Miracle-dz/UniFAR-FTUs huggingface dataset:
Post-Treatment Neutrophil and Lymphocyte Counts Predict Progression-Free Survival Following First-Line Chemotherapy in Hodgkin’s Lymphoma

Hodgkin’s lymphoma carries an excellent prognosis with modern chemotherapy, but a significant proportion of patients remain refractory to or relapse after first-line treatment. Immunological changes post-treatment, such as chemotherapy-induced neutropenia (CIN) or lymphopenia, have shown prognostic significance in multiple tumor types. Our study aims to investigate the prognostic value of immunologic changes in Hodgkin’s lymphoma by examining the post-treatment lymphocyte count (pALC), neutrophil count (pANC) and the neutrophil-lymphocyte ratio (pNLR). Patients treated for classical Hodgkin’s lymphoma at the National Cancer Centre Singapore using ABVD-based regimens were retrospectively analyzed. An optimal cut-off value for high pANC, low pALC and high pNLR in predicting progression-free survival was determined by receiver operating curve analysis. Survival analysis was performed using the Kaplan–Meier method and multivariable Cox proportional models. Overall OS and PFS were excellent, with a 5-year OS of 99.2% and a 5-year PFS of 88.2%. Poorer PFS was associated with high pANC (HR 2.99, p = 0.0392), low pALC (HR 3.95, p = 0.0038) and high pNLR (p = 0.0078). In conclusion, high pANC, low pALC and high pNLR confer a poorer prognosis for Hodgkin’s lymphoma. Future studies should evaluate the potential of improving treatment outcomes by the adjustment of chemotherapy dose intensity based on post-treatment blood counts.
Prognostic Associations of Concomitant Antibiotic Use in Patients with Advanced NSCLC Treated with Atezolizumab: Sensitivity Analysis of a Pooled Investigation of Five Randomised Control Trials

Background: Immune checkpoint inhibitors (ICIs) have been a significant milestone for the treatment of advanced non-small cell lung cancer (NSCLC). However, the efficacy of ICIs can vary substantially between patients, with disparities in treatment outcomes being potentially driving by changes in the microbiome. Antibiotics can cause dysbiosis and are hypothesised to impact the efficacy of ICIs Methods: Data were pooled from five randomised clinical control trials, IMpower130, IMpower131, IMpower150, OAK, and POPLAR, assessing atezolizumab in advanced NSCLC. Cox proportional hazard models were used to determine whether antibiotic use within 6-weeks before and after randomisation was associated with progression-free survival (PFS) and overall survival (OS) outcomes, with data further stratified by programmed death ligand-1 (PD-L1) status. Results: Antibiotic use was significantly associated with worsened PFS (hazard ratio (HR) = 1.19 [1.08–1.30], p ≤ 0.001) and OS (HR = 1.27 [1.13–1.42], p ≤ 0.001) in patients treated with atezolizumab and those not treated with atezolizumab (PFS, HR = 1.21 [1.08–1.36] p < 0.001, OS, HR = 1.33 [1.16–1.51] p < 0.001). These associations were relatively consistent in both PD-L1 positive and PD-L1 negative. Conclusions: Antibiotic use within a ±6-week window was significantly associated with worse PFS and OS.
Laser ablation of CsI: time-resolved Fourier-transform infrared spectra of atomic cesium in the 800–8000 cm −1 range

Fourier-transform time-resolved spectroscopy of laser-induced breakdown of Cs vapor in a vacuum has been used for the measurement of atomic Cs emission spectra in the 800–8000 cm−1 range with a resolution of 0.02 cm−1. The 6h and 7h levels of Cs are observed. The dipole transition matrix elements (transition probabilities, oscillator, and line strengths) between the observed levels are calculated using quantum defect theory.
A heuristic model for the simulation of the deformation of elastic and spongy material for virtual reality applications

