cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Neuronal dynamics of the default mode network and anterior insular cortex: Intrinsic properties and modulation by salient stimuli
Creators: name: Cerri, Domenic Hayden
name: Ryali, Srikanth
name: Hsu, Li-Ming
name: Shih, Yen-Yu Ian
name: Wang, Tzu-Wen Winnie
name: Lee, Byeongwook
name: Zhang, Wei-Ting
name: Menon, Vinod
name: Chao, Tzu-Hao Harry
Publisher: name: American Association for the Advancement of Science (AAAS)
Year: 2023

description: The default mode network (DMN) is critical for self-referential mental processes, and its dysfunction is implicated in many neuropsychiatric disorders. However, the neurophysiological properties and task-based functional organization of the rodent DMN are poorly understood, limiting its translational utility. Here, we combine fiber photometry with functional magnetic resonance imaging (fMRI) and computational modeling to characterize dynamics of putative rat DMN nodes and their interactions with the anterior insular cortex (AI) of the salience network. Our analysis revealed neuronal activity changes in AI and DMN nodes preceding fMRI-derived DMN activations and cyclical transitions between brain network states. Furthermore, we demonstrate that salient oddball stimuli suppress the DMN and enhance AI neuronal activity and that the AI causally inhibits the retrosplenial cortex, a prominent DMN node. These findings elucidate the neurophysiological foundations of the rodent DMN, its spatiotemporal dynamical properties, and modulation by salient stimuli, paving the way for future translational studies.
sj-docx-2-cjk-10.1177_20543581221145073 – Supplemental material for Risk Factors of AKI in Acute Respiratory Distress Syndrome: A Time-Dependent Competing Risk Analysis on Severe COVID-19 Patients
Creators: name: Marchiset, Antoine
name: Serazin, Valerie
name: Ben Hadj Salem, Omar
name: Pichereau, Claire
name: Lima Da Silva, Lionel
name: Au, Siu-Ming
name: Barbier, Christophe
name: Loubieres, Yann
name: Hayon, Jan
name: Gross, Julia
name: Outin, Herve
name: Jamme, Matthieu
Publisher: name: SAGE Journals
Year: 2023
Subjects: Medicine

description: Supplemental material, sj-docx-2-cjk-10.1177_20543581221145073 for Risk Factors of AKI in Acute Respiratory Distress Syndrome: A Time-Dependent Competing Risk Analysis on Severe COVID-19 Patients by Antoine Marchiset, Valerie Serazin, Omar Ben Hadj Salem, Claire Pichereau, Lionel Lima Da Silva, Siu-Ming Au, Christophe Barbier, Yann Loubieres, Jan Hayon, Julia Gross, Herve Outin and Matthieu Jamme in Canadian Journal of Kidney Health and Disease
Noradrenergic dysfunction accelerates LPS-elicited inflammation-related ascending sequential neurodegeneration and deficits in non-motor/motor functions
Creators: name: Wang, Qingshan
name: Oyarzabal, Esteban
name: Hong, Jau-Shyong
name: Moy, Sheryl S
name: Shih, Yen-Yu Ian
name: Jiang, Lulu
name: Riddick, Natallia V
name: Wilson, Belinda
name: Song, Sheng
Publisher: name: Elsevier
Year: 2019

