bluuebunny/crossref_metadata_2025 huggingface dataset:
Jahangir's China and Other Toys: Mughal Collecting and the Early East India Company
Authors: Sen Amrita
Published: June 2023

During the sixteenth and seventeenth centuries, there arose in Europe a new demand for curiosities. While private collectors sought out exotic curiosities for their own cabinets, public botanical gardens also opened their doors. This essay turns to English attitudes towards Mughal collecting during the early seventeenth century. As active participants in what is now described as the ‘Global Renaissance’ Jahangir, the women in his household including Nur Jahan, as well as Mughal courtiers and officials also sought out curious objects from around the world. This essay examines the accounts of early East India Company factors and ambassadors, especially those by William Hawkins and Sir Thomas Roe, to show how in English records Mughal collecting became associated with eastern greed at a time when the Company itself was profiting from the marketplace of the strange. Drawing on travel accounts, letters, as well as Company court minutes on the one hand, and Mughal sources such as Humayun Nama, Akbar Nama, and Tuzk‐i‐Jahangiri, this essay will explore the rich culture of Mughal collecting. It will show how the Company made note of the Mughal emperor's collections, tried to supply him new curiosities, and, at the same time, saw the Mughal desire for curiosities as an impediment to English trading activities in India.
The Three Ladies of London (ca. 1581): Re‐Reading Anxieties of Anglo‐Ottoman Exchanges Through Critical Race Theory
Authors: Öğütcü Murat
Published: June 2023

Robert Wilson's The Three Ladies of London (ca. 1581) is the earliest extant Turk play that features one of the earliest instances of direct anxieties regarding Anglo‐Ottoman encounters. Contemporary with the 1580 Ahdname (capitulations), the play provides a local point‐of‐view of the newly established Anglo‐Ottoman commercial relations. We observe how seemingly overpriced Turkish goods, such as perfumes and jewels, metaphorically conquer the English market and pose a threat to local businesses. The play's multi‐national commercial exchange is marked by how the Italian intermediate cheats both his Ottoman suppliers and his English customers. The play is usually studied for its use of allegory, its references to the anti‐usury proclamations, how it stood apart from the staging history of Jews on the early modern English stage and how the positive attitude might have reflected the emerging Anglo‐Ottoman relations, which have been analysed as separate entities. Yet, there is a need to focus on how the intersections of race, gender, class and early modern performance practices overlap and conflict with each other in order to have a comprehensive view about the anxieties about dominance within the Anglo‐Ottoman context. Therefore, using a critical race theory framework this essay aims to analyse Wilson's The Three Ladies of London and re‐examine how the anxieties about Anglo‐Ottoman commercial and cultural exchanges were reflected on the early modern commercial stage.
Framing COVID‐19 as an existential threat predicts prejudice towards Chinese people via anxious arousal
Authors: Tabri Nassim , Hollingshead Samantha J. , Wohl Michael J. A.
Published: June 2023

We tested the hypothesis that perceived existential threat stemming from COVID‐19 elicits anxious arousal, which can manifest in prejudice toward the perceived source of the threat (Chinese people). Americans (n = 474) were randomly assigned to a condition in which COVID‐19 was framed as a high existential threat to the United States or to a condition in which COVID‐19 was framed as a low existential threat to the United States. They then completed self‐report measures of anxious arousal as well as subtle and blatant prejudice towards Chinese people. As expected, participants in the high threat (vs. low threat) condition reported greater anxious arousal which, in turn, predicted greater subtle and blatant prejudice. The high threat (vs. low threat) condition also indirectly predicted greater subtle and blatant prejudice via greater anxious arousal. Results advance knowledge on the reactions people had to perceiving COVID‐19 as an existential threat during the early phase of the pandemic.
Efficacy and tolerance of a novel topical TRPV‐1 channel antagonist in dogs with allergic pododermatitis
Authors: Serra Fabregat Xavier , de Pablo Miguel Ángel , Hernán‐Pérez Conchita , Diéguez Elena , Valero Coppin Oliver , Genové Corominas Elsa
Published: June 2023

Background

Pruritus due to allergic skin disease is one of the most common reasons for dermatological consultations in the veterinary clinic. Treatment is usually multimodal and requires continuous monitoring and reassessment. New therapies are needed to broaden the therapeutic arsenal.

Hypothesis/Objectives

The aim of this study was to evaluate the efficacy of a novel transient receptor potential vanilloid 1 (TRPV1) channel antagonist for allergic pododermatitis in dogs.

Animals

Twenty‐four client‐owned dogs with allergic pododermatitis.

Materials and Methods

The study was an open, prospective, multi‐centre clinical trial with client‐owned dogs. All dogs were treated twice daily with a spray containing hydroxymethoxyiodobenzyl glycolamide pelargonate for 28 days. Clinical assessments included pruritus Visual Analog Scale (PVAS), pedal skin lesion score, evaluation of quality of life (QoL), presence of secondary infections and a four‐point subjective efficacy assessment by the veterinarian and the dog owner.

Results

There was more than 50% improvement in all scores by the conclusion of the study. Secondary infections were reduced (p < 0.001). Both the veterinarians and dog owners evaluated the efficacy of the product positively. The product was well‐tolerated.

Conclusions and Clinical Relevance

This study demonstrated the tolerability and efficacy of a TRPV1 antagonist on pruritic pododermatitis in 24 dogs.
Geometric bijections between spanning subgraphs and orientations of a graph
Authors: Ding Changxin
Published: June 2023

Let be a connected finite graph. Backman, Baker, and Yuen have constructed a family of explicit and easy‐to‐describe bijections between spanning trees of and ‐compatible orientations, where the ‐compatible orientations are the representatives of equivalence classes of orientations up to cycle–cocycle reversal that are determined by a cycle signature and a cocycle signature . Their bijections are geometric because the construction comes from zonotopal subdivisions. In this paper, we extend the geometric bijections to subgraph‐orientation correspondences. Moreover, we extend the geometric constructions accordingly. Our proofs are combinatorial, which do not make use of the zonotopes. We also provide geometric proofs for partial results, which make use of zonotopal tiling, relate to Backman, Baker, and Yuen's method, and motivate our combinatorial constructions. Finally, we explain that the main results hold for regular matroids.
Structural evolution and thermoelectric properties of Mg3SbxBi2−x thin films deposited by magnetron sputtering
Authors: Sadowski Grzegorz , Shu Rui , le Febvrier Arnaud , Han Zhijia , Music Denis , Liu Weishu , Eklund Per
Published: June 2023

