bluuebunny/crossref_metadata_2025 huggingface dataset:
Parents’ perspectives on a smartwatch intervention for children with ADHD: Rapid deployment and feasibility evaluation of a pilot intervention to support distance learning during COVID-19
Authors: Cibrian Franceli L. , Monteiro Elissa , Ankrah Elizabeth , Beltran Jesus A. , Tavakoulnia Arya , Schuck Sabrina E. B. , Hayes Gillian R. , Lakes Kimberley D.
Published: October 2021

Distance learning in response to the COVID-19 pandemic presented tremendous challenges for many families. Parents were expected to support children’s learning, often while also working from home. Students with Attention Deficit Hyperactivity Disorder (ADHD) are at particularly high risk for setbacks due to difficulties with organization and increased risk of not participating in scheduled online learning. This paper explores how smartwatch technology, including timing notifications, can support children with ADHD during distance learning due to COVID-19. We implemented a 6-week pilot study of a Digital Health Intervention (DHI) with ten families. The DHI included a smartwatch and a smartphone. Google calendars were synchronized across devices to guide children through daily schedules. After the sixth week, we conducted parent interviews to understand the use of smartwatches and the impact on children’s functioning, and we collected physiological data directly from the smartwatch. Our results demonstrated that children successfully adopted the use of the smartwatch, and parents believed the intervention was helpful, especially in supporting the development of organizational skills in their children. Overall, we illustrate how even simple DHIs, such as using smartwatches to promote daily organization and task completion, have the potential to support children and families, particularly during periods of distance learning. We include practical suggestions to help professionals teach children with ADHD to use smartwatches to improve organization and task completion, especially as it applies to supporting remote instruction.
A polyketide synthase gene cluster required for pathogenicity of Pseudocercospora fijiensis on banana
Authors: Thomas Elizabeth , Noar Roslyn D. , Daub Margaret E.
Published: October 2021

Pseudocercospora fijiensis is the causal agent of the highly destructive black Sigatoka disease of banana. Previous research has focused on polyketide synthase gene clusters in the fungus, given the importance of polyketide pathways in related plant pathogenic fungi. A time course study of expression of the previously identified PKS7-1, PKS8-2, and PKS10-2 gene clusters showed high expression of all three PKS genes and the associated clustered genes in infected banana plants from 2 weeks post-inoculation through 9 weeks. Engineered transformants silenced for PKS8-2 and PKS10-2 were developed and tested for pathogenicity. Inoculation of banana plants with silencing transformants for PKS10-2 showed significant reduction in disease symptoms and severity that correlated with the degree of silencing in the conidia used for inoculation, supporting a critical role for PKS10-2 in disease development. Unlike PKS10-2, a clear role for PKS8-2 could not be determined. Two of four PKS8-2 silencing transformants showed reduced disease development, but disease did not correlate with the degree of PKS8-2 silencing in the transformants. Overall, the degree of silencing obtained for the PKS8-2 transformants was less than that obtained for the PKS10-2 transformants, which may have limited the utility of the silencing strategy to identify a role for PKS8-2 in disease. Orthologous PKS10-2 clusters had previously been identified in the related banana pathogens Pseudocercospora musae and Pseudocercospora eumusae. Genome analysis identified orthologous gene clusters to that of PKS10-2 in the newly sequenced genomes of Pseudocercospora fuligena and Pseudocercospora cruenta, pathogens of tomato and cowpea, respectively. Our results support an important role for the PKS10-2 polyketide pathway in pathogenicity of Pseudocercospora fijiensis, and suggest a possible role for this pathway in disease development by other Pseudocercospora species.
UMP-CMP kinase 2 gene expression in macrophages is dependent on the IRF3-IFNAR signaling axis
Authors: Kim Hera , Subbannayya Yashwanth , Humphries Fiachra , Skejsol Astrid , Pinto Sneha M. , Giambelluca Miriam , Espevik Terje , Fitzgerald Katherine A. , Kandasamy Richard K.
Published: October 2021

Toll-like receptors (TLRs) are highly-conserved pattern recognition receptors that mediate innate immune responses to invading pathogens and endogenous danger signals released from damaged and dying cells. Activation of TLRs trigger downstream signaling cascades, that culminate in the activation of interferon regulatory factors (IRFs), which subsequently leads to type I interferon (IFN) response. In the current study, we sought to expand the scope of gene expression changes in THP1-derived macrophages upon TLR4 activation and to identify interferon-stimulated genes. RNA-seq analysis led to the identification of several known and novel differentially expressed genes, including CMPK2, particularly in association with type I IFN signaling. We performed an in-depth characterization of CMPK2 expression, a nucleoside monophosphate kinase that supplies intracellular UTP/CTP for nucleic acid synthesis in response to type I IFN signaling in macrophages. CMPK2 was significantly induced at both RNA and protein levels upon stimulation with TLR4 ligand—LPS and TLR3 ligand—Poly (I:C). Confocal microscopy and subcellular fractionation indicated CMPK2 localization in both cytoplasm and mitochondria of THP-1 macrophages. Furthermore, neutralizing antibody-based inhibition of IFNAR receptor in THP-1 cells and BMDMs derived from IFNAR KO and IRF3 KO knockout mice further revealed that CMPK2 expression is dependent on LPS/Poly (I:C) mediated IRF3- type I interferon signaling. In summary, our findings suggest that CMPK2 is a potential interferon-stimulated gene in THP-1 macrophages and that CMPK2 may facilitate IRF3- type I IFN-dependent anti-bacterial and anti-viral roles.
Regional distribution of computed tomography attenuation across the lumbar endplate
Authors: Segami Kazuyuki , Espinoza Orías Alejandro A. , Miyamoto Hiroe , Kanzaki Koji , An Howard S. , Inoue Nozomu
Published: October 2021