This paper presents a practical algorithm for the simulation of interactive deformation in a 3D polygonal mesh model. The algorithm combines the conventional simulation of deformation using a spring-mass-damping model, solved by explicit numerical integration, with a set of heuristics to describe certain features of the transient behaviour, to increase the speed and stability of solution. In particular, this algorithm was designed to be used in the simulation of synthetic environments where it is necessary to model realistically, in real time, the effect on non-rigid surfaces being touched, pushed, pulled or squashed. Such objects can be solid or hollow, and have plastic, elastic or fabric-like properties. The algorithm is presented in an integrated form including collision detection and adaptive refinement so that it may be used in a self-contained way as part of a simulation loop to include human interface devices that capture data and render a realistic stereoscopic image in real time. The algorithm is designed to be used with polygonal mesh models representing complex topology, such as the human anatomy in a virtual-surgery training simulator. The paper evaluates the model behaviour qualitatively and then concludes with some examples of the use of the algorithm.
Dissolved Organic Matter Sources in High Arsenic Groundwater From a Sand‐Gravel Confined Aquifer

Sources of dissolved organic matter (DOM) triggering arsenic enrichment in deep confined groundwater is a highly debated issue. Along these lines, the spectroscopic and molecular characteristics of DOM were monitored in both shallow unconfined and deep confined groundwater from the Songnen Basin, China. Results demonstrated that deep groundwater with higher dissolved arsenic concentrations was characterized by more abundant labile organic compounds than shallow groundwater. The three‐end‐member mixing model estimated that shallow groundwater had more fraction of surface water, while deep groundwater was primarily recharged by lateral groundwater flow. Groundwater DOM sources were estimated from the fluorescence index (FI) values, which suggests that shallow groundwater DOM was primarily sourced from surface water with stronger terrestrial signatures. However, deep groundwater DOM was mainly sourced from in situ sedimentary organic matter release or by‐products from microbial activity with stronger microbial signatures. Higher values of degradation index (I_deg) indicate that deep groundwater DOM had undergone greater degradation extents than the shallow one. The microbial DOM degradation in anoxic environments mainly occurred via a pathway where more saturated and low‐molecular‐mass compounds were preferentially degraded to produce more mid‐molecular‐mass compounds with unsaturated, aromatic, and microbial signatures. This explained the significant positive correlations between groundwater arsenic concentrations and FI and I_deg values. A stronger DOM degradation state in deep groundwater was conducive to more arsenic enrichment than that in the shallow one. This work successfully identified distinct sources of shallow and deep groundwater DOM, and proposed a paradigm of DOM processing pathways during arsenic enrichment under anoxic environments.
Speech Denoising by SoftSoft Thresholding

Many noise-reduction methodsarebasedonthe possibility ofrepresenting theclean signal withareduced number oftransform coefficients, sothatcancelling coefficients belowa certain thresholding level will produce anenhanced reconstructed signal. Itisassumedthattheclean signal hasasparse represen- tation, while noise energy isspread overallcoefficients. Themaindrawback ofthose methods isthespeech distortion introduced byeliminating smallmagnitude coefficients, andthe presence ofartifacts ("musical noise") produced byisolated noisy coefficients randomly crossing thethresholding level. Basedontheobservation thatthespeech histogram hasmany important coefficients close toorigin, wepropose the"SoftSoft" thresholding function todenoise speechsignals corrupted by AWGN.Thisfunction hastwothresholding levels: alowerlevel adjusted toreducedistortion, anda higher level adjusted to removenoise. Thejoint optimal values canbedetermined by minimizing theresulting mean-square error(MSE). We alsoverify thatthisnewthresholding function leadsto lowerMSE thanthewell-known Soft-thresholding function, which employs onlyahigher level. Although theMSE improvement is notexpressive, aperceptual distortion measure(thelog-spectral distance) confirms thehigher perceptual quality oftheSoftSoft scheme.
Mechanistic Analysis of CCP1 in Generating ΔC2 α-Tubulin in Mammalian Cells and Photoreceptor Neurons