Mg3Bi2-based compounds are of great interest for thermoelectric applications near room temperature. Here, undoped p-type Mg3SbxBi2−x thin films were synthesized using magnetron sputtering (three elemental targets in Ar atmosphere) with a growth temperature of 200 °C on three different substrates, namely, Si as well as c- and r-sapphire. The elemental composition was measured with energy-dispersive x-ray spectroscopy and the structure by x-ray diffraction. The electrical resistivity and the Seebeck coefficient were determined under He atmosphere from room temperature to the growth temperature. All samples are crystalline exhibiting the La2O3-type crystal structure (space group P-3m1). The observed thermoelectric response is consistent with a semiconductive behavior. With increasing x, the samples become more electrically resistive due to the increasing bandgap. High Bi content (x < 1) is thus beneficial due to lower resistivity and a higher power factor near room temperature. Thermoelectric thin films synthesized at low temperatures may provide novel pathways to enable flexible devices on polymeric and other heat-sensitive substrates.
Missing signals from Fragile astrocytes
Authors: Ferrarelli Leslie K.
Published: June 2023

The loss of a secreted factor from astrocytes may underlie neuronal pathology in Fragile X syndrome.
Case Commentary: When Voldemort Meets Sauron: Treatment Considerations for Emerging Dual-Carbapenemase-Producing Extensively Drug-Resistant Pseudomonas aeruginosa
Authors: Wangchinda Walaiporn , Pogue Jason M.
Published: June 2023

Infections caused by extensively drug-resistant
Pseudomonas aeruginosa
are difficult to treat due to limited effective treatment options. In this issue, a patient with a corneal infection caused by a Verona integron-encoded metallo-β-lactamase (VIM)- and Guiana extended-spectrum β-lactamase (GES)-coproducing
P. aeruginosa
strain associated with the recent artificial tears-related outbreak in the United States is described.
Analysis of the Contribution of 6-mer Seed Toxicity to HIV-1-Induced Cytopathicity
Authors: Vaidyanathan Aparajitha , Taylor Harry E. , Hope Thomas J. , D'Aquila Richard T. , Bartom Elizabeth T. , Hultquist Judd F. , Peter Marcus E.
Published: June 2023

Several mechanisms by which initial HIV infection is cytotoxic to infected cells have been reported and involve various forms of cell death. Characterizing the mechanisms underlying the long-term survival of certain T cells that become persistent provirus reservoirs is critical to developing a cure.
Neuroinvasive Flavivirus Pathogenesis Is Restricted by Host Genetic Factors in Collaborative Cross Mice, Independently of
Oas1b
Authors: Jasperse Brittany A. , Mattocks Melissa D. , Noll Kelsey E. , Ferris Martin T. , Heise Mark T. , Lazear Helen M.
Published: June 2023

Neuroinvasive flaviviruses, such as WNV, JEV, and POWV, are transmitted to humans by mosquitoes or ticks and can cause neurologic diseases, such as encephalitis, meningitis, and paralysis, and they can result in death or long-term sequelae. Although potentially severe, neuroinvasive disease is a rare outcome of flavivirus infection.
Structural and Biophysical Analysis of Adeno-Associated Virus Serotype 2 Capsid Assembly Variants
Authors: Bennett Antonette , Gargas Joseph , Kansol Austin , Lewis Jordyn , Hsi Jane , Hull Joshua , Mietzsch Mario , Tartaglia Lawrence , Muzyczka Nicholas , Bhattacharya Nilakshee , Chipman Paul , Agbandje-McKenna Mavis , McKenna Robert
Published: June 2023

Adeno-associated viruses (AAVs) have been shown to be useful vectors for gene therapy applications. Consequently, AAV has been approved as a biologic for the treatment of several monogenic disorders, and many additional clinical trials are ongoing.
Exploring the Core Bacteria and Functional Traits in Pecan (Carya illinoinensis) Rhizosphere
Authors: Shi Mengting , Qin Tao , Cheng Zhitao , Zheng Dingwei , Pu Zhenyang , Yang Zhengfu , Lim Kean-Jin , Yang Menghua , Wang Zhengjia
Published: June 2023

The rhizosphere microbiome has been identified as a fundamental factor in maintaining plant health, helping plants to fight the deleterious effects of diseases and abiotic stresses. However, to date, studies on the nut tree microbiome have been scarce.
Effects of Environmental and Water Quality Variables on Histamine-Producing Bacteria Concentration and Species in the Northern Gulf of Mexico
Authors: Frith Ashley , Hayes-Mims Marlee , Carmichael Ruth , Björnsdóttir-Butler Kristin
Published: June 2023

This study determined the effects of environmental conditions on presence and abundance of naturally occurring histamine-producing bacteria in the northern Gulf of Mexico. Here, we show that HPB abundance and species composition are related to
in situ
ambient temperature and salinity, with the magnitude of this effect dependent on the particular HPB species.
Determining the impact of magma water contents on porphyry Cu fertility: Constraints from hydrous and nominally anhydrous mineral analyses
Authors: Huang Wenting , Stock Michael J. , Xia Xiao-Ping , Sun Xiaoming , Cui Zexian , Liuyun Ouyang , Zhang Jian , Chen Xilian , Zheng Yi , Liang Huaying
Published: June 2023