The vertebral endplate forms a structural boundary between intervertebral disc and the trabecular bone of the vertebral body. As a mechanical interface between the stiff bone and resilient disc, the endplate is the weakest portion of the vertebral-disc complex and is predisposed to mechanical failure. However, the literature concerning the bone mineral density (BMD) distribution within the spinal endplate is comparatively sparse. The objective of this study is to investigate the three-dimensional (3D) distribution of computed tomography (CT) attenuation across the lumbosacral endplate measured in Hounsfield Units (HU). A total of 308 endplates from 28 cadaveric fresh-frozen lumbosacral spines were used in this study. Each spine was CT-scanned and the resulting DICOM data was used to obtain HU values of the bone endplate. Each individual endplate surface was subdivided into five clinically-relevant topographic zones. Attenuation was analyzed by spinal levels, sites (superior or inferior endplate) and endplate region. The highest HU values were found at the S1 endplate. Comparisons between the superior and inferior endplates showed the HU values in inferior endplates were significantly higher than those in the superior endplates within the same vertebra and the HU values in endplates cranial to the disc were significantly higher than those in the endplates caudal to the disc within the same disc. Attenuation in the peripheral region was significantly higher than in the central region by 32.5%. Regional comparison within the peripheral region showed the HU values in the posterior region were significantly higher than those in the anterior region and the HU values in the left region were significantly higher than those in the right region. This study provided detailed data on the regional HU distribution across the lumbosacral endplate, which can be useful to understand causes of some endplate lesions, such as fracture, and also to design interbody instrumentation.
Struggles and strategies in anaerobic and aerobic cycling tests: A mixed-method approach with a focus on tailored self-regulation strategies
Authors: Hirsch Anna , Bieleke Maik , Bertschinger Raphael , Schüler Julia , Wolff Wanja
Published: October 2021

Endurance sports pose a plethora of mental demands that exercisers have to deal with. Unfortunately, investigations of exercise-specific demands and strategies to deal with them are insufficiently researched, leading to a gap in knowledge about athletic requirements and strategies used to deal with them. Here, we investigated which obstacles exercisers experience during an anaerobic (Wingate test) and an aerobic cycling test (incremental exercise test), as well as the strategies they considered helpful for dealing with these obstacles (qualitative analysis). In addition, we examined whether thinking of these obstacles and strategies in terms of if-then plans (or implementation intentions; i.e., “If I encounter obstacle O, then I will apply strategy S!”) improves performance over merely setting performance goals (i.e., goal intentions; quantitative analysis). N = 59 participants (age: M = 23.9 ± 6.5 years) performed both tests twice in a 2-within (Experimental session: 1 vs. 2) × 2-between (Condition: goal vs. implementation intention) design. Exercisers’ obstacles and strategies were assessed using structured interviews in Session 1 and subjected to thematic analysis. In both tests, feelings of exertion were the most frequently stated obstacle. Motivation to do well, self-encouragement, and focus on the body and on cycling were frequently stated strategies in both tests. There were also test-specific obstacles, such as boredom reported in the aerobic test. For session 2, the obstacles and strategies elicited in Session 1 were used to specify if-then plans. Bayesian mixed-factor ANOVA suggests, however, that if-then plans did not help exercisers to improve their performance. These findings shed novel light into the mental processes accompanying endurance exercise and the limits they pose on performance.
Expression analysis of p16 and TOP2A protein biomarkers in cervical cancer lesions and their correlation with clinico-histopathological characteristics in a referral hospital, Tanzania
Authors: Zuberi Zavuga , Mremi Alex , Chilongola Jaffu O. , Semango George , Sauli Elingarami
Published: October 2021

Introduction

Biomarkers yield important information for early diagnosis of cervical cancer. However, they are rarely applied for prognosis of cervical cancer in Tanzania, where visual inspection assay with acetic acid or Lugol’s iodine and Pap test are being used as the standard screening/ diagnostic methods.

Methods

This was a retrospective hospital-based cross-sectional study that was conducted to assess cyclin-dependent kinase inhibitor (p16) and topoisomerase II-alpha (TOP2A) proteins expression among women seeking cervical cancer care at Kilimanjaro Christian Medical Centre, Tanzania between May 1, 2017 and May 10, 2018. Immunohistochemistry technique was used to detect the expressions of p16 and TOP2A proteins from the retrieved formalin-fixed and paraffin-embedded (FFPE) cervical biopsies.

Results

A total of 145 patients, with a mean age of 52.1 ± 12.9 years, were included in this study. Upon immunohistochemistry staining, 103 (71.0%) and 90 (62.1%) were p16 and TOP2A positive respectively. There was a strong association between histopathological class and p16/TOP2A expression levels (Fisher’s exact test, p<0.001). Moreover, there was a strong positive correlation between p16/TOP2A and cancerous cervical lesions (Spearman’s rank correlation coefficients = 0.833 and 0.687, p = 0.006 and 0.005, respectively). The age-adjusted odds ratio for predicting cervical cancer lesions were independently significant for p16/TOP2A biomarkers in FFPE cervical tissues [p16: OR = 1.142 (95% CI: 1.059–1.232, p<0.001) and TOP2A: OR = 1.046 (95% CI: 1.008–1.085, p = 0.015)]. Importantly, the diagnostic performance of p16 was higher than that of TOP2A in the diagnosis of cancerous lesions from non-cancerous cervical lesions (sensitivity: 97.2% versus 77.6%, accuracy: 92.8% versus 87.8%, respectively).

