bluuebunny/crossref_metadata_2025 huggingface dataset:
A resource of single‐cell gene expression profiles in a planarian Dugesia japonica
Authors: Kashima Makoto , Komura Rei , Sato Yuki , Hashimoto Chikara , Hirata Hiromi
Published: October 2023

The freshwater planarian Dugesia japonica maintains an abundant heterogeneous cell population called neoblasts, which include adult pluripotent stem cells. Thus, it is an excellent model organism for stem cell and regeneration research. Recently, many single‐cell RNA sequencing (scRNA‐seq) databases of several model organisms, including other planarian species, have become publicly available; these are powerful and useful resources to search for gene expression in various tissues and cells. However, the only scRNA‐seq dataset for D. japonica has been limited by the number of genes detected. Herein, we collected D. japonica cells, and conducted an scRNA‐seq analysis. A novel, automatic, iterative cell clustering strategy produced a dataset of 3,404 cells, which could be classified into 63 cell types based on gene expression profiles. We introduced two examples for utilizing the scRNA‐seq dataset in this study using D. japonica. First, the dataset provided results consistent with previous studies as well as novel functionally relevant insights, that is, the expression of DjMTA and DjP2X‐A genes in neoblasts that give rise to differentiated cells. Second, we conducted an integrative analysis of the scRNA‐seq dataset and time‐course bulk RNA‐seq of irradiated animals, demonstrating that the dataset can help interpret differentially expressed genes captured via bulk RNA‐seq. Using the R package “Seurat” and GSE223927, researchers can easily access and utilize this dataset.
Design for Sharing
Authors: Madsen Thit Juul
Published: October 2023

The world around us shapes the way we think and create ideas, and the way we create ideas forms the world around us. If that's true, then we'd better learn to share.

The trend in innovation is co—collaboration, co‐living, co‐working, and co‐creating, where solutions are developed and created in new shared spaces of knowledge, insights, and ideas.
Critical Idealism as Method: Ernst Cassirer and the Philosophy of Symbolic Forms
Authors: Pedersen Esther Oluffa
Published: October 2023

To commemorate the centenary of Ernst Cassirer's Philosophy of Symbolic Forms this essay focuses on how Cassirer in the development of a distinctive philosophical method analyzed the newest development within philosophy and science. Discussing Einstein's theory of relativity and Russell's formal logic Cassirer found tools to expand the critique of reason into a critique of culture. The course of argumentation is as follows. At the outset Cassirer's outline of the idea of The Philosophy of Symbolic Forms in the 1920 book Einstein's Theory of Relativity is presented as a reaction to the increasing distance between theoretical physics and ordinary experience. The Philosophy of Symbolic Forms can be read as an answer to an inner methodological demand within critical idealism. I encircle this motif in Cassirer's comment that Plato's idealism, understood as the dianoia of thought, is reiterated in Kant's transcendental philosophy and Herman Cohen's reception of Kant. This leads to a discussion of how Cassirer breaks away from Cohen by the positive reception of Russell's symbolic logic. Finally, I present the theory of functional concepts developed by Cassirer (1910) in the book Substance and Function as a prerequisite for the conception of a plural but systematic philosophy of symbolic forms.
Mucocutaneous manifestations of chikungunya fever: an update
Authors: Vinay Keshavamurthy , Thind Anish , Mehta Hitaishi , Bishnoi Anuradha
Published: October 2023

Chikungunya is a viral disease transmitted by female Aedes mosquitoes that has been increasingly reported in many parts of the world across the geographical borders. In addition to fever and joint pain, mucocutaneous manifestations of chikungunya have been reported in 40–75% of infected patients. Dermatological manifestations of chikungunya are often under‐recognized and misdiagnosed as clinicians are not sensitized or educated regarding these. The early‐onset cutaneous manifestations of chikungunya fever, occurring within 1 month of the fever, include maculopapular rashes, vesiculobullous eruptions, Steven‐Johnson syndrome/toxic epidermal necrolysis‐like eruptions, flagellate lesions, scrotal dermatitis, oro‐genital ulcers, and exacerbation of preexisting dermatoses like psoriasis. Hyperpigmentation, lichenoid eruptions, diffuse hair fall, and exacerbation of acne usually occur as a late manifestation. Diagnosis of these mucocutaneous manifestations can be challenging as they often resemble other common dermatoses. This review article elaborates on various mucocutaneous manifestations of chikungunya fever, based on literature review and authors’ clinical experience.
Enrichment of pasta with Pangasianodon hypophthalmus protein isolate for improved sustainability, nutrition, and quality
Authors: Saini Mandeep , Singh Arashdeep , Sharma Tamanna , Surasani Vijay Kumar Reddy , Kumar Vikas , Bobade Hanuman
Published: October 2023

The study was conducted to formulate pasta with fish protein isolate (FPI) (0%, 2.5%, 5.0%, 7.5%, and 10.0%) and assessed its functional, cooking, textural, proximate, FTIR, and sensory attributes in comparison to control. Results showed that addition of FPI significantly influenced the functional properties. The protein (12.25%–20.79%) and ash (0.40%–3.21%) content increased significantly (P < 0.05), while cooking time, swelling index, and cooked weight decreased. The supplementation also increases the firmness (0.181–0.440 kg) and toughness (0.680–1.33 kg/s) of pasta. FTIR spectra show the presence of the amide I, II, and III groups, with peaks at 1636, 1542, and 1228 cm−1 with increased intensity as concentration increases. Pasta (uncooked and cooked) exhibits decrease in whiteness and increase in yellowness and redness with increased FPI levels. Pasta with 5% FPI was found acceptable by the panellists with an acceptable fish odour and highest overall acceptability scores.
Meta‐analysis: Microbial inactivation in milk using high‐pressure processing (HPP)
Authors: Kateh Su‐aibah , Purnomo Eko Hari , Hasanah Uswatun
Published: October 2023