description: The loss of central norepinephrine (NE) released by neurons of the locus coeruleus (LC) occurs with aging, and is thought to be an important factor in producing the many of the nonmotor symptoms and exacerbating the degenerative process in animal models of Parkinson's disease (PD). We hypothesize that selectively depleting noradrenergic LC neurons prior to the induction of chronic neuroinflammation may not only accelerate the rate of progressive neurodegeneration throughout the brain, but may exacerbate nonmotor and motor behavioral phenotypes that recapitulate symptoms of PD. For this reason, we used a "two-hit" mouse model whereby brain NE were initially depleted by DSP-4 one week prior to exposing mice to LPS. We found that pretreatment with DSP-4 potentiated LPS-induced sequential neurodegeneration in SNpc, hippocampus, and motor cortex, but not in VTA and caudate/putamen. Mechanistic study revealed that DSP-4 enhanced LPS-induced microglial activation and subsequently elevated neuronal oxidative stress in affected brain regions in a time-dependent pattern. To further characterize the effects of DSP-4 on non-motor and motor symptoms in the LPS model, physiological and behavioral tests were performed at different time points following injection. Consistent with the enhanced neurodegeneration, DSP-4 accelerated the progressive deficits of non-motor symptoms including hyposmia, constipation, anxiety, sociability, exaggerated startle response and impaired learning. Furthermore, notable decreases of motor functions, including decreased rotarod activity, grip strength, and gait disturbance, were observed in treated mice. In summary, our studies provided not only an accelerated "two-hit" PD model that recapitulates the features of sequential neuron loss and the progression of motor/non-motor symptoms of PD, but also revealed the critical role of early LC noradrenergic neuron damage in the pathogenesis of PD-like symptoms.
66011: Swift and Slow
Creators: name: Project Team, First World War Poetry Digital Archive
Publisher: name: University of Oxford
Year: 2024
Subjects: classificationCode: 430304
subject: British history
classificationCode: 430308
subject: European history (excl. British, classical Greek and Roman)
classificationCode: 430316
subject: International history

description: Typescript with one pencil correction in an unknown hand. Signed 'Ivor Gurney'. Prepared by Marion Scott, and possibly amongst those poems submitted to and rejected by the firm Sidgwick and Jackson in 1922. Another draft of this poem exists in another notebook.
Nucleophilic Aromatic Substitution of Unactivated Fluoroarenes Enabled by Organic Photoredox Catalysis
Creators: name: Nicewicz, David A.
name: Pistritto, Vincent A.
name: Schutzbach-Horton, Megan E.
Publisher: name: American Chemical Society (ACS)
Year: 2020

description: Nucleophilic aromatic substitution (SNAr) is a classical reaction with well-known reactivity toward electron-poor fluoroarenes. However, electron-neutral and electron-rich fluoro(hetero)arenes are considerably underrepresented. Herein, we present a method for the nucleophilic defluorination of unactivated fluoroarenes enabled by cation radical-accelerated nucleophilic aromatic substitution. The use of organic photoredox catalysis renders this method operationally simple under mild conditions and is amenable to various nucleophile classes, including azoles, amines, and carboxylic acids. Select fluorinated heterocycles can be functionalized using this method. In addition, the late-stage functionalization of pharmaceuticals is also presented. Computational studies demonstrate that the site selectivity of the reaction is dictated by arene electronics.
Supplemental Material—Identifying research priorities with children, youth, and families: A scoping review
Creators: name: Modanloo, Shokoufeh
name: Correll, Quinn
name: Correll, Rhonda
name: Major, Nathalie
name: Quinlan, Michelle
name: Reszel, Jessica
name: Wilding, Jodi
name: Lin Zhou, Zhi
name: Franck, Linda S
name: Harrison, Denise
Publisher: name: SAGE Journals
Year: 2023
Subjects: subject: 111708 Health and Community Services
subject: FOS: Health sciences
subject: 111099 Nursing not elsewhere classified
subject: 111403 Paediatrics
subject: FOS: Clinical medicine

description: Supplemental Material for Identifying research priorities with children, youth, and families: A scoping review by Shokoufeh Modanloo, Quinn Correll, Rhonda Correll, Nathalie Major, Michelle Quinlan, Jessica Reszel, Jodi Wilding, Zhi Lin Zhou, Linda S Franck, and Denise Harrison in Journal of Child Health Care
Decommissioning O&G Multi-Use Combinations In Northern Adriatic Sea
Creators: name: Barbanti, Andrea
name: Depellegrin, Daniel
name: Venier, Chiara
name: Sarretta, Alessandro
name: Castellani, Chiara
name: Carrer, Sebastiano
name: Bocci, Martina
name: Ramieri, Emiliano
Publisher: name: Zenodo
Year: 2018
Subjects: multi-use
Adriatic Sea
oil and gas
decommissioning

description: Poster presented during the H2020 "MUSES" project meeting and stakeholder workshop.

The poster presents the current situation related to the decommissioning of offshore oil and gas platforms in the sea water of Emilia-Romagna Region (Italy) and the perspective of possible reuse in a multiuse context in combination with other human uses, e.g. marine renewable energy, tourism, aquaculture, environmental protection.