Conclusion

Our study has highlighted that over-expression of TOP2A is related to the grade of cervical intraepithelial neoplasia but does not predict prognosis in cervical cancer. Similarly, expression of p16 is related to degree of histological dysplasia and malignancy, suggesting its prognostic and predictive value in the management of cervical cancers. Further bigger studies are needed to validate their applications in the early diagnosis of cervical cancer.
The DNA co-vaccination using Sm antigen and IL-10 as prophylactic experimental therapy ameliorates nephritis in a model of lupus induced by pristane
Authors: Martín-Márquez Beatriz Teresita , Satoh Minoru , Hernández-Pando Rogelio , Martínez-García Erika Aurora , Petri Marcelo Heron , Sandoval-García Flavio , Pizano-Martinez Oscar , García-Iglesias Trinidad , Corona-Meraz Fernanda Isadora , Vázquez-Del Mercado Monica
Published: October 2021

Introduction

Systemic lupus erythematosus (SLE) is an autoimmune disease characterized by the production of autoantibodies such as anti-Sm. Studies in patients with SLE and murine models of lupus reveal that the most critical anti-Sm autoantibodies are predominantly direct against D1(83–119), D2, and B´/B epitopes.

Objectives

The present study aimed to analyze the induction of antigen-specific tolerance after prophylactic immunization with a DNA vaccine encoding the epitopes: D183-119, D2, B´/B, and B´/BCOOH in co-vaccination with IFN-γ or IL-10 in a murine model of lupus induced by pristane.

Material and methods

To obtain endotoxin-free DNA vaccines, direct cloning techniques using pcDNA were performed: D183-119, D2, B´/B, B´/BCOOH, IFN-γ, or IL-10. Lupus was induced by 0.5 mL of pristane via intraperitoneal in BALB/c female mice. Immunoprecipitation with K562 cells was metabolically labeled with 35S and ELISA to detect serum antibodies or mice IgG1, IgG2a isotypes. ELISA determined IL-10 and IFN-γ from splenocytes supernatants. Proteinuria was assessed monthly, and lupus nephritis was evaluated by immunofluorescence, and electron microscopy.

Results

The prophylactic co-vaccination with D2/IL-10 reduced the expression of kidney damage observed by electron microscopy, direct immunofluorescence, and H & E, along with reduced level of anti-nRNP/Sm antibodies (P = 0.048).

Conclusion

The prophylactic co-vaccination of IL-10 with D2 in pristane-induced lupus ameliorates the renal damage maybe by acting as prophylactic DNA tolerizing therapy.
Assessing the potential role of copper and cobalt in stimulating angiogenesis for tissue regeneration
Authors: Bosch-Rué Elia , Díez-Tercero Leire , Rodríguez-González Raquel , Bosch-Canals Begoña María , Perez Roman A.
Published: October 2021

The use of copper (Cu2+) and cobalt (Co2+) has been described to stimulate blood vessel formation, a key process for the success of tissue regeneration. However, understanding how different concentrations of these ions affect cellular response is important to design scaffolds for their delivery to better fine tune the angiogenic response. On the one hand, gene expression analysis and the assessment of tubular formation structures with human umbilical vein endothelial cells (HUVEC) revealed that high concentrations (10μM) of Cu2+in early times and lower concentrations (0.1 and 1μM) at later times (day 7) enhanced angiogenic response. On the other hand, higher concentrations (25μM) of Co2+during all time course increased the angiogenic gene expression and 0.5, 5 and 25μM enhanced the ability to form tubular structures. To further explore synergistic effects combining both ions, the non-toxic concentrations were used simultaneously, although results showed an increased cell toxicity and no improvement of angiogenic response. These results provide useful information for the design of Cu2+or Co2+delivery scaffolds in order to release the appropriate concentration during time course for blood vessel stimulation.
Development of EST-SSR markers based on transcriptome and its validation in ginger (Zingiber officinale Rosc.)
Authors: Vidya Venugopal , Prasath Duraisamy , Snigdha Mohandas , Gobu Ramasamy , Sona Charles , Maiti Chandan Suravi
Published: October 2021