High‐pressure processing (HPP) is a method of food preservation where food is processed under extremely high pressure, leading to the inhibition of bacteria and enzymes and ensuring that food is safe for consumption. This meta‐analysis aims to assess the inactivation effects of HPP on the microbial counts in milk. Analyses were performed using a comprehensive dataset containing 26 studies selected using specific criteria. Data were analysed using a random‐effects model and results are presented as raw mean differences (RMD) with 95% confidence intervals (95% CI). Results showed that spore‐forming bacteria had the highest resistance to HPP, followed by Gram‐positive and then Gram‐negative bacteria. A temperature range of 25–55 °C for vegetative cells and 55–90 °C for spores, a pressure of 400–600 MPa, and increasing the treatment time further enhance the efficiency of microbial inactivation. The results showed that HPP has a significant impact on inactivation of microbial counts in milk.
Sensory, cognitive perception, and consumer liking of Mexican Persian lime (Citrus latifolia Tanaka): an online survey with pictures comparing consumer types and sale contexts
Authors: Castillo‐Martínez Susana Isabel , Díaz‐José Julio , Herrera‐Corredor José Andrés , Cabal‐Prieto Adán , Leyva‐Ovalle Otto Raúl , Murguía‐González Joaquín , Dimas‐García Carlos Humberto , Prinyawiwatkul Witoon , Ramírez‐Rivera Emmanuel de Jesús
Published: October 2023

The objective of the study was to evaluate the sensory and cognitive perception of different types of consumers and contexts of sale of Mexican Persian lime using digital images and an online survey. A questionnaire in Google® Forms was responded by 293 Mexican consumers grouped into housewives, conventional consumers, and lime producers who evaluated images of Mexican Persian lime in different sale contexts: farm; producer's house; local market; supermarket and sale at packing facilities Mexican Persian lime. Sensory attributes elicited by digital images were evaluated, and emotions and memories were collected using the check‐all‐that‐apply technique. The results showed that the producers used less sensory attributes for the characterisation of the Persian lime images. Persian lime images evoked more positive emotions (free, loving, calm, adventurous, nostalgic, happy, joyful, interested, active, satisfied, and warm), positive memories (traditional food, family, nature, climate, and birthplace), and few negative emotions and memories (worried, pain, and poverty). The liking of the three groups of consumers was oriented to the contexts of sale of Mexican Persian lime in the farm and supermarket.
Effects of Gnaphalium affine extract (GAE) and sodium pyrophosphate (PP) on •OH‐induced oxidation and the structure of myofibrillar proteins
Authors: Chang Haijun , Shi Yuanwei , Xiong Jie , Bo Zhaoying , Dai Yan
Published: October 2023

This study investigated the effects of the combination of Gaphalium affine extract (GAE) and sodium pyrophosphate (PP) on the structure and oxidative stability of porcine myofibrillar proteins (MPs) under oxidative stress. The results showed that GAE was rich in total flavonoids and total phenols (37.09% and 67.50%, respectively). GAE had strong free radical scavenging ability, especially for •OH, and the semi‐inhibitory concentration (IC50) of •OH reached as high as 3.59 μg/mL, which was slightly lower than that of the standard antioxidant vitamin C (Vc). The addition of GAE and PP significantly inhibited the formation of carbonyl groups compared to the control group (P < 0.05). The presence of GAE further promoted the loss of total sulphydryl groups by 3.52% compared to the oxidative control group (P < 0.05). However, PP and PP+G significantly inhibited the loss of total sulphydryl groups (P < 0.05). The further reduction in the carbonyl content, increase in the hydrogen bond content, inhibition of the conversion of sulphydryl groups to disulphide bonds, and decrease in the cross‐linking aggregation of corresponding proteins all indicate that GAE and PP could cooperatively regulate the oxidation of MPs. An appropriate amount of PP effectively modified the damage caused by GAE on both the secondary and tertiary structure of MPs to maintain their structural stability, however, a relatively higher concentration of PP led to a substantial degree of MP collapse and affected the quality of the proteins. These results suggest that the oxidative stability of MPs can be improved by the addition of an appropriate amount of GAE (0.2 mg/g protein) combined with PP (1 mM).
Silencing of heat shock factor 1 (HSF1) inhibits proliferation, invasion, and epithelial‐mesenchymal transition in oral squamous cell carcinoma
Authors: da Silva Luiz Arthur Barbosa , da Costa Lucas Melo , Massetti Ana Camila Pereira , de Lucena Pereira Laudenice , da Silveira Ericka Janine Dantas , Salo Tuula Anneli , Coletta Ricardo Della , da Costa Miguel Márcia Cristina
Published: October 2023

Background

Oral squamous cell carcinoma is characterized by high rates of morbidity and mortality. Evidence obtained for different types of cancer shows that tumor initiation, progression, and therapeutic resistance are regulated by heat shock factor 1. This research aimed to analyze the effects of heat shock factor 1 on the biological behavior of oral squamous cell carcinoma.

Methods

Clinicopathological and immunoexpression study of heat shock factor 1 in 70 cases of oral tongue SCC and functional assays by gene silencing of this factor in an oral tongue SCC cell line.

Results

Heat shock factor 1 was overexpressed in oral tongue SCC specimens compared to normal oral mucosa (p < 0.0001) and in the SCC15 line compared to immortalized keratinocytes (p < 0.005). No significant associations were observed between overexpression of heat shock factor 1 and clinicopathological parameters or survival rates of the oral tongue SCC cases in the present sample. In vitro experiments showed that heat shock factor 1 silencing inhibited cell proliferation (p < 0.005) and cell cycle progression, with the accumulation of cells in the G0/G1 phase (p < 0.01). In addition, heat shock factor 1 silencing reduced cell invasion capacity (p < 0.05) and epithelial‐mesenchymal transition, characterized by a decrease in vimentin expression (p < 0.05) and an increase in E‐cadherin expression (p < 0.001).