An important post-translational modification (PTM) of α-tubulin is the removal of amino acids from its C-terminus. Removal of the C-terminal tyrosine residue yields detyrosinated α-tubulin, and subsequent removal of the penultimate glutamate residue produces ΔC2-α-tubulin. These PTMs alter the ability of the α-tubulin C-terminal tail to interact with effector proteins and are thereby thought to change microtubule dynamics, stability, and organization. The peptidase(s) that produces ΔC2-α-tubulin in a physiological context remains unclear. Here, we take advantage of the observation that ΔC2-α-tubulin accumulates to high levels in cells lacking tubulin tyrosine ligase (TTL) to screen for cytosolic carboxypeptidases (CCPs) that generate ΔC2-α-tubulin. We identify CCP1 as the sole peptidase that produces ΔC2-α-tubulin in TTLΔ HeLa cells. Interestingly, we find that the levels of ΔC2-α-tubulin are only modestly reduced in photoreceptors of ccp1−/− mice, indicating that other peptidases act synergistically with CCP1 to produce ΔC2-α-tubulin in post-mitotic cells. Moreover, the production of ΔC2-α-tubulin appears to be under tight spatial control in the photoreceptor cilium: ΔC2-α-tubulin persists in the connecting cilium of ccp1−/− but is depleted in the distal portion of the photoreceptor. This work establishes the groundwork to pinpoint the function of ΔC2-α-tubulin in proliferating and post-mitotic mammalian cells.
QUANTUM PHASE TRANSITIONS AND EVENT HORIZONS: CONDENSED MATTER ANALOGIES

Although it has been generally believed that classical general relativity is always correct for macroscopic length scales, certain predictions such as event horizons and closed time-like curves are inconsistent with ordinary quantum mechanics. It has recently been pointed out that the event horizon problem can be resolved if space-time undergoes a quantum phase transition as one approaches the surface where general relativity predicts that the redshift becomes infinite. Indeed a thought experiment involving a superfluid with a critical point makes such a suggestion appear plausible. Furthermore the behavior of space-time near an event horizon may resemble quantum phase transitions that have been observed in the laboratory. For example, the phenomenology of metamagnetic quantum critical points in heavy fermion materials resembles the behavior expected, both in terms of time standing still and the behavior of quantum correlation functions. Martensitic transformations accompanied by non-adiabatic changes in the electronic wave function are also interesting in this connection.
Association between Polymorphism of Genes IL-1A, NFKB1, PAR1, TP53, and UCP2 and Susceptibility to Non-Small Cell Lung Cancer in the Brazilian Amazon

Non-small cell lung cancer (NSCLC) accounts for the vast majority of cases of lung neoplasms. It is formed in multiple stages, with interactions between environmental risk factors and individual genetic susceptibility and with genes involved in the immune and inflammatory response paths, cell or genome stability, and metabolism, among others. Our objective was to evaluate the association between five genetic variants (IL-1A, NFKB1, PAR1, TP53, and UCP2) and the development of NSCLC in the Brazilian Amazon. The study included 263 individuals with and without lung cancer. The samples were analyzed for the genetic variants of NFKB1 (rs28362491), PAR1 (rs11267092), TP53 (rs17878362), IL-1A (rs3783553), and UCP2 (INDEL 45-bp), which were genotyped in PCR, followed by an analysis of the fragments, in which we applied a previously developed set of informative ancestral markers. We used a logistic regression model to identify differences in the allele and the genotypic frequencies among individuals and their association with NSCLC. The variables of gender, age, and smoking were controlled in the multivariate analysis to prevent confusion by association. The individuals that were homozygous for the Del/Del of polymorphism NFKB1 (rs28362491) (p = 0.018; OR = 0.332) demonstrate a significant association with NSCLC, which was similar to that observed in the variants of PAR1 (rs11267092) (p = 0.023; OR = 0.471) and TP53 (rs17878362) (p = 0.041; OR = 0.510). Moreover, the individuals with the Ins/Ins genotype of polymorphism IL-1A (rs3783553) demonstrated greater risk for NSCLC (p = 0.033; OR = 2.002), as did the volunteers with the Del/Del of UCP2 (INDEL 45-bp) (p = 0.031; OR = 2.031). The five polymorphisms investigated can contribute towards NSCLC susceptibility in the population of the Brazilian Amazon.
Quantization of Einstein's Gravitational Field: Linear Approximation

The approximate linear form of Einstein's gravitational field is quantized by using an indefinite metric. It is shown that only two types of gravitons can be observed, though many more can exist in virtual states in the presence of interaction. The observable gravitons are shown to be particles of spin 2. Using the interaction representation, the interaction of the gravitational field with the matter field is briefly discussed.
Lesion-specific 3D-printed moulds for image-guided tissue multi-sampling of ovarian tumours: A prospective pilot study

