bluuebunny/crossref_metadata_2025_split huggingface dataset:
Occurrence of a d-arabinose-containing complex-type free-N-glycan in the urine of cancer patients
Authors: Tanaka-Okamoto Miki , Hanzawa Ken , Murakami Hiroko , Mukai Mikio , Takahashi Hidenori , Omori Takeshi , Ikezawa Kenji , Ohkawa Kazuyoshi , Ohue Masayuki , Miyamoto Yasuhide 
Published: March 2022

AbstractUrinary free-glycans are promising markers of disease. In this study, we attempted to identify novel tumor markers by focusing on neutral free-glycans in urine. Free-glycans extracted from the urine of normal subjects and cancer patients with gastric, colorectal, pancreatic and bile duct were fluorescently labeled with 2-aminopyridine. Profiles of these neutral free-glycans constructed using multidimensional high performance liquid chromatography separation were compared between normal controls and cancer patients. The analysis identified one glycan in the urine of cancer patients with a unique structure, which included a pentose residue. To reveal the glycan structure, the linkage fashion, monosaccharide species and enantiomer of the pentose were analyzed by high performance liquid chromatography and mass spectrometry combined with several chemical treatments. The backbone of the glycan was a monoantennary complex-type free-N-glycan containing β1,4-branch. The pentose residue was attached to the antennal GlcNAc and released by α1,3/4-l-fucosidase. Intriguingly, the pentose residue was consistent with d-arabinose. Collectively, this glycan structure was determined to be Galβ1-4(d-Araβ1-3)GlcNAcβ1-4Manα1-3Manβ1-4GlcNAc-PA. Elevation of d-arabinose-containing free-glycans in the urine of cancer patients was confirmed by selected reaction monitoring. This is the first study to unequivocally show the occurrence of a d-arabinose-containing oligosaccharide in human together with its detailed structure.
Human-level COVID-19 diagnosis from low-dose CT scans using a two-stage time-distributed capsule network
Authors: Afshar Parnian , Rafiee Moezedin Javad , Naderkhani Farnoosh , Heidarian Shahin , Enshaei Nastaran , Oikonomou Anastasia , Babaki Fard Faranak , Anconina Reut , Farahani Keyvan , Plataniotis Konstantinos N. , Mohammadi Arash 
Published: March 2022

AbstractReverse transcription-polymerase chain reaction is currently the gold standard in COVID-19 diagnosis. It can, however, take days to provide the diagnosis, and false negative rate is relatively high. Imaging, in particular chest computed tomography (CT), can assist with diagnosis and assessment of this disease. Nevertheless, it is shown that standard dose CT scan gives significant radiation burden to patients, especially those in need of multiple scans. In this study, we consider low-dose and ultra-low-dose (LDCT and ULDCT) scan protocols that reduce the radiation exposure close to that of a single X-ray, while maintaining an acceptable resolution for diagnosis purposes. Since thoracic radiology expertise may not be widely available during the pandemic, we develop an Artificial Intelligence (AI)-based framework using a collected dataset of LDCT/ULDCT scans, to study the hypothesis that the AI model can provide human-level performance. The AI model uses a two stage capsule network architecture and can rapidly classify COVID-19, community acquired pneumonia (CAP), and normal cases, using LDCT/ULDCT scans. Based on a cross validation, the AI model achieves COVID-19 sensitivity of $$89.5\%\pm 0.11$$

89.5
%
±
0.11

, CAP sensitivity of $$95\%\pm 0.11$$

95
%
±
0.11

, normal cases sensitivity (specificity) of $$85.7\%\pm 0.16$$

85.7
%
±
0.16

, and accuracy of $$90\%\pm 0.06$$

90
%
±
0.06

. By incorporating clinical data (demographic and symptoms), the performance further improves to COVID-19 sensitivity of $$94.3\%\pm 0.05$$

94.3
%
±
0.05

, CAP sensitivity of $$96.7\%\pm 0.07$$

96.7
%
±
0.07

, normal cases sensitivity (specificity) of $$91\%\pm 0.09$$

91
%
±
0.09

, and accuracy of $$94.1\%\pm 0.03$$

94.1
%
±
0.03

. The proposed AI model achieves human-level diagnosis based on the LDCT/ULDCT scans with reduced radiation exposure. We believe that the proposed AI model has the potential to assist the radiologists to accurately and promptly diagnose COVID-19 infection and help control the transmission chain during the pandemic.
Human live spermatozoa morphology assessment using digital holographic microscopy
Authors: Kamieniczna Marzena , Stachowska Ewa , Augustynowicz Agata , Woźniak Tomasz , Kurpisz Maciej K. 
Published: March 2022