Most large-scale porphyry-style mineralization is genetically associated with oxidized, sulfur-rich, and hydrous magmas, the sources of which were enriched in mantle-derived or juvenile crust−derived materials. Geochemical indices for these features can distinguish fertile magmas and barren magmas. However, fertile magmas that generate different-sized porphyry deposits are usually geochemically indistinguishable, and the factors controlling the size of porphyry mineralization are poorly understood. Here, we used zircon H2O contents and the compositions of apatite hosted in zircon, phenocrysts, and groundmass to compare the water contents and volatile evolution of fertile magmas in the Yulong ore belt, Tibet, which generated giant-, large-, and medium-sized porphyry deposits. We found that these porphyries have comparable major- and trace-element and zircon Hf-O isotope compositions, with high oxygen fugacity and sulfur contents. A negative correlation between [see PDF for equation] versus [see PDF for equation] of apatites suggests that the magmas consistently achieved H2O saturation before zircon crystallization, and zircon hydroxyl contents reveal that the water contents of the melt positively correlate with the size of the deposits, consistent with larger deposits achieving H2O saturation at deeper crustal levels. The deeper H2O saturation also caused larger amounts of Cl extraction, as indicated by the trends of increasing [see PDF for equation] and decreasing [see PDF for equation] with larger deposit sizes. These data sets can be reconciled by magmas forming larger deposits having higher H2O contents and suggest that the H2O content is a key control on their fertility. Our study highlights the utility of integrated hydrous and nominally anhydrous mineral analyses for constraining enigmatic magmatic volatile processes in magmatic ore-forming systems.
Natural Explanation of Recent Results on $${{e}^{ + }}{{e}^{ - }} \to \Lambda \bar {\Lambda }$$
Authors: Milstein A. I. , Salnikov S. G.
Published: June 2023

We show that the recent experimental data on the cross section of the process $${{e}^{ + }}{{e}^{ - }} \to \Lambda \bar {\Lambda }$$ near the threshold can be perfectly explained by the final-state interaction of $$\Lambda $$ and $$\bar {\Lambda }$$. The enhancement of the cross section is related to the existence of low-energy real or virtual state in the corresponding potential. We present a simple analytical formula that fits the experimental data very well.
Ab interno canaloplasty versus gonioscopy-assisted transluminal trabeculotomy in open-angle glaucoma: a randomised controlled trial
Authors: Yin Peng , Li Jiaying , Shi Yan , Cao Kai , Han Ying , Wang Huaizhou , Liu Hanruo , Xin Chen , Wang Yiwei , Oatts Julius , Wang Jin , Sang Qing , Cheng Zhen , Wang Ningli
Published: June 2023

Objective

To compare the efficacy and safety of ab interno canaloplasty (ABiC) with gonioscopy-assisted transluminal trabeculotomy (GATT) in patients with open-angle glaucoma (OAG).

Method

This randomised clinical trial recruited eyes with OAG and no previous incisional ocular surgery, among which 38 were randomised to ABiC and 39 to GATT. Follow-ups were performed at 1, 3, 6 and 12 months postoperatively. The primary outcome measures were intraocular pressure (IOP) and use of glaucoma medication at 12 months postoperatively. The secondary outcome measure was complete surgical success (not requiring glaucoma surgery, IOP ≤21 mm Hg and non-use of glaucoma medications).

Results

Both groups had similar demographic and ocular characteristics. A total of 71 of the 77 subjects (92.2%) completed 12-month follow-up. At 12 months, mean IOP was 19.0±5.2 mm Hg in the ABiC group and 16.0±3.1 mm Hg in the GATT group (p=0.003). Overall, 57.2% of ABiC patients and 77.8% of GATT patients were medication free (p=0.06). The number of glaucoma medications was 0.9±1.3 in the ABiC group and 0.6±1.2 in the GATT group (p=0.27). The 12-month cumulative rate of complete surgical success was 56% in the ABiC group and 75% in the GATT group (p=0.09). Three eyes in the ABiC group and one eye in the GATT group required additional glaucoma surgery. Hyphema (87% vs 47%) and supraciliary effusion (92% vs 71%) were noted more often in the GATT group than in the ABiC group.

Conclusions

The preliminary result showed that GATT had an advantage over ABiC in IOP reduction for OAG patients, accompanied by favourable safety at 12-month postoperatively.

Trial registration number

ChiCTR1800016933.
Number and timing of primary cleft lip and palate repair surgeries in England: whole nation study of electronic health records before and during the COVID-19 pandemic
Authors: Etoori David , Park Min Hae , Blackburn Ruth Marion , Fitzsimons Kate J , Butterworth Sophie , Medina Jibby , Mc Grath-Lone Louise , Russell Craig , van der Meulen Jan
Published: June 2023

Objective

To quantify differences in number and timing of first primary cleft lip and palate (CLP) repair procedures during the first year of the COVID-19 pandemic (1 April 2020 to 31 March 2021; 2020/2021) compared with the preceding year (1 April 2019 to 31 March 2020; 2019/2021).

Design

National observational study of administrative hospital data.

Setting

National Health Service hospitals in England.

Study population

Children <5 years undergoing primary repair for an orofacial cleft Population Consensus and Surveys Classification of Interventions and Procedures-fourth revisions (OPCS-4) codes F031, F291).

Main exposure

Procedure date (2020/2021 vs 2019/2020).

Main outcomes

Numbers and timing (age in months) of first primary CLP procedures.

Results

1716 CLP primary repair procedures were included in the analysis. In 2020/2021, 774 CLP procedures were carried out compared with 942 in 2019/2020, a reduction of 17.8% (95% CI 9.5% to 25.4%). The reduction varied over time in 2020/2021, with no surgeries at all during the first 2 months (April and May 2020). Compared with 2019/2020, first primary lip repair procedures performed in 2020/2021 were delayed by 1.6 months on average (95% CI 0.9 to 2.2 months). Delays in primary palate repairs were smaller on average but varied across the nine geographical regions.

Conclusion

There were significant reductions in the number and delays in timing of first primary CLP repair procedures in England during the first year of the pandemic, which may affect long-term outcomes.
Impact of offspring and their educational level on readmission and death among older adults with chronic obstructive pulmonary disease: a nationwide cohort study using multistate survival models
Authors: Sloth Mathilde Marie Brünnich , Neble Larsen Emma , Godtfredsen Nina Skavlan , Osler Merete , Jørgensen Terese Sara Høj
Published: June 2023

Background

It is well described that there is social inequality in the disease course of chronic obstructive pulmonary disease (COPD), but the impact of social relations is less explored. We aimed to investigate the impact of adult offspring and their educational level on readmission and death among older adults with COPD.

Methods

In total, 71 084 older adults born 1935–53 with COPD diagnosed at age ≥65 years in 2000–2018 were included. Multistate survival models were performed to estimate the impact of adult offspring (offspring (reference) vs no offspring) and their educational level (low, medium or high (reference)) on the transition intensities between three states: COPD diagnosis, readmission and all-cause death.