Background High-Grade Serous Ovarian Carcinoma (HGSOC) is the most prevalent and lethal subtype of ovarian cancer, but has a paucity of clinically-actionable biomarkers due to high degrees of multi-level heterogeneity. Radiogenomics markers have the potential to improve prediction of patient outcome and treatment response, but require accurate multimodal spatial registration between radiological imaging and histopathological tissue samples. Previously published co-registration work has not taken into account the anatomical, biological and clinical diversity of ovarian tumours. Methods In this work, we developed a research pathway and an automated computational pipeline to produce lesion-specific three-dimensional (3D) printed moulds based on preoperative cross-sectional CT or MRI of pelvic lesions. Moulds were designed to allow tumour slicing in the anatomical axial plane to facilitate detailed spatial correlation of imaging and tissue-derived data. Code and design adaptations were made following each pilot case through an iterative refinement process. Results Five patients with confirmed or suspected HGSOC who underwent debulking surgery between April and December 2021 were included in this prospective study. Tumour moulds were designed and 3D-printed for seven pelvic lesions, covering a range of tumour volumes (7 to 133 cm3) and compositions (cystic and solid proportions). The pilot cases informed innovations to improve specimen and subsequent slice orientation, through the use of 3D-printed tumour replicas and incorporation of a slice orientation slit in the mould design, respectively. The overall research pathway was compatible with implementation within the clinically determined timeframe and treatment pathway for each case, involving multidisciplinary clinical professionals from Radiology, Surgery, Oncology and Histopathology Departments. Conclusions We developed and refined a computational pipeline that can model lesion-specific 3D-printed moulds from preoperative imaging for a variety of pelvic tumours. This framework can be used to guide comprehensive multi-sampling of tumour resection specimens.
Baseline surface radiation network (BSRN/WCRP) New precision radiometry for climate research

To support climate research, the World Climate Research Programme (WCRP) initiated a new radiometric network, the Baseline Surface Radiation Network (BSRN). The network aims at providing validation material for satellite radiometry and climate models. It further aims at detecting long-term variations in irradiances at the earth’s surface, which are believed to play an important role in climate change. The network and its instrumentation are designed 1) to cover major climate zones, 2) to provide the accuracy required to meet the objectives, and 3) to ensure homogenized standards for a long period in the future. The limits of the accuracy are defined to reach these goals. The suitable instruments and instrumentations have been determined and the methods for observations and data management have been agreed on at all stations. Measurements of irradiances are at 1 Hz, and the 1-min statistics (mean, standard deviation, and extreme values) with quality flags are stored at a centralized data archive at the WCRP’s World Radiation Monitoring Center (WRMC) in Zurich, Switzerland. The data are quality controlled both at stations and at the WRMC. The original 1-min irradiance statistics will be stored at the WRMC for 10 years, while hourly mean values will be transferred to the World Radiation Data Center in St. Petersburg, Russia. The BSRN, consisting of 15 stations, covers the earth’s surface from 80°N to 90°S, and will soon be joined by seven more stations. The data are available to scientific communities in various ways depending on the communication environment of the users. The present article discusses the scientific base, organizational and technical aspects of the network, and data retrieval methods; shows various application possibilities; and presents the future tasks to be accomplished.
GO-Based Membranes for Desalination

Graphene oxide (GO), owing to its atomic thickness and tunable physicochemical properties, exhibits fascinating properties in membrane separation fields, especially in water treatment applications (due to unimpeded permeation of water through graphene-based membranes). Particularly, GO-based membranes used for desalination via pervaporation or nanofiltration have been widely investigated with respect to membrane design and preparation. However, the precise construction of transport pathways, facile fabrication of large-area GO-based membranes (GOMs), and robust stability in desalination applications are the main challenges restricting the industrial application of GOMs. This review summarizes the challenges and recent research and development of GOMs with respect to preparation methods, the regulation of GOM mass transfer pathways, desalination performance, and mass transport mechanisms. The review aims to provide an overview of the precise regulation methods of the horizontal and longitudinal mass transfer channels of GOMs, including GO reduction, interlayer cross-linking, intercalation with cations, polymers, or inorganic particles, etc., to clarify the relationship between the microstructure and desalination performance, which may provide some new insight regarding the structural design of high-performance GOMs. Based on the above analysis, the future and development of GOMs are proposed.
ST7 Becomes One of the Most Common Staphylococcus aureus Clones After the COVID-19 Epidemic in the City of Wuhan, China