Ginger (Zingiber officinale Rosc.) is an economically important and valuable spice crop around the world. It is used as food, spice, condiment, and medicine. A considerable extent of genetic diversity in ginger occurs in the Western Ghats and North-Eastern India. However, genetic diversity studies at the molecular level in ginger is limited due to limited availability of genetic and genomic information. In the present study, for the first time, we have identified and validated expressed sequence tag (EST)-simple sequence repeat (SSR) markers from ginger. We obtained 16,790 EST-SSR loci from 78987 unigenes, and 4597 SSR loci in the predicted 76929 coding sequences from RNA-Seq assembled contigs of ginger through Illumina paired-end sequencing. Gene ontology results indicate that the unigenes with SSR loci participate in various biological processes such as metabolism, growth, and development in ginger. One hundred and twenty-five primer pairs were designed from unigenes and coding sequences. These primers were tested for PCR optimization, characterization, and amplification and identified 12 novel EST-SSR markers. Twelve flanking polymorphic EST-SSR primers were validated using 48 ginger genotypes representing North-Eastern India and different eco-geographical adaptations by PCR amplification and allele sizing through capillary electrophoresis. Twelve EST-SSR primers generated a total of 111 alleles with an average of 9.25 alleles per locus and allele sizes ranging between 115-189bp. This study implies that the SSR markers designed from transcriptome sequences provides ample EST-SSR resources, which are helpful for genetic diversity analysis of Zingiberaceae species and molecular verification of ginger genotypes.
Fossil birds from the Roof of the World: The first avian fauna from High Asia and its implications for late Quaternary environments in Eastern Pamir
Authors: Zelenkov Nikita , Sayfulloev Nuritdin , Shnaider Svetlana V.
Published: October 2021

The Eastern Pamir (eastern Tajikistan) is a high-mountain plateau with elevations up to 7000 m, currently characterized by extremely severe environmental conditions and harboring a specialized montane fauna, which in part is shared with that of the Tibetan Plateau. The modern bird fauna of High Asia comprises a diversity of both ancient and recently diverged endemics, and thus is of general importance for historical biogeography and understanding the origin of modern high mountain ecosystems. However, the past history of the Central Asian highland avian communities remains practically unknown, as no fossil bird assemblages from high elevation areas were previously reported. In particular, it remains completely unexplored how birds responded to late Quaternary climatic fluctuations. Here we report the first fossil bird fauna from the High Asia and the first fossil birds from Tajikistan. An assemblage from the late Pleistocene through middle Holocene of Istykskaya cave (4060 m) in Eastern Pamir surprisingly comprises a remarkable diversity of waterbirds, including a few species that are completely absent from High Asia today and that were not reported globally from such high altitudes. The diversity of waterbirds incudes taxa of various ecological preferences (shorebirds, underwater and surface feeders, both zoophagous and phytophagous), strongly indicating the presence of a productive waterbody at the vicinity of the site in the past. These observations correspond to recent palaeoclimatic data, implying increased water availability in this region, currently occupied by high mountain semi-deserts. Our findings for the first time show that milder environmental conditions of late Quaternary attracted lowland species to the Central Asian highland wetlands. The reported assemblage yet contains several characteristic highland taxa, indicating a long-time persistence of some Central Asian montane faunistic elements. In particular, it includes the Tibetan Sandgrouse (Syrrhaptes tibetanus), a highly-specialized montane dweller, which is for the first time found in the fossil record.
Effects of statins and steroids on coronary artery disease and stroke in patients with interstitial lung disease and pulmonary fibrosis: A general population study
Authors: Yeh Jun-Jun , Lin Cheng-Li , Hsu Nai-Hua , Kao Chia-Hung
Published: October 2021

Purpose

To determine the effects of statins and steroids on the risk of coronary artery disease (CAD) and stroke in patients with interstitial lung disease and pulmonary fibrosis (ILD-PF).

Methods

We retrospectively enrolled patients with ILD-PF who were using statins (statin cohort, N = 11,567) and not using statins (nonstatin cohort, N = 26,159). Cox proportional regression was performed to analyze the cumulative incidence of CAD and stroke. Adjusted hazard ratios (aHRs) and 95% confidence intervals (CIs) of CAD and stroke were determined after sex, age, and comorbidities, as well as the use of inhaler corticosteroids (ICSs), oral steroids (OSs), and statins, were controlled for.

Results

Compared with those of patients without statin use, the aHRs (95% CIs) of patients with statin use for CAD and ischemic stroke were 0.72 (0.65–0.79) and 0.52 (0.38–0.72), respectively. For patients taking single-use statins but not ICSs/OSs, the aHRs (95% CIs) for CAD and ischemic stroke were 0.72 (0.65–0.79)/0.69 (0.61–0.79) and 0.54 (0.39–0.74)/0.50 (0.32–0.79), respectively. For patients using ICSs/OSs, the aHRs (95% CIs) for CAD and ischemic stroke were 0.71 (0.42–1.18)/0.74 (0.64–0.85) and 0.23 (0.03–1.59)/0.54 (0.35–0.85), respectively.

Conclusions

The findings demonstrate that statin use, either alone or in combination with OS use, plays an auxiliary role in the management of CAD and ischemic stroke in patients with ILD-PF.
B cell activating factor (BAFF) from neutrophils and dendritic cells is required for protective B cell responses against Salmonella typhimurium infection
Authors: Kuley Runa , Draves Kevin E. , Fuller Deborah H. , Giltiay Natalia V. , Clark Edward A. , Giordano Daniela
Published: October 2021