Results

During follow-up, 29 828 (42.0%) had a readmission and 18 504 (26.0%) died with or without readmission. Not having offspring was associated with higher hazards of death without readmission (HRwomen: 1.52 (95% CI: 1.39 to 1.67), HRmen: 1.29 (95% CI: 1.20 to 1.39)) and a higher hazard of death after readmission for women only (HRwomen: 1.19 (95% CI: 1.08 to 1.30). Having offspring with low educational level was associated with higher hazards of readmission (HRwomen: 1.12 (95% CI: 1.06 to 1.19)), (HRmen: 1.06 (95%CI: 1.002 to 1.12)), death without readmission (HRwomen: 1.24 (95% CI: 1.11 to 1.39)), HRmen: 1.16 (95% CI: 1.05 to 1.29) and death after readmission for men only (HRmen: 1.15 (95% CI: 1.05 to 1.25)). Having offspring with medium educational level was associated with a higher hazard of death without readmission for women (HRwomen: 1.11 (95% CI: 1.02 to 1.21)).

Conclusion

Adult offspring and their educational level were associated with higher risk of readmission and death among older adults with COPD.
Sex disparities in self-reported musculoskeletal injuries in the Canadian Armed Forces
Authors: da Silva Danilo F. , Edwards Chris M. , Puranda Jessica L. , Miller Émilie , Semeniuk Kevin , Adamo Kristi B.
Published: June 2023

Recent comprehensive systematic reviews indicate that females are at greater risk of musculoskeletal injuries (MSKi) than males in military populations. Considering the Canadian Armed Forces (CAF) goal of increasing female representation in the next few years, exploring these trends is essential. We aimed to determine the association between biological sex and MSKi in the CAF. An online survey was conducted with active-duty and former CAF members aged 18–65 years. Sex disparities in MSKi (acute or repetitive strain [RSI]) were analyzed using bivariate associations and binary logistic regressions with significance level at p < 0.05. Analyses were stratified by military environment (i.e., Army, Navy, and Air Force). From the 1947 respondents whose biological sex was reported, 855 were females and 1092 were males. Rates of RSI sustained by females and males while serving were 76.2% and 70.5% ( p = 0.011), respectively, whereas 61.4% of females reported acute injuries compared to 63.7% of males ( p = 0.346). Females were more likely to report overall RSI (adjusted odds ratio [aOR]: 1.397; 95% confidence intervals [CI]: 1.068–1.829), RSI having a greater impact on daily activities (aOR [95%CI]: 2.979 [2.093–4.239]) and greater impact on career progress/length (aOR [95%CI]: 1.448 [1.066–1.968]). Acute injuries, also more prevalent in females, were reported to have a greater impact on daily activities (aOR [95%CI]: 1.688 [1.198–2.379]). This study highlights sex disparities in MSKi prevalence and outcomes. Females within the CAF sample presented greater likelihood of reporting RSI, perceived impact of RSI on daily activities and career progress/length, and perceived impact of acute injuries on daily activities.
Study of Antimicrobial Potency of Synthesized Cellulose-Based Nanocomposite Films Incorporating Bi-Fe-Sn Trimetallic Microcrystalline Using Terminalia arjuna Leaf Extract for Packaging and Medicinal Applications
Authors: Dar Amara , Rehman Rabia , Jamil Nimrah , Samin Ghufrana , Jahangir Muhammad Muzammil , Al-thagafi Zahrah T. , Alsantali Reem I. , Al-Hazemi Maha E. , Mitu Liviu
Published: June 2023

In this work, cellulose-based nanocomposite films having trimetallic (Bi, Fe, and Sn) nanoparticles were prepared by green adaptive methodology using Terminalia arjuna leaf extract as a reducing and stabilizing agent. Then, they were characterized by FTIR and SEM. The color change of microcrystalline cellulose films revealed the formation of the trimetallic (Bi, Fe, Sn) nanoparticles. Characteristics absorption peaks for reducing functional groups indicated the presence and role of the plant material used; moreover, the presence of various bands in FTIR spectra below 1000 cm−1 was indicative of the formation of (Bi, Fe, and Sn) nanocomposites. These synthesized nanomaterials were also tested for their antimicrobial potency against Escherichia coli and Pseudomonas aeruginosa. Positive outcomes designated their potential to be adopted for biomedical applications and in food packaging as an alternative of synthetic plastics to control pollution.
Advances in the Study of Laser-Driven Proton-Boron Fusion
Authors: Batani Dimitri , Margarone Daniele , Belloni Fabio
Published: June 2023

The topic of proton-boron fusion has recently attracted considerable interest in the scientific community, both for its future perspectives for energy production and for nearer-term possibilities to realize high-brightness α-particle sources. Very interesting experimental results have been obtained, in particular in laser-driven experiments but also using other experimental approaches. The goal of this special issue is to collect the most recent developments in experiments, theory, advanced targetry, diagnostics, and numerical simulation codes.
Supplementary Information from Prostate Cancer Risk Stratification via Nondestructive 3D Pathology with Deep Learning–Assisted Gland Analysis
Authors: Xie Weisi , Reder Nicholas P. , Koyuncu Can , Leo Patrick , Hawley Sarah , Huang Hongyi , Mao Chenyi , Postupna Nadia , Kang Soyoung , Serafin Robert , Gao Gan , Han Qinghua , Bishop Kevin W. , Barner Lindsey A. , Fu Pingfu , Wright Jonathan L. , Keene C. Dirk , Vaughan Joshua C. , Janowczyk Andrew , Glaser Adam K. , Madabhushi Anant , True Lawrence D. , Liu Jonathan T.C.
Published: June 2023

Supplementary methods, notes, figures, tables, video captions, and references
Supplementary Table S4: Clinical trials of CD73 inhibitors from ENPP1 Immunobiology as a Therapeutic Target
Authors: Ruiz-Fernández de Córdoba Borja , Martínez-Monge Rafael , Lecanda Fernando
Published: June 2023