Conclusion

Heat shock factor 1 may exert several functions that help maintain cell stability under the stressful conditions of the tumor microenvironment. Thus, strategies targeting the regulation of this protein may in the future be a useful therapeutic tool to control the progression of oral squamous cell carcinoma.
Conducting Interview Projects in the US Congress: Analyzing the Methods of Experts in the Field
Authors: Steiman Daniel , Suhay Elizabeth
Published: October 2023

The field of political science is seeing renewed interest in studying the US Congress via one‐on‐one interviews. Yet, the qualitative research methods literature on this topic has lagged behind, with few recent treatments available. The result is uncertainty regarding how best to access and interview Congress. In this study, we implement a novel study design, interviewing over 20 authors—who collectively represent nearly all Congressional qualitative interview studies from the past several decades—about their research practices. Whereas the existing literature focuses on lessons learned from one or two authors’ research experiences, this approach allows us to synthesize a wide range of researchers’ practices and perspectives, identifying areas of consensus and dispute and ultimately providing comprehensive advice to qualitative researchers. As interviewing Congress becomes increasingly difficult amidst growing political polarization and distrust of academics, this methodological advice comes at an opportune time for researchers studying the US Congress and beyond.
Resource partitioning in a cetacean community from Uruguayan waters
Authors: Valdivia Meica , Valenzuela Luciano O. , Berriel Verónica , Rodríguez Diego , Laporta Paula , Drago Massimiliano , Cani Alessandra , Bergamino Leandro
Published: October 2023

The study of resource partitioning within a community is central to understanding the processes that enable interspecific competition and coexistence. This study aimed to understand the resource partitioning and habitat preferences among odontocetes in Uruguay. We analyzed stable carbon and nitrogen isotopes data from the bone tissue of common dolphins (Delphinus delphis), Fraser's dolphins (Lagenodelphis hosei), false killer whales (Pseudorca crassidens), Lahille's bottlenose dolphins (Tursiops truncatus gephyreus), Burmeister's porpoises (Phocoena spinipinnis), and franciscana dolphins (Pontoporia blainvillei). Based on the isotopic values, false killer whale individuals were divided into two different ecological groups (ecotype 1 and 2). Isotopic values also suggest that franciscana dolphins, Burmeister's porpoises, Lahille's bottlenose dolphins, and false killer whales ecotype 1 feed on the continental shelf and/or high trophic level preys. At the other end of the gradient, values suggest Fraser's dolphins and false killer whales ecotype 2 use resources from the oceanic environment and/or lower trophic preys. Isotopic niche overlap was found between the common dolphin and Lahille's bottlenose dolphin and between Lahille's bottlenose dolphin and false killer whale ecotype 1. This work provides novel basic information about the trophic habit and feeding habitat of the odontocetes inhabiting one of the most important estuaries of South America.
Dataism Is Our New God
Authors: Harari Yuval Noah
Published: October 2023

And we're on the verge of doing just that, says Yuval Noah Harari.
Body mass index in parents and their adult offspring: A systematic review and meta‐analysis
Authors: Zhang Jie , Clayton Gemma L. , Overvad Kim , Olsen Anja , Lawlor Deborah A. , Dahm Christina C.
Published: October 2023

Obesity may track across generations, due to genetics and shared family environmental factors, or possibly intrauterine programming. However, many studies only assess associations between maternal body mass index (BMI) and offspring BMI in childhood. To determine whether maternal and paternal associations with offspring BMI differ and whether associations persist into adulthood, a systematic review and meta‐analysis was done. PubMed, Embase, Web of Science, and Google Scholar (to October 2022) were searched. Observational studies reporting associations between maternal or paternal BMI and adult offspring BMI were included. Offspring BMIs were reported as continuous or categorical measures. Forty‐six studies were included in the systematic review. Meta‐analyses were conducted using random‐effects models. Parental BMI was positively associated with offspring BMI in adulthood. The pooled mother–offspring standardized mean difference (SMD) was 0.23 (95% confidence interval [CI]: 0.20, 0.26), and father–offspring SMD was similar: 0.22 (95% CI: 0.19, 0.25) in adjusted models. Offspring of mothers with overweight or obesity had the same risk of higher BMI as offspring of fathers with overweight or obesity. If these associations are causal, they support interventions targeting all family members, rather than focusing solely on mothers, to obtain a healthy weight development among offspring.
Resting‐state cerebral blood flow and functional connectivity abnormalities in depressed patients with childhood maltreatment: Potential biomarkers of vulnerability?
Authors: Liu Sangni , Fan Dandan , He Cancan , Liu Xinyi , Zhang Haisan , Zhang Hongxing , Zhang Zhijun , Xie Chunming
Published: October 2023

Aim

Childhood maltreatment (CM) is an important risk factor for major depressive disorder (MDD). This study aimed to explore the specific effect of CM on cerebral blood flow (CBF) and brain functional connectivity (FC) in MDD patients.

Methods

A total of 150 subjects were collected including 55 MDD patients with CM, 34 MDD patients without CM, 19 healthy controls (HC) with CM, and 42 HC without CM. All subjects completed MRI scans and neuropsychological tests. Two‐way analysis of covariance was used to detect the main and interactive effects of disease and CM on CBF and FC across subjects. Then, partial correlation analyses were conducted to explore the behavioral significance of altered CBF and FC in MDD patients. Finally, a support vector classifier model was applied to differentiate MDD patients.

Results

MDD patients represented increased CBF in bilateral temporal lobe and decreased CBF in right visual cortex. Importantly, significant depression‐by‐CM interactive effects on CBF were primarily located in the frontoparietal regions, including orbitofrontal cortex (OFC), lateral prefrontal cortex (PFC), and parietal cortex. Moreover, significant FC abnormalities were seen in OFC‐PFC and frontoparietal‐visual cortex. Notably, the abnormal CBF and FC were significantly associated with behavioral performance. Finally, a combination of altered CBF and FC behaved with a satisfactory classification ability to differentiate MDD patients.