Mice lacking B cells are more susceptible to S. typhimurium infection. How B cells contribute to protective immunity against Salmonella and what signals drive their activation are still unclear. Neutrophils (Nphs), monocytes (MOs), and dendritic cells (DCs) are involved in early immune responses to control the initial replication of S. typhimurium. These cells can produce B cell activating factor (BAFF) required for mature B cell survival and may help regulate B cell responses during Salmonella infection. Using BAFF reporter mice (BAFF-RFP+/-), we discovered that an i.p. infection with a virulent strain of S. typhimurium increased BAFF expression in splenic conventional DCs (cDC) and inflammatory Ly6Chi MOs/DCs four days post-infection. S. typhimurium infection induced the release of BAFF from Nphs, a decrease of BAFF-RFP expression and expansion of BAFF-RFP+ Nphs in the spleen and peritoneal cavity. After S. typhimurium infection, serum BAFF levels and immature and mature B cell subsets and plasma cells increased substantially. Conditional knockout (cKO) mice lacking BAFF in either Nphs or cDCs compared to control Bafffl/fl mice had reduced up-regulation of systemic BAFF levels and reduced expansion of mature and germinal center B cell subsets after infection. Importantly, the cKO mice lacking BAFF from either Nphs or cDCs had impaired induction of Salmonella-specific IgM Abs, and were more susceptible to S. typhimurium infection. Thus, Nphs and cDCs are major cellular sources of BAFF driving B cell responses, required for mounting optimal protective immunity against lethal Salmonella infection.
Interactive effects of light, CO2 and temperature on growth and resource partitioning by the mixotrophic dinoflagellate, Karlodinium veneficum
Authors: Coyne Kathryn J. , Salvitti Lauren R. , Mangum Alicia M. , Ozbay Gulnihal , Main Christopher R. , Kouhanestani Zohreh M. , Warner Mark E.
Published: October 2021

There is little information on the impacts of climate change on resource partitioning for mixotrophic phytoplankton. Here, we investigated the hypothesis that light interacts with temperature and CO2 to affect changes in growth and cellular carbon and nitrogen content of the mixotrophic dinoflagellate, Karlodinium veneficum, with increasing cellular carbon and nitrogen content under low light conditions and increased growth under high light conditions. Using a multifactorial design, the interactive effects of light, temperature and CO2 were investigated on K. veneficum at ambient temperature and CO2 levels (25°C, 375 ppm), high temperature (30°C, 375 ppm CO2), high CO2 (30°C, 750 ppm CO2), or a combination of both high temperature and CO2 (30°C, 750 ppm CO2) at low light intensities (LL: 70 μmol photons m-2 s-2) and light-saturated conditions (HL: 140 μmol photons m-2 s-2). Results revealed significant interactions between light and temperature for all parameters. Growth rates were not significantly different among LL treatments, but increased significantly with temperature or a combination of elevated temperature and CO2 under HL compared to ambient conditions. Particulate carbon and nitrogen content increased in response to temperature or a combination of elevated temperature and CO2 under LL conditions, but significantly decreased in HL cultures exposed to elevated temperature and/or CO2 compared to ambient conditions at HL. Significant increases in C:N ratios were observed only in the combined treatment under LL, suggesting a synergistic effect of temperature and CO2 on carbon assimilation, while increases in C:N under HL were driven only by an increase in CO2. Results indicate light-driven variations in growth and nutrient acquisition strategies for K. veneficum that may benefit this species under anticipated climate change conditions (elevated light, temperature and pCO2) while also affecting trophic transfer efficiency during blooms of this species.
Multidisciplinary aerodigestive program at a children’s hospital: A protocol for a prospective observational study
Authors: Park Mireu , Kim Seung , Kim Eunyoung , Kim Ga Eun , Jung Jae Hwa , Kim Soo Yeon , Kim Min Jung , Kim Da Hee , Park Sowon , Ho In Geol , Kim Seung Ki , Hwang Sangwon , Shin Kyeong Hun , Lee Hosun , Lee Bobae , Lee Hyeyeon , Park Minhwa , Koh Hong , Sohn Myung Hyun , Rha Dong-Wook , Kim Kyung Won
Published: October 2021

Background

Children with complex chronic multisystemic diseases frequently require care from multiple pediatric subspecialists. The aerodigestive program is a multidisciplinary program that diagnoses and treats pediatric patients with complex multi-systematic problems affecting airway, breathing, feeding, swallowing, or growth. The aim of this study is to present the protocol of the aerodigestive program of a children’s hospital.

Methods and design

This study is a prospective study to evaluate and compare the overall improvement of patients’ objective and subjective conditions before and after the AeroDigestive Team (ADT) program. Among children from 1 month to 18 years of age, patients with complex problems of the airway, breathing, feeding, swallowing, or growth meeting at least two parameters of the inclusion criteria were enrolled. The overall process included referral based on the inclusion criteria, enrollment of ADT program with informed consents, interview and questionnaire for assessing patients’ medical condition, prescheduling appointment, multi-specialists’ evaluation, monthly team meetings, wrap-up discussion with the patients and family, therapeutic intervention, and follow-up at 6 months with the assessment of outcome measures. The outcome was evaluated objectively and subjectively. The objective outcome measure was divided into surgical or medical intervention, assessment of changes in medical condition, and follow-up study. Both caregiver interviews and questionnaires using a scoring system were used as subjective outcome measures before and after the ADT program. Children were scheduled to be followed-up at 6 months after the interventions or ADT meeting.