Clinical trials of CD73 inhibitors
Supplementary Figure 2 from Co-Clinical Study of [fam-] Trastuzumab Deruxtecan (DS8201a) in Patient-Derived Xenograft Models of Uterine Carcinosarcoma and Its Association with Clinical Efficacy
Authors: Yagishita Shigehiro , Nishikawa Tadaaki , Yoshida Hiroshi , Shintani Daisuke , Sato Sho , Miwa Maiko , Suzuki Mikiko , Yasuda Masanori , Ogitani Yusuke , Jikoh Takahiro , Yonemori Kan , Hasegawa Kosei , Hamada Akinobu
Published: June 2023

ER and p53 immunohistochemistry of original and patient-derived xenograft (PDX) tumors
Supplementary Figure 1 from Co-Clinical Study of [fam-] Trastuzumab Deruxtecan (DS8201a) in Patient-Derived Xenograft Models of Uterine Carcinosarcoma and Its Association with Clinical Efficacy
Authors: Yagishita Shigehiro , Nishikawa Tadaaki , Yoshida Hiroshi , Shintani Daisuke , Sato Sho , Miwa Maiko , Suzuki Mikiko , Yasuda Masanori , Ogitani Yusuke , Jikoh Takahiro , Yonemori Kan , Hasegawa Kosei , Hamada Akinobu
Published: June 2023

Growth curve
Supplementary Tables 1 from Proteostasis Modulation in Germline Missense von Hippel Lindau Disease
Authors: Chittiboina Prashant , Mandal Debjani , Bugarini Alejandro , Asuzu David T. , Mullaney Dustin , Mastorakos Panagiotis , Stoica Stefan , Alvarez Reinier , Scott Gretchen , Maric Dragan , Elkahloun Abdel , Zhuang Zhengping , Chew Emily Y. , Yang Chunzhang , Linehan Marston , Lonser Russell R.
Published: June 2023

Supplementary tables in tabs.
Table S4 from Eganelisib, a First-in-Class PI3Kγ Inhibitor, in Patients with Advanced Solid Tumors: Results of the Phase 1/1b MARIO-1 Trial
Authors: Hong David S. , Postow Michael , Chmielowski Bartosz , Sullivan Ryan , Patnaik Amita , Cohen Ezra E.W. , Shapiro Geoffrey , Steuer Conor , Gutierrez Martin , Yeckes-Rodin Heather , Ilaria Robert , O'Connell Brenda , Peng Joanna , Peng Guangbin , Zizlsperger Nora , Tolcher Anthony , Wolchok Jedd D.
Published: June 2023

Representativeness of Study Participants
Table S2 from Eganelisib, a First-in-Class PI3Kγ Inhibitor, in Patients with Advanced Solid Tumors: Results of the Phase 1/1b MARIO-1 Trial
Authors: Hong David S. , Postow Michael , Chmielowski Bartosz , Sullivan Ryan , Patnaik Amita , Cohen Ezra E.W. , Shapiro Geoffrey , Steuer Conor , Gutierrez Martin , Yeckes-Rodin Heather , Ilaria Robert , O'Connell Brenda , Peng Joanna , Peng Guangbin , Zizlsperger Nora , Tolcher Anthony , Wolchok Jedd D.
Published: June 2023

Summary of anti-tumor activity endpoints in patients treated with eganelisib monotherapy and combination therapy
Figure S5 from Proteostasis Modulation in Germline Missense von Hippel Lindau Disease
Authors: Chittiboina Prashant , Mandal Debjani , Bugarini Alejandro , Asuzu David T. , Mullaney Dustin , Mastorakos Panagiotis , Stoica Stefan , Alvarez Reinier , Scott Gretchen , Maric Dragan , Elkahloun Abdel , Zhuang Zhengping , Chew Emily Y. , Yang Chunzhang , Linehan Marston , Lonser Russell R.
Published: June 2023

Figure S5
Figure S4 from Proteostasis Modulation in Germline Missense von Hippel Lindau Disease
Authors: Chittiboina Prashant , Mandal Debjani , Bugarini Alejandro , Asuzu David T. , Mullaney Dustin , Mastorakos Panagiotis , Stoica Stefan , Alvarez Reinier , Scott Gretchen , Maric Dragan , Elkahloun Abdel , Zhuang Zhengping , Chew Emily Y. , Yang Chunzhang , Linehan Marston , Lonser Russell R.
Published: June 2023

Figure S4
Methodology and Criteria for MDSCs 2 from Eganelisib, a First-in-Class PI3Kγ Inhibitor, in Patients with Advanced Solid Tumors: Results of the Phase 1/1b MARIO-1 Trial
Authors: Hong David S. , Postow Michael , Chmielowski Bartosz , Sullivan Ryan , Patnaik Amita , Cohen Ezra E.W. , Shapiro Geoffrey , Steuer Conor , Gutierrez Martin , Yeckes-Rodin Heather , Ilaria Robert , O'Connell Brenda , Peng Joanna , Peng Guangbin , Zizlsperger Nora , Tolcher Anthony , Wolchok Jedd D.
Published: June 2023

Study IPI-549-01 methodology and criteria for assessing MDSCs
Figure S3 from Proteostasis Modulation in Germline Missense von Hippel Lindau Disease
Authors: Chittiboina Prashant , Mandal Debjani , Bugarini Alejandro , Asuzu David T. , Mullaney Dustin , Mastorakos Panagiotis , Stoica Stefan , Alvarez Reinier , Scott Gretchen , Maric Dragan , Elkahloun Abdel , Zhuang Zhengping , Chew Emily Y. , Yang Chunzhang , Linehan Marston , Lonser Russell R.
Published: June 2023

Figure S3
Figure S2 from Proteostasis Modulation in Germline Missense von Hippel Lindau Disease
Authors: Chittiboina Prashant , Mandal Debjani , Bugarini Alejandro , Asuzu David T. , Mullaney Dustin , Mastorakos Panagiotis , Stoica Stefan , Alvarez Reinier , Scott Gretchen , Maric Dragan , Elkahloun Abdel , Zhuang Zhengping , Chew Emily Y. , Yang Chunzhang , Linehan Marston , Lonser Russell R.
Published: June 2023