Conclusions

These results highlight the importance of frontoparietal and visual cortices for MDD with CM experience, proposing a potential neuroimaging biomarker for MDD identification.
That sounds awful! Does sound unpleasantness modulate the mismatch negativity and its habituation?
Authors: Ringer Hanna , Rösch Sarah Alica , Roeber Urte , Deller Julia , Escera Carles , Grimm Sabine
Published: October 2023

There are sounds that most people perceive as highly unpleasant, for instance, the sound of rubbing pieces of polystyrene together. Previous research showed larger physiological and neural responses for such aversive compared to neutral sounds. Hitherto, it remains unclear whether habituation, i.e., diminished responses to repeated stimulus presentation, which is typically reported for neutral sounds, occurs to the same extent for aversive stimuli. We measured the mismatch negativity (MMN) in response to rare occurrences of aversive or neutral deviant sounds within an auditory oddball sequence in 24 healthy participants, while they performed a demanding visual distractor task. Deviants occurred as single events (i.e., between two standards) or as double deviants (i.e., repeating the identical deviant sound in two consecutive trials). All deviants elicited a clear MMN, and amplitudes were larger for aversive than for neutral deviants (irrespective of their position within a deviant pair). This supports the claim of preattentive emotion evaluation during early auditory processing. In contrast to our expectations, MMN amplitudes did not show habituation, but increased in response to deviant repetition—similarly for aversive and neutral deviants. A more fine‐grained analysis of individual MMN amplitudes in relation to individual arousal and valence ratings of each sound item revealed that stimulus‐specific MMN amplitudes were best predicted by the interaction of deviant position and perceived arousal, but not by valence. Deviants with perceived higher arousal elicited larger MMN amplitudes only at the first deviant position, indicating that the MMN reflects preattentive processing of the emotional content of sounds.
Biochar improves soil quality prior to prairie restoration
Authors: McCullough Seth , Bastow Justin
Published: October 2023

Intensive agriculture has led to widespread losses of native grasslands. Restoration projects are trying to reestablish native communities. However, the poor quality and altered food webs of former agricultural soils act as barriers to establishing diverse plant communities. Soil amendments such as biochar have been used to improve soil quality and increase crop yield, but little research has been on biochar in restoration settings. Eastern Washington University is attempting to restore a former wheat field to native Palouse prairie vegetation. In this study, we compared (1) soil abiotic properties and food webs between Palouse prairie remnants and Eastern Washington University's (EWU) restoration site and (2) tested whether biochar can move soil conditions at EWU's restoration site closer to those of remnant sites. We compared soils from three Palouse prairie remnants and EWU's restoration site, and compared soils at the restoration site that were treated with different levels of biochar. Soil nematodes were extracted and sorted to functional groups as an assay of the structure and functional diversity of the soil food web. The soil at EWU's restoration site had significantly lower nematode abundance, pH, and organic matter compared to prairie remnants. In addition, nematode abundance and pH increased significantly at the EWU site with the addition of biochar, both increasing to conditions similar to what is found at the prairie remnant sites. These results suggest biochar can improve some soil conditions in former agricultural lands even prior to native plant restoration.
Pantoea agglomerans: A rare infectious outbreak affecting maintenance hemodialysis patients in a tertiary care hospital
Authors: Hassan Danyal , Saleem Nida , Haneef Muhammad , Khan Merina , Aziz Maliha , Usman Muhammad
Published: October 2023

Background

Pantoea agglomerans is an environmental pathogen known to cause infection in immunocompromised individuals, particularly after thorn injuries. However, previous data showed few cases of human disease caused by contaminated medical products such as parenteral nutrition, anesthetic agents, blood, and peritoneal dialysis solutions. Infection in hemodialysis patients is rare. In this study, we presented a detailed account of several hemodialysis patients infected with this contagious pathogen and compared them with noninfected dialysis patients.

Methods

We retrospectively reviewed the hospital records of 105 hemodialysis patients. Seventeen of 105 patients were diagnosed with P. agglomerans infection. We carefully analyzed their entire in‐hospital course.

Results

Among infected patients, 52.9% were male with a median age of 49 (IQR: 32–66) years. Compared to the noninfected patients, age below 50 years, prior kidney transplantation, prior immunosuppression and antibiotics use, and dialysis via a tunneled vascular catheter were the significant epidemiological features. Despite negative microbiological investigations, we suspect the possible infectious spread via infected central venous catheter was the likely infectious source. Most importantly, all patients responded well to intravenous antibiotics. Only two patients required the removal of the tunneled catheter. Their mortality rate was 0%.

Conclusion

P. agglomerans infection, although considered rare, is becoming increasingly prevalent among dialysis patients. Its occurrence must be appraised as an infectious outbreak rather than mere contamination. Prompt treatment, source identification, and early implementation of preventive strategies should always be the goal to curtail this infection at an early stage.
Spontaneous retroperitoneal haematoma in severe dengue: A case report
Authors: Ab Rahman Siti Soraya , Nik Mazian Assyifaa , Samad Sarah Zulaikha
Published: October 2023

Dengue is endemic in over 100 countries worldwide, predominantly in the subtropical and tropical regions and the incidence has been increasing globally. Patients with severe dengue may develop massive bleeding, disseminated intravascular coagulopathy and multi‐organ failure. Bleeding may occur in various body cavities and muscles; however, bleeding in the retroperitoneal space is uncommon. We report a case of a 37‐year‐old gentleman who presented with a 4‐day history of fever associated with chills and rigours. On Day 6 of illness, he complained of left lumbar and left iliac fossa pain which was aggravated by movement. A computed tomography angiography scan of the abdomen showed the presence of a retroperitoneal haematoma, left iliopsoas and quadratus lumbarum intramuscular haematoma with active bleeding and left abdominal wall muscles haematoma. His condition gradually improved after multiple blood transfusions and he gained full recovery. Spontaneous retroperitoneal haematoma is an uncommon complication of severe dengue infection. Early diagnosis based on high index of clinical suspicion using appropriate imaging will aid in prompt management of these cases and may prevent deaths.
Effects of C4F8 plasma polymerization film on etching profiles in the Bosch process
Authors: Nonaka Tomoyuki , Takahashi Kazuo , Uchida Akimi , Lundgaard Stefan , Tsuji Osamu
Published: October 2023