AbstractDigital holographic microscopy (DHM) was applied for the morphological assessment of live intact spermatozoa from fertile and infertile men directly after semen liquefaction. This method allowed us to study the sperm population directly from the sample droplet and not only from the focal plane of the microscope as in classical optical microscopy. The newly implemented 3-dimensional sperm morphological parameters (head height, acrosome/nucleus height, head/midpiece height) were included in morphological assessment of semen samples from fertile and infertile individuals. The values of the 3D parameters were less variable in fertile men than for infertile ones. DHM was also used to compare the morphological profiles of spermatozoa after applying the “swim-up” and gradient centrifugation techniques. During selection, the most statistically significant differences were observed after separation with a Percoll gradient of 90% and a 60-min “swim-up” procedure versus ‘native’ unfractionated samples. This shows that the developed methodology can be efficiently used for the selection of morphologically sound spermatozoa. The motility type for each spermatozoon was also assessed. The results indicate that the extension of the number of morphological parameters with new 3D parameters and the simultaneous assessment of sperm motility may be valuable addition to sperm examination.
A flexible piezoresistive strain sensor based on laser scribed graphene oxide on polydimethylsiloxane
Authors: Iqra Maham , Anwar Furqan , Jan Rahim , Mohammad Mohammad Ali 
Published: March 2022

AbstractFlexible strain sensors are an important constituent in soft robotics, health care devices, and in the defence industry. Strain sensors are characterized by their sensitivity (gauge factor-GF) and sensing range. In flexible strain sensors, simultaneously achieving consistency and high sensitivity has always been challenging. A number of materials and their derivatives have been explored to achieve balanced sensitivity with respect to sensing range with limited results. In this work, a low-cost flexible piezoresistive strain sensor has been developed using reduced graphene oxide (rGO) on polydimethylsiloxane (PDMS). The reduction has been performed using laser scribing, which enables the fabrication of arbitrary structures. After lead-out, the devices were again sandwiched in a layer of PDMS to secure the structures before performing their testing using a locally developed testing rig. Compared to previously reported graphene strain sensors, the devices fabricated in this work show relatively high GF with respect to sensing range. The GF calculated for stretching, bending and torsion was 12.1, 3.5, and 90.3 respectively, for the strain range of 0–140%, 0–130%, and 0–11.1%. A hand test was performed for the detection of joint movement. Change of resistance has been observed indicating muscle motion.
Psychometric investigation of the gamification Hexad user types scale in Brazilian Portuguese
Authors: Santos Ana Cláudia Guimarães , Oliveira Wilk , Altmeyer Maximilian , Hamari Juho , Isotani Seiji 
Published: March 2022

AbstractGamification has become a significant direction in designing technologies, services, products, organizational structures, and any human activities towards being more game-like and consequently being more engaging and motivating. Albeit its success, research indicates that personal differences exist with regards to susceptibility to gamification at large as well as to different types of gamification designs. As a response, models and measurement instruments of user types when it comes to gamification have been developed. One of the most discussed related instruments is the Hexad user types scale. However, there has been paucity of research related to the validity and reliability of the Hexad instrument in general but also of its different formulations and language versions. To face this gap, our study focused on analyzing the psychometric properties of the Hexad scale in Brazilian Portuguese by conducting two confirmatory factor analyses and two multi-group confirmatory factor analyses. The survey was answered by 421 Brazilian respondents (52% self-reported women, 47% self-reported men, 0.5% preferred not to provide their gender, and 0.5% checked the option “other”), from the five Brazilian regions (23 different states and the Federal District), and aged between 10 and 60 years old. Findings support the structural validity of the scale as an oblique model and indicate opportunities for small improvements. Further research, both at academy and practice, may use this study as the source of measurement of user types related to gamification (in Brazilian Portuguese), as well as, as a theoretical and practical source for further studies discussing personalized gamification.
Counterfeit fifty Ringgit Malaysian banknotes authentication using novel graph-based chemometrics method
Authors: Hassan Nurfarhana , Ahmad Tahir , Mahat Naji Arafat , Maarof Hasmerya , How Foo Keat 
Published: March 2022