Figure S2
Supplementary Figure 1 from Antitumor Efficacy of Dual Blockade with Encorafenib + Cetuximab in Combination with Chemotherapy in Human BRAFV600E-Mutant Colorectal Cancer
Authors: Napolitano Stefania , Woods Melanie , Lee Hey Min , De Falco Vincenzo , Martini Giulia , Della Corte Carminia Maria , Martinelli Erika , Famiglietti Vincenzo , Ciardiello Davide , Anderson Amanda , Fowlkes Natalie Wall , Villareal Oscar Eduardo , Sorokin Alexey , Kanikarla Preeti , Coker Olu , Morris Van , Altucci Lucia , Tabernero Josep , Troiani Teresa , Ciardiello Fortunato , Kopetz Scott
Published: June 2023

Differentially enriched hallmark gene sets after cytotoxic chemotherapy and targeted therapy of B1003b PDX tumor samples.
Supplementary Figure S5 from Proinflammatory Macrophage Activation by the Polysialic Acid-Siglec-16 Axis Is Linked to Increased Survival of Patients with Glioblastoma
Authors: Thiesler Hauke , Gretenkort Lina , Hoffmeister Leonie , Albers Iris , Ohlmeier Luisa , Röckle Iris , Verhagen Andrea , Banan Rouzbeh , Köpcke Nora , Krönke Nicole , Feuerhake Friedrich , Behling Felix , Barrantes-Freer Alonso , Mielke Dorothee , Rohde Veit , Hong Bujung , Varki Ajit , Schwabe Kerstin , Krauss Joachim K. , Stadelmann Christine , Hartmann Christian , Hildebrandt Herbert
Published: June 2023

OS analysis of the two GB cohorts individually stratified for CD163 to CD68 or CD74 to IBA1 ratios
Supplementary Table S1 from SALVO: Single-Arm Trial of Ipilimumab and Nivolumab as Adjuvant Therapy for Resected Mucosal Melanoma
Authors: Kottschade Lisa A. , Pond Gregory Russell , Olszanski Anthony J. , Zakharia Yousef , Domingo-Musibay Evidio , Hauke Ralph J. , Curti Brendan D. , Schober Sarah , Milhem Mohammed M. , Block Matthew Stephen , Hieken Tina , McWilliams Robert R.
Published: June 2023

Adverse Events Per Patient
Supplementary Figure S1 from SALVO: Single-Arm Trial of Ipilimumab and Nivolumab as Adjuvant Therapy for Resected Mucosal Melanoma
Authors: Kottschade Lisa A. , Pond Gregory Russell , Olszanski Anthony J. , Zakharia Yousef , Domingo-Musibay Evidio , Hauke Ralph J. , Curti Brendan D. , Schober Sarah , Milhem Mohammed M. , Block Matthew Stephen , Hieken Tina , McWilliams Robert R.
Published: June 2023

Study flow diagram
Supplementary Figure S2 from Proinflammatory Macrophage Activation by the Polysialic Acid-Siglec-16 Axis Is Linked to Increased Survival of Patients with Glioblastoma
Authors: Thiesler Hauke , Gretenkort Lina , Hoffmeister Leonie , Albers Iris , Ohlmeier Luisa , Röckle Iris , Verhagen Andrea , Banan Rouzbeh , Köpcke Nora , Krönke Nicole , Feuerhake Friedrich , Behling Felix , Barrantes-Freer Alonso , Mielke Dorothee , Rohde Veit , Hong Bujung , Varki Ajit , Schwabe Kerstin , Krauss Joachim K. , Stadelmann Christine , Hartmann Christian , Hildebrandt Herbert
Published: June 2023

PolySia on CD11c-positive and on CD45-positive, IBA1-negative cells
Fig S7 from Dynamics of Sequence and Structural Cell-Free DNA Landscapes in Small-Cell Lung Cancer
Authors: Sivapalan Lavanya , Iams Wade T. , Belcaid Zineb , Scott Susan C. , Niknafs Noushin , Balan Archana , White James R. , Kopparapu Prasad , Cann Christopher , Landon Blair V. , Pereira Gavin , Velculescu Victor E. , Hann Christine L. , Lovly Christine M. , Anagnostou Valsamo
Published: June 2023

Survival analyses of 31 patients with evaluable baseline plasma samples revealed that ctDNA molecular responses were significantly associated with both (A) overall survival-OS and (B) progression-free survival-PFS. Patients classified as molecular responders had a significantly longer OS and PFS compared to patients who were assigned a classification of molecular response f/b recrudescence or molecular progression. Comparison between molecular responses and radiographic assessments (PR/CR vs SD/PD/MR) in these patients revealed that ctDNA molecular responses were a stronger predictor of (C) OS at 12 and (D) 36 months and PFS at (E) 3 and (F) 12 months, compared to best overall radiographic responses.
Fig S3 from Dynamics of Sequence and Structural Cell-Free DNA Landscapes in Small-Cell Lung Cancer
Authors: Sivapalan Lavanya , Iams Wade T. , Belcaid Zineb , Scott Susan C. , Niknafs Noushin , Balan Archana , White James R. , Kopparapu Prasad , Cann Christopher , Landon Blair V. , Pereira Gavin , Velculescu Victor E. , Hann Christine L. , Lovly Christine M. , Anagnostou Valsamo
Published: June 2023

Sequence alterations that were classified as germline (median 44.9%, range 27.3% - 73.1%) had the highest overall MAFs, compared to both tumor-derived (median 10.2%, range 0.1% - 75.7%) and clonal-hematopoiesis-derived (CH-derived) variants (median 0.8%, range 0.1 – 86.7%). Tumor-derived variants had significantly higher MAFs compared to CH-derived variants. P values were calculated using the Mann-Whitney U test. **** p < 0.0001
Supplementary Figures S1-S15 from Exploring the Immunogenicity of Noncanonical HLA-I Tumor Ligands Identified through Proteogenomics
Authors: Lozano-Rabella Maria , Garcia-Garijo Andrea , Palomero Jara , Yuste-Estevanez Anna , Erhard Florian , Farriol-Duran Roc , Martín-Liberal Juan , Ochoa-de-Olza Maria , Matos Ignacio , Gartner Jared J. , Ghosh Michael , Canals Francesc , Vidal August , Piulats Josep Maria , Matías-Guiu Xavier , Brana Irene , Muñoz-Couselo Eva , Garralda Elena , Schlosser Andreas , Gros Alena
Published: June 2023