The Bosch process is a deep etching method for silicon that uses C4F8 plasma-deposited polymerized films as passivation films to protect the silicon sidewalls. This study measured the deposition rate of the passivation films and the etch rate with F-radical exposure and analyzed the chemical composition of the films. Additionally, we observed the deformation of the passivation films during the Bosch process and assessed its influence on the etch profiles. As the C4F8 flow rates increased, the deposition rates attained a local maximum, subsequently decreased to a local minimum and then increased again. The deposition rates were extremely low when the pressure exceeded 10 Pa. With the increasing C4F8 flow rates, inductively coupled plasma power, and pressure, the respective bond content varied up to 10%, and C—CFX and C—C bond contents were replaced with CF2 and CF contents, respectively. The results indicated that the chemical composition of the films did not affect the etch rates of the films, and upon exposure to F radicals, the chemical composition of all films transformed into an identical chemical composition with a higher CF2 bond content. Polymerized films with low CF2-bond content deformed with F-radical exposure, enabled the passage of F radicals, and did not serve as passivation films. In addition to high deposition rates and high F-radical resistance, the Bosch process requires passivation films with high CF2 bond content. The present findings will aid in tuning the parameters of the Bosch process and increase the productivity of silicon deep reactive-ion etching.
Design of fully steerable broadband beamformers with concentric circular superarrays
Authors: Luo Xueqin , Zhao Xudong , Huang Gongping , Jin Jilu , Chen Jingdong , Benesty Jacob
Published: October 2023

Concentric circular microphone arrays have been used in a wide range of applications, such as teleconferencing systems and smarthome devices for speech signal acquisition. Such arrays are generally designed with omnidirectional sensors, and the associated beamformers are fully steerable but only in the sensors' plane. If operated in the three-dimensional space, the performance of those arrays would suffer from significant degradation if the sound sources are out of the sensors' plane, which happens due to the incomplete spatial sampling of the sound field. This paper addresses this issue by presenting a new method to design concentric circular microphone arrays using both omnidirectional microphones and bidirectional microphones (directional sensors with dipole-shaped patterns). Such arrays are referred to as superarrays as they are able to achieve higher array gain as compared to their traditional counterparts with omnidirectional sensors. It is shown that, with the use of bidirectional microphones, the spatial harmonic components that are missing in the traditional arrays are compensated back. A beamforming method is then presented to design beamformers that can achieve frequency-invariant beampatterns with high directivity and are fully steerable in the three-dimensional space. Simulations and real experiments validate the effectiveness and good properties of the presented method.
Apparatus for three-dimensional emission pattern estimation of acoustic emitters
Authors: Nakano Alberto Yoshihiro , Falkovski Artur Adolfo , Ribeiro Mayconvorgel Ibrahim , Pfrimer Felipe Walter Dafico
Published: October 2023

An acoustic emitter based on electrical–mechanical transduction is designed to have a projected emission pattern. However, due to constructive features, design flaws, and different material qualities, the final device does not match project specifications which may cause, among other things, the reduction of performance, loss of emission power, and undesirable noise. In this work, an apparatus for acoustic characterization comprising a turntable and an arc is developed to estimate the emission power of acoustic emitters. The time-stretched pulse method is used as a test signal to obtain the emission power for each emitter's azimuth and elevation angles. Processing the acquired signals gives an estimated radiation pattern in the three-dimensional space, which visually allows the analysis of the emission characteristics of the acoustic source.
Dynamic behavior of a zero-group velocity guided mode in rail structures
Authors: Wu Yuning , Zhang Keping , Zhang Peng , Zhu Xuan , Popovics John S.
Published: October 2023

Important characteristics of a zero-group velocity (ZGV) mode in a standard rail are investigated through numerical simulation and experiment. First, the semi-analytical finite element analysis is implemented to compute dispersion curves for the rail structure and the first ZGV point is identified. Backward waves are identified through opposing senses of group and phase velocities. Next, a time-dependent finite element model is used to understand the dynamic response of the rail. Finally, experimental measurements confirm that ZGV modes in rail structures are formed through interferences between two opposite-traveling waves, which is analogous to the S1-S2b ZGV Lamb mode in plate structures.
Application of imaging spectroscopy, SEM-EDS and DNA analysis for monitoring the preservation status of a manuscript of the first decade of 19th century
Authors: Kokla Vasiliki , Batrinou Anthimia , Papatheodorou Spyros , Houhoula Dimitra , Panagiaris George , Tselikas Agamemnon , Karabotsos Athanassios
Published: October 2023

This paper presents an interdisciplinary approach on the preservation status of a manuscript made in the early nineteenth century on paper support. This approach was based on the analysis of the pigments and inks, as well as the damage of the manuscript, which was provoked by biological attack. This analysis was accomplished with the application of innovating techniques such as imaging spectroscopy using high resolution cameras and DNA analysis. The use of new technologies from diverse science can provide useful information on the inks and pigments as well as the type of biological agents found in the manuscript. Furthermore, apart from the knowledge about the inks and pigments, important elements can be retrieved on their preservation status. The aim of this research is the combined use of the detected information on the types of inks and pigments with the biological investigation in order to trace damage caused by biological attack and to investigate the causative agent of this attack. For this reason, imaging techniques, SEM/EDS analysis were applied to the inks and pigments as well as a microbiologic and molecular analysis of the fungi found on the pigments of manuscript.
Iceberg Hashing: Optimizing Many Hash-Table Criteria at Once
Authors: Bender Michael A. , Conway Alex , Farach-Colton Martín , Kuszmaul William , Tagliavini Guido
Published: October 2023

Despite being one of the oldest data structures in computer science, hash tables continue to be the focus of a great deal of both theoretical and empirical research. A central reason for this is that many of the fundamental properties that one desires from a hash table are difficult to achieve simultaneously; thus many variants offering different trade-offs have been proposed.