AbstractCounterfeiting, in particular, the forgery of banknotes is a serious crime problem and has become a great challenge to the global economies. The forensic science experts have been utilizing chemical technique such as infrared spectroscopy to analyze genuine and counterfeit banknotes. Nevertheless, chemometrics techniques are required to further discriminate the banknotes. In this paper, an advanced fuzzy graph chemometrics method is used to discriminate genuine and counterfeit fifty Ringgit Malaysian (RM50) banknotes. The development of the technique, namely chemometrics fuzzy autocatalytic set (c-FACS) is presented in this paper, together with the results and its comparison to principal component analysis (PCA) method. The results from the c-FACS analysis showed distinct patterns and features of the counterfeit banknotes in the c-FACS plot. Furthermore, the new method is faster than PCA in authentication analysis of counterfeit banknotes. Hence, the c-FACS provides better performance in terms of computing time as compared to PCA, and has the potential in assisting the investigation involving counterfeit banknotes.
Polarization and angular insensitive bendable metamaterial absorber for UV to NIR range
Authors: Shuvo Md Mizan Kabir , Hossain Md Imran , Mahmud Sultan , Rahman Sydur , Topu Md Tajmiul Hasan , Hoque Ahasanul , Islam Sikder Sunbeam , Soliman Mohammad S. , Almalki Sami H. A. , Islam Md. Shabiul , Islam Mohammad Tariqul 
Published: March 2022

AbstractBroadband absorbers are required for solar energy harvesting because they efficiently absorb the incident photon in the wide-ranging solar spectrum. To ensure high absorption of photons, metamaterial absorbers (MMAs) have been a growing area of interest in recent years. In this article, an MMA is proposed using a metal–insulator–metal (MIM) structure (Ni–SiO2–Ni) that shows a near-unity broadband absorption of wavelengths from 300 to 1600 nm, with a 95.77% average absorption and a peak absorption of 99.999% at 772.82 nm. The MMA is polarization insensitive as well as wide incident angle stable. Analysis of the effects of mechanical bending on the absorption of the proposed structure shows that absorption holds satisfactory values at different degrees of mechanical loading. The suggested MMA unit cell structure was computationally simulated using the Finite Integration Technique (FIT) and verified using the Finite Element Method (FEM). To analyze the feasibility of the proposed MMA as a solar cell, it is investigated with the universal AM 1.5 solar spectrum characteristics. Besides solar energy harvesting, the proposed MMA unit cell may be employed in a variety of diverse optical applications, including sensors, detectors, and imaging.
Subretinal fluid disturbs the retinal venous blood flow in central serous chorioretinopathy
Authors: Lim Joon Seo , Moon Cheolwon , Lee Junyeop 
Published: March 2022

AbstractThe significance of subretinal fluid in the retinal blood flow is unclear. Here, we evaluated the association between subretinal fluid (SRF) and retinal blood flow in eyes with central serous chorioretinopathy (CSC) using a retinal functional imager (RFI) and optical coherence tomography angiography (OCTA). In this retrospective case–control study involving 26 eyes from 18 CSC patients and 25 eyes from 21 age- and sex-matched controls, we found that the CSC group showed significant differences from the control group in terms of the retinal venule blood flow velocity (3.60 ± 0.43 vs 3.96 ± 0.56 mm/s; p = 0.030), retinal venule blood flow rate (8.75 ± 2.67 vs 12.51 ± 7.12 nl/s; p = 0.040), and the diameter of retinal venules (118.26 ± 14.25 vs 126.92 ± 35.31 μm; p = 0.045). Linear regression analysis showed that SRF thickness accounted for a 36.9% reduction in venous BFR (p = 0.013). The difference in the O2 saturation between retinal arteries and veins was greater in the CSC group. There was no correlation between SRF thickness and capillary densities in OCTA. Our findings suggest that disturbance in venous return and the associated altered oxygen may be significant changes in the retinal blood flow dynamics in eyes with SRF.
EEG functional connectivity is sensitive for nitrogen narcosis at 608 kPa
Authors: Vrijdag Xavier C. E. , van Waart Hanna , Pullon Rebecca M. , Sames Chris , Mitchell Simon J. , Sleigh Jamie W. 
Published: March 2022