Supplementary Figure 1. Validation of HLA-I ligand tumor antigen candidates with synthetic peptidesSupplementary Figure 2. Validation of selected HLA-I ligand tumor antigen candidates identified in Mel-1 and Mel-3 with isotope-labeled peptidesSupplementary Figure 3. Frequency of nonC peptides detected in HLA-I.Supplementary Fig. 4. HLA-I allele binding motif of all patients included in the study.Supplementary Figure 5. A fraction of nonC-TL can be detected in publicly available immunopeptidomics datasets from human tumor biopsiesSupplementary Figure 6. Evaluation of pre-existing T-cell responses to candidate tumor antigens in cancer patientsSupplementary Figure 7. Enrichment of antigen-specific T cells from cancer patients by flow cytometry-based sorting.Supplementary Figure 8. Deconvolution of peptide pools containing recognized CGA or melanoma-associated antigens.Supplementary Figure 9. Functional avidity and specificity of neoantigen-specific T cells isolated from cancer patients.Supplementary Figure 10. HLA restriction element and recognition of autologous tumor cell lines by antigen-specific T cells isolated from cancer patients.SupplementaryFigure 11. Genomic location of the three immunogenic nonC-TL identified through IVS.Supplementary Figure 12. Recognition of the predicted ORFs encoding the immunogenic nonC-TL by TCR transduced cells.Supplementary Figure 13. Loss of recognition of TCL transfected with Cas9-sgRNA targeting the predicted 5’U-HOXC13 ORF.Supplementary Figure 14. Assessment of expression and translation of the immunogenic nonC-TL in human healthy cells.Supplementary Figure 15. NonC-TL are the main source of candidate tumor antigens identified by proteogenomics but tumor-reactive T cells preferentially recognize neoantigens derived from NSM.
Supplementary Data S3 from Exploring the Immunogenicity of Noncanonical HLA-I Tumor Ligands Identified through Proteogenomics
Authors: Lozano-Rabella Maria , Garcia-Garijo Andrea , Palomero Jara , Yuste-Estevanez Anna , Erhard Florian , Farriol-Duran Roc , Martín-Liberal Juan , Ochoa-de-Olza Maria , Matos Ignacio , Gartner Jared J. , Ghosh Michael , Canals Francesc , Vidal August , Piulats Josep Maria , Matías-Guiu Xavier , Brana Irene , Muñoz-Couselo Eva , Garralda Elena , Schlosser Andreas , Gros Alena
Published: June 2023

Tumor cell line HLA-I typing and tumor type
Table S6 from Clinical Importance of the lncRNA NEAT1 in Cancer Patients Treated with Immune Checkpoint Inhibitors
Authors: Toker Joseph , Iorgulescu J. Bryan , Ling Alexander L. , Villa Genaro R. , Gadet Josephina A.M.A. , Parida Laxmi , Getz Gad , Wu Catherine J. , Reardon David A. , Chiocca E. Antonio , Mineo Marco
Published: June 2023

Glioblastoma patient characteristics (DFCI)
Table S2 from Clinical Importance of the lncRNA NEAT1 in Cancer Patients Treated with Immune Checkpoint Inhibitors
Authors: Toker Joseph , Iorgulescu J. Bryan , Ling Alexander L. , Villa Genaro R. , Gadet Josephina A.M.A. , Parida Laxmi , Getz Gad , Wu Catherine J. , Reardon David A. , Chiocca E. Antonio , Mineo Marco
Published: June 2023

Melanoma patient characteristics (GSE78220)
Figure S1 from Expression and Therapeutic Targeting of TROP-2 in Treatment-Resistant Prostate Cancer
Authors: Sperger Jamie M. , Helzer Kyle T. , Stahlfeld Charlotte N. , Jiang Dawei , Singh Anupama , Kaufmann Katherine R. , Niles David J. , Heninger Erika , Rydzewski Nicholas R. , Wang Liguo , Wang Liewei , Yang Rendong , Ren Yanan , Engle Jonathan W. , Huang Peng , Kyriakopoulos Christos E. , Slovin Susan F. , Soule Howard R. , Zhao Shuang G. , Kohli Manish , Tagawa Scott T. , Cai Weibo , Dehm Scott M. , Lang Joshua M.
Published: June 2023

Figure S1. Correlation of TACSTD2 with Prostate Cancer Cell Surface Markers.
Table S1 from Clinical Importance of the lncRNA NEAT1 in Cancer Patients Treated with Immune Checkpoint Inhibitors
Authors: Toker Joseph , Iorgulescu J. Bryan , Ling Alexander L. , Villa Genaro R. , Gadet Josephina A.M.A. , Parida Laxmi , Getz Gad , Wu Catherine J. , Reardon David A. , Chiocca E. Antonio , Mineo Marco
Published: June 2023

Primers used in the study.
Supplementary Fig. 5 from Clinical Importance of the lncRNA NEAT1 in Cancer Patients Treated with Immune Checkpoint Inhibitors
Authors: Toker Joseph , Iorgulescu J. Bryan , Ling Alexander L. , Villa Genaro R. , Gadet Josephina A.M.A. , Parida Laxmi , Getz Gad , Wu Catherine J. , Reardon David A. , Chiocca E. Antonio , Mineo Marco
Published: June 2023

Supplementary Fig. 5 Classification of single cells.
Supplementary Fig. 3 from Clinical Importance of the lncRNA NEAT1 in Cancer Patients Treated with Immune Checkpoint Inhibitors
Authors: Toker Joseph , Iorgulescu J. Bryan , Ling Alexander L. , Villa Genaro R. , Gadet Josephina A.M.A. , Parida Laxmi , Getz Gad , Wu Catherine J. , Reardon David A. , Chiocca E. Antonio , Mineo Marco
Published: June 2023

Supplementary Fig. 3 NEAT1 levels are associated with the upregulation of the interferon-gamma pathway in glioblastoma.
Figure S7 from Subsets of IFN Signaling Predict Response to Immune Checkpoint Blockade in Patients with Melanoma
Authors: Horowitch Brooke , Lee Daniel Y. , Ding Min , Martinez-Morilla Sandra , Aung Thazin Nwe , Ouerghi Feriel , Wang Xueting , Wei Wei , Damsky William , Sznol Mario , Kluger Harriet , Rimm David L. , Ishizuka Jeffrey J.
Published: June 2023