Methodology and results from stakeholders' interviews carried out in the H2020 MUSES project (https://muses-project.eu/) are presented and briefly discussed.
Forward Beam Monitor Data From Katrin First Tritium Measurements
Creators: name: HICKFORD, Stephanie
Publisher: name: Zenodo
Year: 2018

description: The KATRIN experiment will measure the neutrino mass with a sensitivity of 0.2 eV
0.2~eV
(90 %
90~\%
CL). This will be achieved by observing the β
\beta
-electron spectrum of tritium decay. The tritium source properties, in particular the activity, need to be stable and known to a high precision to accurately measure the neutrino mass. The source will undergo extensive measurements from several monitoring systems. The Forward Beam Monitor (FBM) is one such monitoring system.

The FBM detector board contains pin diodes, a hall sensor, and a temperature gauge. It is inserted into the flux tube where the electron flux density is 106 s−1mm−2
10^6~s^{-1}mm^{-2}
. The β
\beta
-electrons are detected with a precision requirement of 0.1 %
0.1~\%
in less than a minute. The measurement principle and precision using the FBM pin diodes were demonstrated using rubidium and americium calibration sources. The KATRIN first tritium measurement phase took place during 2018 where tritium spectra and count rates were measured.
One-pot synthesis of carboxymethyl-dextran coated iron oxide nanoparticles (CION) for preclinical fMRI and MRA applications
Creators: name: Liu, Carolyn
name: Chen, Lars
name: Oyarzabal, Esteban A
name: Das, Manasmita
name: Donley, Carrie
name: Berge, Nathalie Van Den
name: Zhang, Weiting
name: Gerlach, Gabby
name: Chao, Tzu-Hao Harry
name: Shah, Neal
name: Lee, Sung-Ho
name: Shih, Yen-Yu Ian
name: Montgomery, Stephanie A
Publisher: name: Elsevier
Year: 2021

description: Superparamagnetic iron-oxide nanoparticles are robust contrast agents for magnetic resonance imaging (MRI) used for sensitive structural and functional mapping of the cerebral blood volume (CBV) when administered intravenously. To date, many CBV-MRI studies are conducted with Feraheme, manufactured for the clinical treatment of iron-deficiency. Unfortunately, Feraheme is currently not available outside the United States due to commercial and regulatory constraints, making CBV-MRI methods either inaccessible or very costly to achieve. To address this barrier, we developed a simple, one-pot recipe to synthesize Carboxymethyl-dextran coated Iron Oxide Nanoparticles, namely, "CION", suitable for preclinical CBV-MRI applications. Here we disseminate a step-by-step instruction of our one-pot synthesis protocol, which allows CION to be produced in laboratories with minimal cost. We also characterized different CION-conjugations by manipulating polymer to metal stoichiometric ratio in terms of their size, surface chemistry, and chemical composition, and shifts in MR relaxivity and pharmacokinetics. We performed several proof-of-concept experiments in vivo, demonstrating the utility of CION for functional and structural MRI applications, including hypercapnic CO2 challenge, visual stimulation, targeted optogenetic stimulation, and microangiography. We also present evidence that CION can serve as a cross-modality research platform by showing concurrent in vivo optical and MRI measurement of CBV using fluorescent-labeled CION. The simplicity and cost-effectiveness of our one-pot synthesis method should allow researchers to reproduce CION and tailor the relaxivity and pharmacokinetics according to their imaging needs. It is our hope that this work makes CBV-MRI more openly available and affordable for a variety of research applications.
sj-docx-4-sjs-10.1177_14574969231181232 – Supplemental material for Ultrasound-guided closure of the femoral artery during venoarterial decannulation using a large-bore closure device
Creators: name: Rahman, Tasnia
name: Herajärvi, Johanna
name: Ahonen, Henri
name: Jormalainen, Mikko
name: Syrjälä, Simo
name: Järvinen, Tommi
name: Juvonen, Tatu
name: Dahlbacka, Sebastian
Publisher: name: SAGE Journals
Year: 2023
Subjects: classificationCode: 110323
subject: Surgery

