random forest or predictive analysis of microarrays using these analytes achieved high sensitivity for FTLD-TDP (>86%) with modest specificity (77.8%) in the training set. Neuropsychological analysis of living patients with behavioral variant of FTD predicted to have FTLD-TDP or FTLD-Tau showed cognitive performance in each subgroup to be consistent with previously observed neuropsychological characteristics associated with each pathology. Clinical cases with FTLD-TDP and FTLD-Tau pathology can be potentially identified antemortem by assaying levels of specific analytes that are well known and readily measurable in the CSF.
Specific Surface Activity of Gemini Surfactants: Mixing Effects of Alanine-type and Sulfate-type Surfactants. (2001)

This paper has described the surface chemical properties of the three kinds of Gemini surfactants from points of views of the specific surface activity and the polar moiety interactions. The specific surface activity named “Gemini effect” was defined as the ratio of surface activity of Gemini surfactant to that of the single chain surfactant with a similar molecular structure. The Gemini effects were compared among three kinds of Gemini surfactants as a function of their interchain-spacer distances. The interactions between sulfate groups and alanine groups in the mixture of Gemini and single-chain surfactants were investigated on the basis of the compositions of the adsorbed monolayer and micelles as mixing effects.
Long-Path Interferometry through an Uncontrolled Atmosphere* (1962)

An investigation has been made of the degree to which the invariance of the relative dispersion of the atmosphere will permit an interferometric separation between geometric path differences and path differences due to atmospheric inhomogeneities. Humidity variations are the most serious. A difference in average humidity of 1% of saturation at 15°C would affect the comparison of two paths by approximately 2 parts in 108. The feasibility of photographing interference for long paths through an uncontrolled atmosphere has been investigated. Photographs of channel spectrum interference have been readily obtained for path lengths of 115 m near ground level.
Synthesis of Fluorine‐Doped Hydrophilic Carbon Nanoparticles from Hexafluorobenzene by Femtosecond Laser Pulses (2016)

We report on the preparation and characterization of fluorine-doped hydrophilic carbon nanoparticles by the exposure of hexafluorobenzene or a water/hexafluorobenzene bilayer solution to femtosecond laser pulses. Uniform atom distributions are achieved not only on the particle surface but also inside the particles. The semi-ionic character of C-F bonds and the non-aggregating feature of the nanoparticles play key roles in the water-dispersible character of fluorine-doped carbon nanoparticles. We suggest the following building-up process of carbon nanoparticles: the fragmentation of hexafluorobenzene initiated by the electrons generated in laser-induced plasma followed by the reconstruction of a carbon framework of nanoparticles.
Interaction-Assisted Gap Opening in Moir\'e Graphene Superlattices (2012)

We develop a theory of interaction effects in graphene superlattices, where tunable superlattice periodicity can be used as a knob to control the gap at the Dirac point. Applied to graphene on hexa-boron-nitride (G/h-BN), our theory predicts substantial many-body enhancement of this gap. Tunable by the moire superlattice periodicity, a few orders of magnitude enhancement is reachable under optimal conditions. The Dirac point gap enhancement can be much larger than that of the minigaps opened by Bragg scattering at principal superlattice harmonics. This naturally explains the conundrum of large Dirac point gaps recently observed in G/h-BN heterostructures and their tunability by the G/h-BN twist angle.
Performance Analysis of Tactical Grade Inertial Systems for MWD Process (2006)

A complete knowledge of the drill bit direction and orientation during the drilling process is essential to guarantee accurate directional drilling procedure. Presently, three accelerometers and three magnetometers are typically used as a part of the Measurement-While-Drilling MWD equipment. In some cases, the use of magnetometers has deleterious effect on the accuracy of the surveying process. This is due to the magnetic interference of the drill string, downhole ore deposits and other geomagnetic effects. Recently, gyroscopes have been proposed to aid the magnetometers in environments of high magnetic interference. This paper describes the development of a reliable MWD surveying technique utilizing Inertial Navigation Systems (INS) as a replacement of magnetometers. Tactical grade INS consisting of three gyroscopes and three accelerometers to be miniaturized inside the bottom-hole assembly is adopted in this study. The proposed system offers station-based surveying for monitoring of azimuth, inclination and tool face angles. Additionally, it provides continuous surveying by applying Kalman filtering to optimally integrate the sensor measurements and to provide both the drill bit position and orientation in realtime. This study also offers accurate modeling of INS long-term errors in order to achieve the desired accuracy for horizontal drilling applications. Pre-filtering using wavelet multi-resolution analysis is utilized in this study to improve the performance of both gyroscopes and accelerometers. This procedure removes most of the short-term and high frequency errors to separate the motion dynamics from the sources of vibration and shocks experienced downhole. The performance of the proposed system is examined using a special experimental setup that performs rotations similar to that experienced by the drill bit. The results showed that reliable MWD surveying performance can be achieved. The suggested INS-based MWD surveying technique eliminates the costly nonmagnetic drill collars for the magnetometers, survey the borehole continuously without interrupting the drilling process and improve the overall accuracy by utilizing real-time digital signal processing techniques.
Enantioselective Conjugate Addition of Diethylzinc to Chalcones Using NiCl2-Chiral β-Diamine Complex as Catalyst (1994)

Abstract A chiral catalyst prepared from nickel(II) chloride and chiral β-diamine, (S)-1-pentyl-2-anilinomethylpyrrolidine, was found to be effective for the enantioselective conjugate addition of diethylzinc to chalcones to afford corresponding β-substituted ketones in up to 89% ee.