AbstractDivers commonly breathe air, containing nitrogen. Nitrogen under hyperbaric conditions is a narcotic gas. In dives beyond a notional threshold of 30 m depth (405 kPa) this can cause cognitive impairment, culminating in accidents due to poor decision making. Helium is known to have no narcotic effect. This study explored potential approaches to developing an electroencephalogram (EEG) functional connectivity metric to measure narcosis produced by nitrogen at hyperbaric pressures. Twelve human participants (five female) breathed air and heliox (in random order) at 284 and 608 kPa while recording 32-channel EEG and psychometric function. The degree of spatial functional connectivity, estimated using mutual information, was summarized with global efficiency. Air-breathing at 608 kPa (experienced as mild narcosis) caused a 35% increase in global efficiency compared to surface air-breathing (mean increase = 0.17, 95% CI [0.09–0.25], p = 0.001). Air-breathing at 284 kPa trended in a similar direction. Functional connectivity was modestly associated with psychometric impairment (mixed-effects model r2 = 0.60, receiver-operating-characteristic area, 0.67 [0.51–0.84], p = 0.02). Heliox breathing did not cause a significant change in functional connectivity. In conclusion, functional connectivity increased during hyperbaric air-breathing in a dose-dependent manner, but not while heliox-breathing. This suggests sensitivity to nitrogen narcosis specifically.
The comparison of cytotoxic and genotoxic activities of glucosinolates, isothiocyanates, and indoles
Authors: Kołodziejski Dominik , Koss-Mikołajczyk Izabela , Glatt Hansruedi , Bartoszek Agnieszka 
Published: March 2022

AbstractChemopreventive properties of Brassica vegetables are attributed mainly to their characteristic compounds—glucosinolates (GLs) and their main hydrolysis products—isothiocyanates (ITCs) and indoles. In this study, we compared antiproliferative activity (MTT test in HT29 cells) and genotoxic effects (comet assay in HT29 cells and restriction analysis in a cell-free system) of three GLs (sinigrin (SIN), glucotropaeolin (GTL), and glucobrassicin (GLB)) with that of their major degradation products. Intact GLs did not exhibit cytotoxic activity, possibly due to their limited bioavailability. However, in the presence of myrosinase (MYR), GLs gained the ability to inhibit HT29 cells’ growth. The addition of MYR caused the hydrolysis of GLs to the corresponding ITCs or indoles, i.e. compounds that show stronger biological activity than parent GLs. Pure ITC/indole solutions showed the strongest antiproliferative activity. Based on the results of restriction analysis, it was found that GLs to a greater extent than ITCs caused DNA modification in a cell-free system. In the case of GLs, metabolic activation by the S9 fraction increased this effect, and at the same time changed the preferential binding site from the area of base pairs AT to GC base pairs. Of all compounds tested, only benzyl ITC caused DNA damage detectable in the comet assay, but it required relatively high concentrations.
Dynamical modeling of miR-34a, miR-449a, and miR-16 reveals numerous DDR signaling pathways regulating senescence, autophagy, and apoptosis in HeLa cells
Authors: Gupta Shantanu , Panda Pritam Kumar , Hashimoto Ronaldo F. , Samal Shailesh Kumar , Mishra Suman , Verma Suresh Kr. , Mishra Yogendra Kumar , Ahuja Rajeev 
Published: March 2022

AbstractTransfection of tumor suppressor miRNAs such as miR-34a, miR-449a, and miR-16 with DNA damage can regulate apoptosis and senescence in cancer cells. miR-16 has been shown to influence autophagy in cervical cancer. However, the function of miR-34a and miR-449a in autophagy remains unknown. The functional and persistent G1/S checkpoint signaling pathways in HeLa cells via these three miRNAs, either synergistically or separately, remain a mystery. As a result, we present a synthetic Boolean network of the functional G1/S checkpoint regulation, illustrating the regulatory effects of these three miRNAs. To our knowledge, this is the first synthetic Boolean network that demonstrates the advanced role of these miRNAs in cervical cancer signaling pathways reliant on or independent of p53, such as MAPK or AMPK. We compared our estimated probability to the experimental data and found reasonable agreement. Our findings indicate that miR-34a or miR-16 may control senescence, autophagy, apoptosis, and the functional G1/S checkpoint. Additionally, miR-449a can regulate just senescence and apoptosis on an individual basis. MiR-449a can coordinate autophagy in HeLa cells in a synergistic manner with miR-16 and/or miR-34a.
Short-interval fires increasing in the Alaskan boreal forest as fire self-regulation decays across forest types
Authors: Buma B. , Hayes K. , Weiss S. , Lucash M. 
Published: March 2022