description: Supplemental material, sj-docx-4-sjs-10.1177_14574969231181232 for Ultrasound-guided closure of the femoral artery during venoarterial decannulation using a large-bore closure device by Tasnia Rahman, Johanna Herajärvi, Henri Ahonen, Mikko Jormalainen, Simo Syrjälä, Tommi Järvinen, Tatu Juvonen and Sebastian Dahlbacka in Scandinavian Journal of Surgery
Optimizing Advances in Nanoparticle Delivery for Cancer Immunotherapy
Creators: name: Seyedin, Steven N
name: Henderson, Kelly
name: Sun, Bo
name: Callaghan, Cameron
name: Wang, Andrew Z
name: Caster, Joseph M
Publisher: name: Elsevier
Year: 2019

description: Cancer immunotherapy is one of the fastest growing and most promising fields in clinical oncology. T-cell checkpoint inhibitors are revolutionizing the management of advanced cancers including non-small cell lung cancer and melanoma. Unfortunately, many common cancers are not responsive to these drugs and resistance remains problematic. A growing number of novel cancer immunotherapies have been discovered but their clinical translation has been limited by shortcomings of conventional drug delivery. Immune signaling is tightly-regulated and often requires simultaneous or near-simultaneous activation of multiple signals in specific subpopulations of immune cells. Nucleic acid therapies, which require intact intracellular delivery, are among the most promising approaches to modulate the tumor microenvironment to a pro-immunogenic phenotype. Advanced nanomedicines can be precisely engineered to overcome many of these limitations and appear well-poised to enable the clinical translation of promising cancer immunotherapies.
Le Crowdfunding au Maroc : Modèles existants et perspectives de développement
Creators: name: RHABRA, Sanae
name: GUERGUER, Wafa
Publisher: name: Revue Economie, Gestion et Société
Year: 2015
Subjects: Crowdfunding, Modèles, Perspectives, Développement.

description: À l’heure d’une crise économique durable et d’une contraction des investissements des Business Angel, le Crowdfunding connaît un engouement remarquable dans les pays développés. Au Maroc, ce nouveau mode de financement a contribué à la consolidation d’une activité qui a trait à l'économie réelle tout en concevant de nouvelles perspectives de création et de développement des activités socioéconomiques. Bien que ce mécanisme alternatif soit une pratique qui devient de plus en plus répandue au milieu des entrepreneurs marocains, plusieurs freins entravent son expansion dans le royaume. L’objectif de ce papier est de mettre en évidence les perspectives de développement du Crowdfunding au Maroc. Pour ce faire, nous avons opté pour une démarche qualitative à caractère exploratoire basée sur l’analyse des facteurs clés de succès et de blocage de ce nouveau modèle de financement.
description: Revue Economie, Gestion et Société, No 2 (2015)
Optogenetic stimulation of anterior insular cortex neurons in male rats reveals causal mechanisms underlying suppression of the default mode network by the salience network
Creators: name: Lee, Byeongwook
name: Yuan, Rui
name: Shih, Yen-Yu Ian
name: Menon, Vinod
name: Cerri, Domenic
name: Lee, Sung-Ho
Publisher: name: Springer Nature
Year: 2023

description: The salience network (SN) and default mode network (DMN) play a crucial role in cognitive function. The SN, anchored in the anterior insular cortex (AI), has been hypothesized to modulate DMN activity during stimulus-driven cognition. However, the causal neural mechanisms underlying changes in DMN activity and its functional connectivity with the SN are poorly understood. Here we combine feedforward optogenetic stimulation with fMRI and computational modeling to dissect the causal role of AI neurons in dynamic functional interactions between SN and DMN nodes in the male rat brain. Optogenetic stimulation of Chronos-expressing AI neurons suppressed DMN activity, and decreased AI-DMN and intra-DMN functional connectivity. Our findings demonstrate that feedforward optogenetic stimulation of AI neurons induces dynamic suppression and decoupling of the DMN and elucidates previously unknown features of rodent brain network organization. Our study advances foundational knowledge of causal mechanisms underlying dynamic cross-network interactions and brain network switching.
TESS Experiments: Genetic Genealogy as a Window into Genomic Science: Racial Boundary Blurring and Reification
Creators: name: Hochschild, Jennifer
name: Sen, Maya
Publisher: name: Roper Center for Public Opinion Research
Year: 2022