Discussion

The aerodigestive program is expected to provide comprehensive and multidisciplinary management of children with complex airway and digestive tract disorders.
Low-energy Ar+ and N+ ion beam induced chemical vapor deposition using hexamethyldisilazane for the formation of nitrogen containing SiC and carbon containing SiN films
Authors: Yoshimura Satoru , Sugimoto Satoshi , Takeuchi Takae , Murai Kensuke , Kiuchi Masato
Published: October 2021

We proposed an experimental methodology for producing films on substrates with an ion beam induced chemical vapor deposition (IBICVD) method using hexamethyldisilazane (HMDS) as a source material. In this study, both HMDS and ion beam were simultaneously injected onto a Si substrate. We selected Ar+ and N+ as the ion beam. The energy of the ion beam was 101 eV. Temperature of the Si substrate was set at 540 °C. After the experiments, films were found to be deposited on the substrates. The films were then analyzed by Fourier transform infrared (FTIR) spectroscopy, stylus profilometer, X-ray diffraction, atomic force microscopy, and X-ray photoelectron spectroscopy (XPS). The FTIR and XPS results showed that silicon carbide films containing small amount of nitrogen were formed when Ar+ ions were injected in conjunction with HMDS. On the other hand, in the cases of N+ ion beam irradiation, silicon nitride films involving small amount of carbon were formed. It was noted that no film deposition was observed when HMDS alone was supplied to the substrates without any ion beam injections.
Automatic Identification of Papillary Projections in Indeterminate Biliary Strictures Using Digital Single-Operator Cholangioscopy
Authors: Ribeiro Tiago , Saraiva Miguel Mascarenhas , Afonso João , Ferreira João P. S. , Boas Filipe Vilas , Parente Marco P. L. , Jorge Renato N. , Pereira Pedro , Macedo Guilherme
Published: October 2021

INTRODUCTION:

Characterization of biliary strictures is challenging. Papillary projections (PP) are often reported in biliary strictures with high malignancy potential during digital single-operator cholangioscopy. In recent years, the development of artificial intelligence (AI) algorithms for application to endoscopic practice has been intensely studied. We aimed to develop an AI algorithm for automatic detection of PP in digital single-operator cholangioscopy images.

METHODS:

A convolutional neural network (CNN) was developed. Each frame was evaluated for the presence of PP. The CNN's performance was measured by the area under the curve, sensitivity, specificity, and positive and negative predictive values.

RESULTS:

A total of 3,920 images from 85 patients were included. Our model had a sensitivity and specificity 99.7% and 97.1%, respectively. The area under the curve was 1.00.

DISCUSSION:

Our CNN was able to detect PP with high accuracy. Future development of AI tools may optimize the macroscopic characterization of biliary strictures.
Flow-loss
Authors: Negi Parimarjan , Marcus Ryan , Kipf Andreas , Mao Hongzi , Tatbul Nesime , Kraska Tim , Alizadeh Mohammad
Published: October 2021

Recently there has been significant interest in using machine learning to improve the accuracy of cardinality estimation. This work has focused on improving average estimation error, but not all estimates matter equally for downstream tasks like query optimization. Since learned models inevitably make mistakes, the goal should be to improve the estimates that make the biggest difference to an optimizer. We introduce a new loss function, Flow-Loss, for learning cardinality estimation models. Flow-Loss approximates the optimizer's cost model and search algorithm with analytical functions, which it uses to optimize explicitly for better query plans. At the heart of Flow-Loss is a reduction of query optimization to a flow routing problem on a certain "plan graph", in which different paths correspond to different query plans. To evaluate our approach, we introduce the Cardinality Estimation Benchmark (CEB) which contains the ground truth cardinalities for sub-plans of over 16
K
queries from 21 templates with up to 15 joins. We show that across different architectures and databases, a model trained with Flow-Loss improves the plan costs and query runtimes despite having worse estimation accuracy than a model trained with Q-Error. When the test set queries closely match the training queries, models trained with both loss functions perform well. However, the Q-Error-trained model degrades significantly when evaluated on slightly different queries (e.g., similar but unseen query templates), while the Flow-Loss-trained model generalizes better to such situations, achieving 4 -- 8× better 99th percentile runtimes on unseen templates with the same model architecture and training data.
On querying historical k-cores
Authors: Yu Michael , Wen Dong , Qin Lu , Zhang Ying , Zhang Wenjie , Lin Xuemin
Published: October 2021

Many real-world relationships between entities can be modeled as temporal graphs, where each edge is associated with a timestamp or a time interval representing its occurrence.
K
-core is a fundamental model used to capture cohesive subgraphs in a simple graph and have drawn much research attention over the last decade. Despite widespread research, none of the existing works support the efficient querying of historical
k
-cores in temporal graphs. In this paper, given an integer
k
and a time window, we study the problem of computing all
k
-cores in the graph snapshot over the time window. We propose an index-based solution and several pruning strategies to reduce the index size. We also design a novel algorithm to construct this index, whose running time is linear to the final index size. Lastly, we conducted extensive experiments on several real-world temporal graphs to show the high effectiveness of our index-based solution.
Frequency estimation under local differential privacy
Authors: Cormode Graham , Maddock Samuel , Maple Carsten
Published: October 2021

Private collection of statistics from a large distributed population is an important problem, and has led to large scale deployments from several leading technology companies. The dominant approach requires each user to randomly perturb their input, leading to guarantees in the local differential privacy model. In this paper, we place the various approaches that have been suggested into a common framework, and perform an extensive series of experiments to understand the tradeoffs between different implementation choices. Our conclusion is that for the core problems of frequency estimation and heavy hitter identification, careful choice of algorithms can lead to very effective solutions that scale to millions of users.
Large graph convolutional network training with GPU-oriented data communication architecture
Authors: Min Seung Won , Wu Kun , Huang Sitao , Hidayetoğlu Mert , Xiong Jinjun , Ebrahimi Eiman , Chen Deming , Hwu Wen-mei
Published: October 2021

Graph Convolutional Networks (GCNs) are increasingly adopted in large-scale graph-based recommender systems. Training GCN requires the minibatch generator traversing graphs and sampling the sparsely located neighboring nodes to obtain their features. Since real-world graphs often exceed the capacity of GPU memory, current GCN training systems keep the feature table in host memory and rely on the CPU to collect sparse features before sending them to the GPUs. This approach, however, puts tremendous pressure on host memory bandwidth and the CPU. This is because the CPU needs to (1) read sparse features from memory, (2) write features into memory as a dense format, and (3) transfer the features from memory to the GPUs.