AbstractClimate drivers are increasingly creating conditions conducive to higher frequency fires. In the coniferous boreal forest, the world’s largest terrestrial biome, fires are historically common but relatively infrequent. Post-fire, regenerating forests are generally resistant to burning (strong fire self-regulation), favoring millennial coniferous resilience. However, short intervals between fires are associated with rapid, threshold-like losses of resilience and changes to broadleaf or shrub communities, impacting carbon content, habitat, and other ecosystem services. Fires burning the same location 2 + times comprise approximately 4% of all Alaskan boreal fire events since 1984, and the fraction of short-interval events (< 20 years between fires) is increasing with time. While there is strong resistance to burning for the first decade after a fire, from 10 to 20 years post-fire resistance appears to decline. Reburning is biased towards coniferous forests and in areas with seasonally variable precipitation, and that proportion appears to be increasing with time, suggesting continued forest shifts as changing climatic drivers overwhelm the resistance of early postfire landscapes to reburning. As area burned in large fire years of ~ 15 years ago begin to mature, there is potential for more widespread shifts, which should be evaluated closely to understand finer grained patterns within this regional trend.
Conditional loss of IKKα in Osterix + cells has no effect on bone but leads to age-related loss of peripheral fat
Authors: Davis Jennifer L. , Pokhrel Nitin Kumar , Cox Linda , Rohatgi Nidhi , Faccio Roberta , Veis Deborah J. 
Published: March 2022

AbstractNF-κB has been reported to both promote and inhibit bone formation. To explore its role in osteolineage cells, we conditionally deleted IKKα, an upstream kinase required for non-canonical NF-κB activation, using Osterix (Osx)-Cre. Surprisingly, we found no effect on either cancellous or cortical bone, even following mechanical loading. However, we noted that IKKα conditional knockout (cKO) mice began to lose body weight after 6 months of age with severe reductions in fat mass and lower adipocyte size in geriatric animals. qPCR analysis of adipogenic markers in fat pads of cKO mice indicated no difference in early differentiation, but instead markedly lower leptin with age. We challenged young mice with a high fat diet finding that cKO mice gained less weight and showed improved glucose metabolism. Low levels of recombination at the IKKα locus were detected in fat pads isolated from old cKO mice. To determine whether recombination occurs in adipocytes, we examined fat pads in Osx-Cre;TdT reporter mice; these showed increasing Osx-Cre-mediated expression in peripheral adipocytes from 6 weeks to 18 months. Since Osx-Cre drives recombination in peripheral adipocytes with age, we conclude that fat loss in cKO mice is most likely caused by progressive deficits of IKKα in adipocytes.
Cold sensitivity, functional disability and predicting factors after a repaired digital nerve injury
Authors: Frostadottir Drifa , Ekman Linnéa , Zimmerman Malin , Andersson Stina , Arner Marianne , Brogren Elisabeth , Dahlin Lars B. 
Published: March 2022

AbstractTo investigate self-reported cold sensitivity and functional disability after a repaired digital nerve injury. We identified 3204 individuals operated with digital nerve repair in the Swedish national quality registry for hand surgery (HAKIR). Patient-reported symptoms, including cold sensitivity and perceived disability, were examined using two questionnaires (HQ-8 and QuickDASH), three and 12 months postoperatively. Patients with diabetes (n = 48; 3%) were identified in the Swedish National Diabetes Register (NDR). Cold sensitivity (scored 0–100) was the most prominent symptom among 1553 included individuals (998 men, 555 women; median age 41 [IQR 27–54] years). In the regression analysis, flexor tendon injury, hand fracture and injury to multiple structures predicted worsened cold sensitivity (6.9, 15.5 and 25.0 points; p = 0.005, 0.046 and < 0.001) at 12 months. Individuals with moderate (30–70) and severe (> 70) cold sensitivity had higher QuickDASH scores at three and 12 months postoperatively than individuals with mild cold sensitivity (6.0 and 5.5; 19.8 and 21.0 points; p = 0.001). Flexor tendon injury, injuries to multiple structures and diabetes had significant effect on QuickDASH scores at three, but not at 12, months postoperatively. Cold sensitivity is common after a digital nerve repair and impacts self-reported disability. A concomitant injury, particularly multiple injuries, predicts postoperative cold sensitivity.