Background Staphylococcus aureus (S. aureus) was able to rapidly evolve and adapt under the pressure of antibiotics, host immune and environmental change. After Corona Virus Disease 2019 (COVID-19) epidemic in Wuhan, China, a large number of disinfectants were used, which might result in rapid evolution of S. aureus. Methods A total of 619 S. aureus isolates were collected from Zhongnan Hospital, Wuhan University from 2018 to 2021, including group BEFORE (309 strains collected before COVID-19 pandemic) and group AFTER (310 strains collected after COVID-19 pandemic), for comparing the changes of molecular epidemiology. The molecular characteristics of isolates were analyzed by Multi-locus sequence typing (MLST), spa, chromosomal cassette mec (SCCmec) typing, virulence genes were screened by the PCR, antibiotic susceptibility test was carried out by the VITEK system. Results Thirty-six sequence types (STs) belonging to 14 clone complexes (CCs) were identified. ST5 was the most prevalent clone in both groups, and ST7, ranking the sixth in group BEFORE, became the second dominant clone in group AFTER (6.5% vs 10.0%), whereas ST239 decreased from the seventh to the fourteenth (5.8% vs 1.9%). ST7 in group AFTER had a higher positive rate of virulence genes, including hlb, fnbB, seb, lukDE, sdrE and the proportion of ST7-t091 MRSA strains increased from 19.1% to 50% compared with group BEFORE. Though no significant difference of MRSA proportion was found between two groups, SCCmec type-III in group AFTER decreased (p<0.01). Though the rate of multidrug-resistance (MDR) decreased, the virulence genes hlb, hlg, fnbB, seb and pvl carrying rates were significantly elevated in MRSA strains of group AFTER. Conclusion After COVID-19 pandemic, ST7 becomes one of the predominant S. aureus clones in Wuhan and the carrying rate of SCCmec and virulence genes is on the rise. Therefore, it is essential to strengthen the surveillance of ST7 S. aureus clone.
Management of Locally Advanced Cutaneous Squamous Cell Carcinoma of the Scalp: A Case Report and Literature Review

Cutaneous squamous cell carcinoma (cSCC) is a common malignancy in the head and neck region. Although rarely metastatic, it has the potential to become locally aggressive and invade surrounding structures. The involvement of the scalp with cSCC presents a unique surgical challenge given its proximity to vital structures. We present a case of locally advanced cutaneous scalp squamous cell carcinoma with involvement of the skull and dural involvement not previously demonstrated on imaging. This case required complex multidisciplinary surgical management from both neurosurgery and head and neck surgery for treatment, preservation of essential tissues, and cosmesis.
Remdesivir-induced conduction abnormalities: A molecular model-based explanation

Purpose: Remdesivir use in COVID-19 is associated with cardiac conduction abnormalities from unclear mechanisms. A proposed mechanism is the bioaccumulation of the intermediate metabolite GS-441524 resulting in exogenous activation of cardiac adenosine A1 due to the structural similarity between adenosine and GS-441524. The prolonged half-life of GS-441524 can result in sustained activation of adenosine A1 receptors. In this study, we used molecular modeling of adenosine, GS-441524 and the adenosine A1 receptor to assess the potential mechanistic association of the proposed mechanism. Methods: Adenosine and GS-441524 structures were acquired from the PubChem database. Ligand docking was carried out using UCSF Chimera. Models were chosen based on greatest binding affinity and minimum root mean square deviation. Figures of resulting structural models were prepared using UCSF Chimera or PyMOL 2.3. 5. Results: By modeling the interaction between the A1 G protein complex and both adenosine and GS-441524, we found that the proposed mechanism of exogenous A1 receptor activation is feasible based on docking compatibility. Conclusion: The proposed mechanism of exogenous cardiac A1 receptor activation from bioaccumulation of GS-441524 as a cause of observed cardiac conduction abnormalities with the use of remdesivir in COVID-19 is viable. Further studies are needed to assess causality.