In this work, we propose a novel GPU-oriented data communication approach for GCN training, where GPU threads directly access sparse features in host memory through zero-copy accesses without much CPU help. By removing the CPU gathering stage, our method significantly reduces the consumption of the host resources and data access latency. We further present two important techniques to achieve high host memory access efficiency by the GPU: (1) automatic data access address alignment to maximize PCIe packet efficiency, and (2) asynchronous zero-copy access and kernel execution to fully overlap data transfer with training. We incorporate our method into PyTorch and evaluate its effectiveness using several graphs with sizes up to 111 million nodes and 1.6 billion edges. In a multi-GPU training setup, our method is 65--92% faster than the conventional data transfer method, and can even match the performance of all-in-GPU-memory training for some graphs that fit in GPU memory.
Constructing and analyzing the LSM compaction design space
Authors: Sarkar Subhadeep , Staratzis Dimitris , Zhu Ziehen , Athanassoulis Manos
Published: October 2021

Log-structured merge (LSM) trees offer efficient ingestion by appending incoming data, and thus, are widely used as the storage layer of production NoSQL data stores. To enable competitive read performance, LSM-trees periodically re-organize data to form a tree with levels of exponentially increasing capacity, through iterative
compactions.
Compactions fundamentally influence the performance of an LSM-engine in terms of write amplification, write throughput, point and range lookup performance, space amplification, and delete performance. Hence, choosing the
appropriate compaction strategy
is crucial and, at the same time, hard as the LSM-compaction design space is vast, largely unexplored, and has not been formally defined in the literature. As a result, most LSM-based engines use a fixed compaction strategy, typically hand-picked by an engineer, which decides
how
and
when
to compact data.

In this paper, we present the design space of LSM-compactions, and evaluate state-of-the-art compaction strategies with respect to key performance metrics. Toward this goal, our first contribution is to introduce a set of four design primitives that can formally define any compaction strategy: (i) the compaction trigger, (ii) the data layout, (iii) the compaction granularity, and (iv) the data movement policy. Together, these primitives can synthesize both existing and completely new compaction strategies. Our second contribution is to experimentally analyze 10 compaction strategies. We present 12 observations and 7 high-level takeaway messages, which show how LSM systems can navigate the compaction design space.
Deep learning for blocking in entity matching
Authors: Thirumuruganathan Saravanan , Li Han , Tang Nan , Ouzzani Mourad , Govind Yash , Paulsen Derek , Fung Glenn , Doan AnHai
Published: October 2021

Entity matching (EM) finds data instances that refer to the same real-world entity. Most EM solutions perform blocking then matching. Many works have applied deep learning (DL) to matching, but far fewer works have applied DL to blocking. These blocking works are also limited in that they consider only a simple form of DL and some of them require labeled training data. In this paper, we develop the DeepBlocker framework that significantly advances the state of the art in applying DL to blocking for EM. We first define a large space of DL solutions for blocking, which contains solutions of varying complexity and subsumes most previous works. Next, we develop eight representative solutions in this space. These solutions do not require labeled training data and exploit recent advances in DL (e.g., sequence modeling, transformer, self supervision). We empirically determine which solutions perform best on what kind of datasets (structured, textual, or dirty). We show that the best solutions (among the above eight) outperform the best existing DL solution and the best existing non-DL solutions (including a state-of-the-art industrial non-DL solution), on dirty and textual data, and are comparable on structured data. Finally, we show that the combination of the best DL and non-DL solutions can perform even better, suggesting a new venue for research.
Horizon
Authors: Rezig El Kindi , Ouzzani Mourad , Aref Walid G. , Elmagarmid Ahmed K. , Mahmood Ahmed R. , Stonebraker Michael
Published: October 2021

A large class of data repair algorithms rely on integrity constraints to detect and repair errors. A well-studied class of constraints is Functional Dependencies (FDs, for short). Although there has been an increased interest in developing general data cleaning systems for a myriad of data errors, scalability has been left behind. This is because current systems assume data cleaning is performed offline and in one iteration. However, developing data science pipelines is highly iterative and requires efficient cleaning techniques to scale to millions of records in seconds/minutes, not days. In our efforts to re-think the data cleaning stack and bring it to the era of data science, we introduce
Horizon
, an end-to-end FD repair system to address two key challenges: (1) Accuracy: Most existing FD repair techniques aim to produce repairs that minimize changes to the data that may lead to incorrect combinations of attribute values (or patterns).
Horizon
leverages the interaction between the data patterns induced by the various FDs, and subsequently selects repairs that preserve the most frequent patterns found in the original data, and hence leading to a better repair accuracy. (2) Scalability: Existing data cleaning systems struggle when dealing with large-scale real-world datasets.
Horizon
features a linear-time repair algorithm that scales to millions of records, and is orders-of-magnitude faster than state-of-the-art cleaning algorithms. A benchmark of
Horizon
against state-of-the-art cleaning systems on multiple datasets and metrics shows that
Horizon
consistently outperforms existing techniques in repair quality and scalability.
Progressive compressed records
Authors: Kuchnik Michael , Amvrosiadis George , Smith Virginia
Published: October 2021