description: Time-sharing Experiments for the Social Sciences (TESS) offers researchers the opportunity to capture the internal validity of experiments. Investigators submit proposals, and TESS fields successful proposals for free on a representative sample of adults in the United States. This experiment was conducted to explore respondent perception of ethnicity in the context of genealogy. The 1095 total respondents were divided according to their race/ethnicity into five conditions: white, African American, Hispanic, Asian American, or mixed race. Each respondent was asked to read a series of vignettes about individuals who underwent genealogical testing, after which they were asked to react to the posited results. The gender of the hypothetical person matched that of the respondent, while the race matched that of the respondent for questions 1 and 2 and differed for questions 3 and 4. This allowed for comparisons between respondents’ perception of in- versus out-group results, as well as perceived viability of those results.
Pancreatic ductal adenocarcinoma progression is restrained by stromal matrix
Creators: name: Collisson, Eric A.
name: Joseph, Nancy M.
name: Yeh, Jen Jen
name: Volmar, Keith
name: Weichert, Wilko
name: Horst, David
name: Hongo, Henry
name: Weaver, Valerie M.
name: Steiger, Katja
name: Blais, Edik M.
name: Ritchie, Alexa J.
name: Umetsu, Sarah E.
name: Jiang, Honglin
name: Tempero, Margaret A.
name: Wang, Zhen J. (Department of Radiology and Biomedical Imaging, UCSF, San Francisco, California, USA.
name: Hollingsworth, Michael
name: McGregor, Kimberly
name: Stashko, Connor
name: Lu, Brian
name: Pishvaian, Michael J.
name: Kriegsmann, Mark
name: Li, Mingyu
name: Torphy, Robert J.
Publisher: name: American Society for Clinical Investigation
Year: 2020

description: Desmoplasia describes the deposition of extensive extracellular matrix and defines primary pancreatic ductal adenocarcinoma (PDA). The acellular component of this stroma has been implicated in PDA pathogenesis and is being targeted therapeutically in clinical trials. By analyzing the stromal content of PDA samples from numerous annotated PDA data sets and correlating stromal content with both anatomic site and clinical outcome, we found PDA metastases in the liver, the primary cause of mortality to have less stroma, have higher tumor cellularity than primary tumors. Experimentally manipulating stromal matrix with an anti-lysyl oxidase like-2 (anti-LOXL2) antibody in syngeneic orthotopic PDA mouse models significantly decreased matrix content, led to lower tissue stiffness, lower contrast retention on computed tomography, and accelerated tumor growth, resulting in diminished overall survival. These studies suggest an important protective role of stroma in PDA and urge caution in clinically deploying stromal depletion strategies.
Parasites, niche modification and the host microbiome: A field survey of multiple parasites
Creators: name: Jones, Corbin D.
name: Mitchell, Charles E.
name: Carbone, Ignazio
name: O'Keeffe, Kayleigh R.
name: Halliday, Fletcher W.
Publisher: name: Wiley
Year: 2021

description: Parasites can affect and be affected by the host's microbiome, with consequences for host susceptibility, parasite transmission, and host and parasite fitness. Yet, two aspects of the relationship between parasite infection and host microbiota remain little understood: the nature of the relationship under field conditions, and how the relationship varies among parasites. To overcome these limitations, we performed a field survey of the within-leaf fungal community in a tall fescue population. We investigated how diversity and composition of the fungal microbiome associate with natural infection by fungal parasites with different feeding strategies. A parasite's feeding strategy affects both parasite requirements of the host environment and parasite impacts on the host environment. We hypothesized that parasites that more strongly modify niches available within a host will be associated with greater changes in microbiome diversity and composition. Parasites with a feeding strategy that creates necrotic tissue to extract resources (necrotrophs) may not only have different niche requirements, but also act as particularly strong niche modifiers. Barcoded amplicon sequencing of the fungal ITS region revealed that leaf segments symptomatic of necrotrophs had lower fungal diversity and distinct composition compared to segments that were asymptomatic or symptomatic of other parasites. There were no clear differences in fungal diversity or composition between leaf segments that were asymptomatic and segments symptomatic of other parasite feeding strategies. Our results motivate future experimental work to test how the relationship between the microbiome and parasite infection is impacted by parasite feeding strategy and highlight the potential importance of parasite traits.
Neutrino And Anti-Neutrino Cp-Violation Framework At $\Pi$-Decay At Rest
Creators: name: GRASSI, Marco
Publisher: name: Zenodo
Year: 2018