Supplemental Figure 7: pSTAT1Y701, CD3, and driver mutation status in tumors based on combined STAT1 and PD-L1 status.
Figure S5 from Subsets of IFN Signaling Predict Response to Immune Checkpoint Blockade in Patients with Melanoma
Authors: Horowitch Brooke , Lee Daniel Y. , Ding Min , Martinez-Morilla Sandra , Aung Thazin Nwe , Ouerghi Feriel , Wang Xueting , Wei Wei , Damsky William , Sznol Mario , Kluger Harriet , Rimm David L. , Ishizuka Jeffrey J.
Published: June 2023

Supplementary Figure 5: STAT1, pSTAT1Y701, and PD-L1 have similar baseline expression and impact on survival between tissue types
Figure S1 from Subsets of IFN Signaling Predict Response to Immune Checkpoint Blockade in Patients with Melanoma
Authors: Horowitch Brooke , Lee Daniel Y. , Ding Min , Martinez-Morilla Sandra , Aung Thazin Nwe , Ouerghi Feriel , Wang Xueting , Wei Wei , Damsky William , Sznol Mario , Kluger Harriet , Rimm David L. , Ishizuka Jeffrey J.
Published: June 2023

Supplemental Figure 1: Test TMA of tumor cell lines and human T cells for validation of AQUA signal quantification.
Data from Exploring the Immunogenicity of Noncanonical HLA-I Tumor Ligands Identified through Proteogenomics
Authors: Lozano-Rabella Maria , Garcia-Garijo Andrea , Palomero Jara , Yuste-Estevanez Anna , Erhard Florian , Farriol-Duran Roc , Martín-Liberal Juan , Ochoa-de-Olza Maria , Matos Ignacio , Gartner Jared J. , Ghosh Michael , Canals Francesc , Vidal August , Piulats Josep Maria , Matías-Guiu Xavier , Brana Irene , Muñoz-Couselo Eva , Garralda Elena , Schlosser Andreas , Gros Alena
Published: June 2023

AbstractPurpose:
Tumor antigens are central to antitumor immunity. Recent evidence suggests that peptides from noncanonical (nonC) aberrantly translated proteins can be presented on HLA-I by tumor cells. Here, we investigated the immunogenicity of nonC tumor HLA-I ligands (nonC-TL) to better understand their contribution to cancer immunosurveillance and their therapeutic applicability.
Experimental Design:
Peptides presented on HLA-I were identified in 9 patient-derived tumor cell lines from melanoma, gynecologic, and head and neck cancer through proteogenomics. A total of 507 candidate tumor antigens, including nonC-TL, neoantigens, cancer-germline, or melanocyte differentiation antigens, were tested for T-cell recognition of preexisting responses in patients with cancer. Donor peripheral blood lymphocytes (PBL) were in vitro sensitized against 170 selected nonC-TL to isolate antigen-specific T-cell receptors (TCR) and evaluate their therapeutic potential.
Results:
We found no recognition of the 507 nonC-TL tested by autologous ex vivo expanded tumor-reactive T-cell cultures while the same cultures demonstrated reactivity to mutated, cancer-germline, or melanocyte differentiation antigens. However, in vitro sensitization of donor PBL against 170 selected nonC-TL, led to the identification of TCRs specific to three nonC-TL, two of which mapped to the 5′ UTR regions of HOXC13 and ZKSCAN1, and one mapping to a noncoding spliced variant of C5orf22C. T cells targeting these nonC-TL recognized cancer cell lines naturally presenting their corresponding antigens. Expression of the three immunogenic nonC-TL was shared across tumor types and barely or not detected in normal cells.
Conclusions:
Our findings predict a limited contribution of nonC-TL to cancer immunosurveillance but demonstrate they may be attractive novel targets for widely applicable immunotherapies.

See related commentary by Fox et al., p. 2173
Data from Eganelisib, a First-in-Class PI3Kγ Inhibitor, in Patients with Advanced Solid Tumors: Results of the Phase 1/1b MARIO-1 Trial
Authors: Hong David S. , Postow Michael , Chmielowski Bartosz , Sullivan Ryan , Patnaik Amita , Cohen Ezra E.W. , Shapiro Geoffrey , Steuer Conor , Gutierrez Martin , Yeckes-Rodin Heather , Ilaria Robert , O'Connell Brenda , Peng Joanna , Peng Guangbin , Zizlsperger Nora , Tolcher Anthony , Wolchok Jedd D.
Published: June 2023

AbstractPurpose:
Eganelisib (IPI-549) is a first-in-class, orally administered, highly selective PI3Kγ inhibitor with antitumor activity alone and in combination with programmed cell death protein 1/ligand 1 (PD-1/PD-L1) inhibitors in preclinical studies. This phase 1/1b first-in-human, MAcrophage Reprogramming in Immuno-Oncology-1 (NCT02637531) study evaluated the safety and tolerability of once-daily eganelisib as monotherapy and in combination with nivolumab in patients with solid tumors.
Patients and Methods:
Dose-escalation cohorts received eganelisib 10–60 mg as monotherapy (n = 39) and 20–40 mg when combined with nivolumab (n = 180). Primary endpoints included incidence of dose-limiting toxicities (DLT) and adverse events (AE).
Results:
The most common treatment-related grade ≥3 toxicities with monotherapy were increased alanine aminotransferase (ALT; 18%), aspartate aminotransferase (AST; 18%), and alkaline phosphatase (5%). No DLTs occurred in the first 28 days; however, toxicities meeting DLT criteria (mostly grade 3 reversible hepatic enzyme elevations) occurred with eganelisib 60 mg in later treatment cycles. In combination, the most common treatment-related grade ≥3 toxicities were increased AST (13%) and increased ALT and rash (10%). Treatment-related serious AEs occurred in 5% of monotherapy patients (grade 4 bilirubin and hepatic enzyme increases in one patient each) and 13% in combination (pyrexia, rash, cytokine release syndrome, and infusion-related reaction in ≥2 patients each). Antitumor activity was observed in combination, including patients who had progressed on PD-1/PD-L1 inhibitors.
Conclusions:
On the basis of the observed safety profile, eganelisib doses of 30 and 40 mg once daily in combination with PD-1/PD-L1 inhibitors were chosen for phase 2 study.