This article introduces Iceberg hashing, a hash table that simultaneously offers the strongest known guarantees on a large number of core properties. Iceberg hashing supports constant-time operations while improving on the state of the art for space efficiency, cache efficiency, and low failure probability. Iceberg hashing is also the first hash table to support a load factor of up to
1 - o(1)
while being stable, meaning that the position where an element is stored only ever changes when resizes occur. In fact, in the setting where keys are Θ (log
n
) bits, the space guarantees that Iceberg hashing offers, namely that it uses at most

\(\log \binom{|U|}{n} + O(n \log \ \text{log} n)\)

bits to store
n
items from a universe
U
, matches a lower bound by Demaine et al. that applies to any stable hash table.

Iceberg hashing introduces new general-purpose techniques for some of the most basic aspects of hash-table design. Notably, our indirection-free technique for dynamic resizing, which we call waterfall addressing, and our techniques for achieving stability and very-high probability guarantees, can be applied to any hash table that makes use of the front-yard/backyard paradigm for hash table design.
Performance evaluation teaching in the age of cloud computing
Authors: Casale Giuliano
Published: October 2023

Cloud computing has been one of the most significant developments in computer science of the last two decades, fostering sharp changes in performance engineering practices across the computing industry and, at the same time, profoundly steering research trends in academia. A distinctive trait of this paradigm is that cloud engineers can programmatically control application performance, raising an expectation for computing graduates who find employment in software and system development to have basic performance engineering skills. This, in my view, calls for a broader and deeper education on software and system performance topics as part of the computing curriculum, while at the same time requiring a rethink of the syllabus of a classic performance evaluation module. This abstract presents my personal experience in doing so, including a discussion on the educational strengths and weaknesses of performance engineering emerging from cloud computing practice.
Supplementary Figures from Intraperitoneal Paclitaxel Is a Safe and Effective Therapeutic Strategy for Treating Mucinous Appendiceal Adenocarcinoma
Authors: Ito Ichiaki , Yousef Abdelrahman M.G. , Chowdhury Saikat , Dickson Princess N. , Naini Zahra A. , White Michael G. , Fleten Karianne G. , Flatmark Kjersti , Fournier Keith F. , Fowlkes Natalie W. , Shen John Paul
Published: October 2023

Figure S1-S8
Supplementary figures S1-S5 from Tipifarnib Potentiates the Antitumor Effects of PI3Kα Inhibition in PIK3CA- and HRAS-Dysregulated HNSCC via Convergent Inhibition of mTOR Activity
Authors: Smith Alison E. , Chan Stacia , Wang Zhiyong , McCloskey Asako , Reilly Quinn , Wang Jayden Z. , Patel Hetika Vora , Koshizuka Keiichi , Soifer Harris S. , Kessler Linda , Dayoub Ashley , Villaflor Victoria , Adkins Douglas R. , Bruce Justine Y. , Ho Alan L. , Perez Cesar A. , Hanna Glenn J. , Gascó Hernández Amaya , Saunders Andrew , Dale Stephen , Gutkind J. Silvio , Burrows Francis , Malik Shivani
Published: October 2023

Supplementary figures related to figures 1-5.
Supplementary Data from Kinome Reprogramming Is a Targetable Vulnerability in ESR1 Fusion-Driven Breast Cancer
Authors: Gou Xuxu , Kim Beom-Jun , Anurag Meenakshi , Lei Jonathan T. , Young Meggie N. , Holt Matthew V. , Fandino Diana , Vollert Craig T. , Singh Purba , Alzubi Mohammad A. , Malovannaya Anna , Dobrolecki Lacey E. , Lewis Michael T. , Li Shunqiang , Foulds Charles E. , Ellis Matthew J.
Published: October 2023

The Supplementary Material contains a cover page, 8 Supplementary Figures and their legends.
Supplementary Fig. S8 from Endocrine Therapy Synergizes with SMAC Mimetics to Potentiate Antigen Presentation and Tumor Regression in Hormone Receptor–Positive Breast Cancer
Authors: Hermida-Prado Francisco , Xie Yingtian , Sherman Shira , Nagy Zsuzsanna , Russo Douglas , Akhshi Tara , Chu Zhengtao , Feit Avery , Campisi Marco , Chen Minyue , Nardone Agostina , Guarducci Cristina , Lim Klothilda , Font-Tello Alba , Lee Irene , García-Pedrero Juana , Cañadas Israel , Agudo Judith , Huang Ying , Sella Tal , Jin Qingchun , Tayob Nabihah , Mittendorf Elizabeth A. , Tolaney Sara M. , Qiu Xintao , Long Henry , Symmans William F. , Lin Jia-Ren , Santagata Sandro , Bedrosian Isabelle , Yardley Denise A. , Mayer Ingrid A. , Richardson Edward T. , Oliveira Giacomo , Wu Catherine J. , Schuster Eugene F. , Dowsett Mitch , Welm Alana L. , Barbie David , Metzger Otto , Jeselsohn Rinath
Published: October 2023