Deep learning accelerators efficiently train over vast and growing amounts of data, placing a newfound burden on commodity networks and storage devices. A common approach to conserve bandwidth involves resizing or compressing data prior to training. We introduce
Progressive Compressed Records
(PCRs), a data format that uses compression to reduce the overhead of fetching and transporting data, effectively reducing the training time required to achieve a target accuracy. PCRs deviate from previous storage formats by combining progressive compression with an efficient storage layout to view a single dataset at multiple fidelities---all without adding to the total dataset size. We implement PCRs and evaluate them on a range of datasets, training tasks, and hardware architectures. Our work shows that: (i) the amount of compression a dataset can tolerate exceeds 50% of the original encoding for many DL training tasks; (ii) it is possible to automatically and efficiently select appropriate compression levels for a given task; and (iii) PCRs enable tasks to readily access compressed data at runtime---
utilizing as little as half the training bandwidth
and thus potentially doubling training speed.
Wpływ ultradźwięków na stężenie wybranych związków bioaktywnych w naparach z mięty pieprzowej, rumianku pospolitego oraz kawy
Authors: Kowalski Radosław , Wyrostek Jakub , Kowalska Grażyna , Pankiewicz Urszula
Published: October 2021

Procesy przygotowania naparów roślinnych mogą być modyfikowane w celu otrzymania napojów charakteryzujących się bogatszym składem chemicznym i bardziej pożądanymi cechami sensorycznymi. Interesujące jest zastosowanie ultradźwięków w procesie otrzymywania naparów z różnych materiałów pochodzenia roślinnego. Celem podjętych badań była ocena wpływu sposobu przygotowania naparu na stężenie polifenoli i kofeiny. Napary z mięty pieprzowej, rumianku pospolitego oraz kawy otrzymano przy zmiennych parametrach czasowych, temperaturowych oraz poprzez parzenie tradycyjne i ze wspomaganiem ultradźwiękami. Wykazano, że czas trwania procesu parzenia oraz temperatura wody, jak też zastosowanie sonikacji wpływały na stężenie substancji czynnych w gotowych naparach. Dowiedziono, że zastosowanie sonikacji wpłynęło istotnie na zwiększenie stężenia polifenoli (o 7 ÷ 54 %) i kofeiny (o 3 ÷ 20 %) w otrzymanych naparach. Wspomaganie procesu parzenia sonikacją pozwoliło na uzyskanie wartościowych naparów zarówno z badanych ziół, jak i kawy, przy zastosowaniu wody o niższej temperaturze (70 ºC) i przy krótszym czasie parzenia. Ultradźwięki są interesującą techniką, która może znacznie poprawić jakość naparów ziołowych i kawowych pod względem zawartości substancji aktywnych. Zastosowanie ultradźwięków stwarza możliwości uzyskania naparów o podobnych stężeniach substancji aktywnych z mniejszej ilości surowca lub w krótszym czasie w stosunku do naparów parzonych w sposób tradycyjny.
Floral ontogeny and anatomy of the shrub Gaiadendron punctatum and a comparison of floral characters in the tribes Gaiadendrinae and Nuytsiae (Loranthaceae)
Authors: Suárez Hernán Darío , Robayo Camila , Marquínez Xavier , Raz Lauren
Published: October 2021

Introducction: Gaiadendron punctatum is a hemiparasitic species of Loranthaceae (Tribe Gaiadendreae) that is widely distributed in mountainous regions of Central and South America. Embryological and phylogenetic studies in the family indicate a trend towards reduction of the gynoecium and ovules, the morphology of which supports the current circumscription of Tribe Gaiadendreae (Gaiadendron and Atkinsonia). Molecular phylogenetic studies suggest that Nuytsia, Atkinsonia and Gaiadendron diverged successively, forming a grade at the base of the Loranthaceae, but support values are low. Objetive: In the present study, the floral anatomy of Gaiadendron punctatum was investigated in order to provide additional data to permit comparisons among the three basal-most genera in the Loranthaceae and reevaluate their relationships. Methods: Flowers of G. punctatum were collected at different developmental stages and serial sections were prepared and analyzed by light microscopy. Results: Inflorescence development is acropetal; the flowers are bisexual with an inferior ovary surmounted by a calyculus, a ring-shaped structure lacking vascular tissue; the ovary is comprised of seven basal locules, each with an ategmic, tenuinucellate ovule. Above the locules is a mamelon that is fused with the adjacent tissues. The androecium is comprised of seven epipetalous stamens, the anthers with fibrous endothecium dehiscence through a single longitudinal slit, releasing tricolpated pollen. Conclusions: The results of this study show that Gaiadendron and Atkinsonia share versatile, dorsifixed anthers, while Gaiadendron and Nuytsia share the same mode of anther dehiscence. On the other hand, Gaiadendron shares with members of Tribe Elytrantheae an amyliferous mamelon and an unvascularized calyculus. Combined phylogenetic analyses of morphological and molecular data are desirable to determine whether Tribe Gaiadendreae comprises a clade, a grade or if the two genera are more distantly related.