Supplementary Fig. S8. Comprehensive analysis of fulvestrant and birinapant treatment in HR+ breast cancer cell.
Supplementary Fig. S7 from Endocrine Therapy Synergizes with SMAC Mimetics to Potentiate Antigen Presentation and Tumor Regression in Hormone Receptor–Positive Breast Cancer
Authors: Hermida-Prado Francisco , Xie Yingtian , Sherman Shira , Nagy Zsuzsanna , Russo Douglas , Akhshi Tara , Chu Zhengtao , Feit Avery , Campisi Marco , Chen Minyue , Nardone Agostina , Guarducci Cristina , Lim Klothilda , Font-Tello Alba , Lee Irene , García-Pedrero Juana , Cañadas Israel , Agudo Judith , Huang Ying , Sella Tal , Jin Qingchun , Tayob Nabihah , Mittendorf Elizabeth A. , Tolaney Sara M. , Qiu Xintao , Long Henry , Symmans William F. , Lin Jia-Ren , Santagata Sandro , Bedrosian Isabelle , Yardley Denise A. , Mayer Ingrid A. , Richardson Edward T. , Oliveira Giacomo , Wu Catherine J. , Schuster Eugene F. , Dowsett Mitch , Welm Alana L. , Barbie David , Metzger Otto , Jeselsohn Rinath
Published: October 2023

Supplementary Fig. S7. Impact of treatment with fulvestrant, birinapant, and their combination on a PDX model of HR+ breast cancer.
Supplementary Fig. S5 from Endocrine Therapy Synergizes with SMAC Mimetics to Potentiate Antigen Presentation and Tumor Regression in Hormone Receptor–Positive Breast Cancer
Authors: Hermida-Prado Francisco , Xie Yingtian , Sherman Shira , Nagy Zsuzsanna , Russo Douglas , Akhshi Tara , Chu Zhengtao , Feit Avery , Campisi Marco , Chen Minyue , Nardone Agostina , Guarducci Cristina , Lim Klothilda , Font-Tello Alba , Lee Irene , García-Pedrero Juana , Cañadas Israel , Agudo Judith , Huang Ying , Sella Tal , Jin Qingchun , Tayob Nabihah , Mittendorf Elizabeth A. , Tolaney Sara M. , Qiu Xintao , Long Henry , Symmans William F. , Lin Jia-Ren , Santagata Sandro , Bedrosian Isabelle , Yardley Denise A. , Mayer Ingrid A. , Richardson Edward T. , Oliveira Giacomo , Wu Catherine J. , Schuster Eugene F. , Dowsett Mitch , Welm Alana L. , Barbie David , Metzger Otto , Jeselsohn Rinath
Published: October 2023

Supplementary Fig. S5. Analysis of the impact of the ER axis on the response to IFNg stimulation in HR+ breast cancer cells.
Supplementary Fig. S4 from Endocrine Therapy Synergizes with SMAC Mimetics to Potentiate Antigen Presentation and Tumor Regression in Hormone Receptor–Positive Breast Cancer
Authors: Hermida-Prado Francisco , Xie Yingtian , Sherman Shira , Nagy Zsuzsanna , Russo Douglas , Akhshi Tara , Chu Zhengtao , Feit Avery , Campisi Marco , Chen Minyue , Nardone Agostina , Guarducci Cristina , Lim Klothilda , Font-Tello Alba , Lee Irene , García-Pedrero Juana , Cañadas Israel , Agudo Judith , Huang Ying , Sella Tal , Jin Qingchun , Tayob Nabihah , Mittendorf Elizabeth A. , Tolaney Sara M. , Qiu Xintao , Long Henry , Symmans William F. , Lin Jia-Ren , Santagata Sandro , Bedrosian Isabelle , Yardley Denise A. , Mayer Ingrid A. , Richardson Edward T. , Oliveira Giacomo , Wu Catherine J. , Schuster Eugene F. , Dowsett Mitch , Welm Alana L. , Barbie David , Metzger Otto , Jeselsohn Rinath
Published: October 2023

Supplementary Fig. S4. Schematic of flow cytometry experiments and differential impact of IFNg stimulation on HR+ breast cancer cells.
Supplementary Fig. S3 from Endocrine Therapy Synergizes with SMAC Mimetics to Potentiate Antigen Presentation and Tumor Regression in Hormone Receptor–Positive Breast Cancer
Authors: Hermida-Prado Francisco , Xie Yingtian , Sherman Shira , Nagy Zsuzsanna , Russo Douglas , Akhshi Tara , Chu Zhengtao , Feit Avery , Campisi Marco , Chen Minyue , Nardone Agostina , Guarducci Cristina , Lim Klothilda , Font-Tello Alba , Lee Irene , García-Pedrero Juana , Cañadas Israel , Agudo Judith , Huang Ying , Sella Tal , Jin Qingchun , Tayob Nabihah , Mittendorf Elizabeth A. , Tolaney Sara M. , Qiu Xintao , Long Henry , Symmans William F. , Lin Jia-Ren , Santagata Sandro , Bedrosian Isabelle , Yardley Denise A. , Mayer Ingrid A. , Richardson Edward T. , Oliveira Giacomo , Wu Catherine J. , Schuster Eugene F. , Dowsett Mitch , Welm Alana L. , Barbie David , Metzger Otto , Jeselsohn Rinath
Published: October 2023

Supplementary Fig. S3. Summary of protein expression changes after 24 weeks of endocrine treatment (ET) and/or Palbociclib (palbo) treatment.
Figure 6 from Endocrine Therapy Synergizes with SMAC Mimetics to Potentiate Antigen Presentation and Tumor Regression in Hormone Receptor–Positive Breast Cancer
Authors: Hermida-Prado Francisco , Xie Yingtian , Sherman Shira , Nagy Zsuzsanna , Russo Douglas , Akhshi Tara , Chu Zhengtao , Feit Avery , Campisi Marco , Chen Minyue , Nardone Agostina , Guarducci Cristina , Lim Klothilda , Font-Tello Alba , Lee Irene , García-Pedrero Juana , Cañadas Israel , Agudo Judith , Huang Ying , Sella Tal , Jin Qingchun , Tayob Nabihah , Mittendorf Elizabeth A. , Tolaney Sara M. , Qiu Xintao , Long Henry , Symmans William F. , Lin Jia-Ren , Santagata Sandro , Bedrosian Isabelle , Yardley Denise A. , Mayer Ingrid A. , Richardson Edward T. , Oliveira Giacomo , Wu Catherine J. , Schuster Eugene F. , Dowsett Mitch , Welm Alana L. , Barbie David , Metzger Otto , Jeselsohn Rinath
Published: October 2023

Birinapant potentiates the antitumoral effect of ER blockade. A, Cell growth studies of MCF7 cells treated with vehicle (DMSO), fulvestrant, birinapant, and the combination of fulvestrant and birinapant for 7 days. The number of cells were measured at days 0, 3, 5, and 7. Error bars, SD from four replicates. B, Synergy study of the combination of fulvestrant and birinapant MCF7 cells. Synergy was calculated based on the ZIP reference model using SynergyFinder (www.synergyfinder.org). Deviations between observed and expected responses with positive and negative values denote synergy and antagonism, respectively. C, ER+/HER2− PDX tumor growth study. Error bars, SD (N = 5 mice per group). D, GSEA of genes differentially expressed in MCF7 cells after treatment with fulvestrant (10 nmol/L), birinapant (100 nmol/L), or the combination compared with vehicle (DMSO) control. The size of each circle indicates the q value (genes sets with a q value of <0.25 in at least one condition were included); the color scale indicates the normalized enrichment score (NES). *, P < 0.05; **, P < 0.01; ***, P < 0.001; two-way Anova.
Supplementary Table S5 from Single-Cell Characterization of Pulmonary Nodules Implicates Suppression of Immunosurveillance across Early Stages of Lung Adenocarcinoma
Authors: Yanagawa Jane , Tran Linh M. , Salehi-Rad Ramin , Lim Raymond J. , Dumitras Camelia , Fung Eileen , Wallace William D. , Prosper Ashley E. , Fishbein Gregory , Shea Conor , Hong Rui , Kahangi Bitta , Deng John J. , Gower Adam C. , Liu Bin , Campbell Joshua D. , Mazzilli Sarah A. , Beane Jennifer E. , Kadara Humam , Lenburg Marc E. , Spira Avrum E. , Aberle Denise R. , Krysan Kostyantyn , Dubinett Steven M.
Published: October 2023

DEGs between subsolid and nLung AT2 cells
Supplementary Table S3 from Single-Cell Characterization of Pulmonary Nodules Implicates Suppression of Immunosurveillance across Early Stages of Lung Adenocarcinoma
Authors: Yanagawa Jane , Tran Linh M. , Salehi-Rad Ramin , Lim Raymond J. , Dumitras Camelia , Fung Eileen , Wallace William D. , Prosper Ashley E. , Fishbein Gregory , Shea Conor , Hong Rui , Kahangi Bitta , Deng John J. , Gower Adam C. , Liu Bin , Campbell Joshua D. , Mazzilli Sarah A. , Beane Jennifer E. , Kadara Humam , Lenburg Marc E. , Spira Avrum E. , Aberle Denise R. , Krysan Kostyantyn , Dubinett Steven M.
Published: October 2023

Summary of immune and non-immune cell clusters based on quality control metrics
Supplementary Table 1 from Abemaciclib Is Effective in Palbociclib-Resistant Hormone Receptor–Positive Metastatic Breast Cancers
Authors: Navarro-Yepes Juliana , Kettner Nicole M. , Rao Xiayu , Bishop Cassandra Santaella , Bui Tuyen N. , Wingate Hannah F. , Singareeka Raghavendra Akshara , Wang Yan , Wang Jing , Sahin Aysegul A. , Meric-Bernstam Funda , Hunt Kelly K. , Damodaran Senthil , Tripathy Debu , Keyomarsi Khandan
Published: October 2023

This file contains Supplementary Table 1, pertaining to the proteomic classification of RPPA antibodies
Table S1 from LncRNA AGPG Confers Endocrine Resistance in Breast Cancer by Promoting E2F1 Activity
Authors: Yu Shiyi , Wang Ying , Gong Xue , Fan Zhehao , Wang Zheng , Liang Zhengyan , Wu Rui , Cao Binjie , Wang Ning , Bi Caili , Lv Dan , Sun Haibo
Published: October 2023

Table S1
Supplementary information from LncRNA AGPG Confers Endocrine Resistance in Breast Cancer by Promoting E2F1 Activity
Authors: Yu Shiyi , Wang Ying , Gong Xue , Fan Zhehao , Wang Zheng , Liang Zhengyan , Wu Rui , Cao Binjie , Wang Ning , Bi Caili , Lv Dan , Sun Haibo
Published: October 2023

Figure legends for supplementary figures
Figure S7 from LncRNA AGPG Confers Endocrine Resistance in Breast Cancer by Promoting E2F1 Activity
Authors: Yu Shiyi , Wang Ying , Gong Xue , Fan Zhehao , Wang Zheng , Liang Zhengyan , Wu Rui , Cao Binjie , Wang Ning , Bi Caili , Lv Dan , Sun Haibo
Published: October 2023

Figure S7
Figure S5 from LncRNA AGPG Confers Endocrine Resistance in Breast Cancer by Promoting E2F1 Activity
Authors: Yu Shiyi , Wang Ying , Gong Xue , Fan Zhehao , Wang Zheng , Liang Zhengyan , Wu Rui , Cao Binjie , Wang Ning , Bi Caili , Lv Dan , Sun Haibo
Published: October 2023

Figure S5
Figure S3 from LncRNA AGPG Confers Endocrine Resistance in Breast Cancer by Promoting E2F1 Activity
Authors: Yu Shiyi , Wang Ying , Gong Xue , Fan Zhehao , Wang Zheng , Liang Zhengyan , Wu Rui , Cao Binjie , Wang Ning , Bi Caili , Lv Dan , Sun Haibo
Published: October 2023

Figure S3