description: The neutrino oscillation phenomenology foresees the presence of CP-violation accessible via high precision neutrino oscillation measurements with both neutrino and antineutrinos. Already today, non-null CP-violation is hinted by running T2K and NOvA experiments. In this poster, we present a novel experimental framework for high precision CP-violation based on a powerful π
\pi
-decay-at-rest neutrino source. For the first time, both the π
\pi
’s mono-energetic νμ
\nu_\mu
and μ
\mu
’s continuous ν¯μ
\bar{\nu}_\mu
are exploited simultaneously in the electron appearance channel with low systematics. This approach relies on a novel detector technology expected to yield unprecedented νe
\nu_e
and ν¯e
\bar{\nu}_e
charged current interactions identification. The measurement phenomenological framework is discussed in detail, along with the expected sensitivity in different experimental scenarios.
Population-based RNA profiling in Add Health finds social disparities in inflammatory and antiviral gene regulation to emerge by young adulthood
Creators: name: Cole, Steven W
name: Gaydosh, Lauren
name: Shanahan, Michael J
name: Harris, Kathleen Mullan
Publisher: name: Proceedings of the National Academy of Sciences
Year: 2020

description: Health in later life varies significantly by individual demographic characteristics such as age, sex, and race/ethnicity, as well as by social factors including socioeconomic status and geographic region. This study examined whether sociodemographic variations in the immune and inflammatory molecular underpinnings of chronic disease might emerge decades earlier in young adulthood. Using data from 1,069 young adults from the National Longitudinal Study of Adolescent to Adult Health (Add Health)-the largest nationally representative and ethnically diverse sample with peripheral blood transcriptome profiles-we analyzed variation in the expression of genes involved in inflammation and type I interferon (IFN) response as a function of individual demographic factors, sociodemographic conditions, and biobehavioral factors (smoking, drinking, and body mass index). Differential gene expression was most pronounced by sex, race/ethnicity, and body mass index (BMI), but transcriptome correlates were identified for every demographic dimension analyzed. Inflammation-related gene expression showed the most pronounced variation as a function of biobehavioral factors (BMI and smoking) whereas type I IFN-related transcripts varied most strongly as a function of individual demographic characteristics (sex and race/ethnicity). Bioinformatic analyses of transcription factor and immune-cell activation based on transcriptome-wide empirical differences identified additional effects of family poverty and geographic region. These results identify pervasive sociodemographic differences in immune-cell gene regulation that emerge by young adulthood and may help explain social disparities in the development of chronic illness and premature mortality at older ages.
Purity Independent Subtyping of Tumors (PurIST), A Clinically Robust, Single-sample Classifier for Tumor Subtyping in Pancreatic Cancer
Creators: name: Nywening, Timothy M.
name: Volmar, Keith E.
name: Schmidt, Benjamin
name: Peng, Xianlu L.
name: Nayyar, Apoorve
name: Moore, Kristin J.
name: Kim, Hong Jin
name: Hennessey, Sarah G.
name: Moffitt, Richard A.
name: Yeh, Jen Jen
name: Jin, Chong
name: Chang, Audrey E.
name: Linehan, David C.
name: Herrera, Silvia G.
name: Rashid, Naim U.
name: Kawalerski, Ryan
name: Panni, Roheena Z.
name: Morrison, Ashley B.
name: Belt, Brian A.
Publisher: name: American Association for Cancer Research (AACR)
Year: 2020

description: PURPOSE: Molecular subtyping for pancreatic cancer has made substantial progress in recent years, facilitating the optimization of existing therapeutic approaches to improve clinical outcomes in pancreatic cancer. With advances in treatment combinations and choices, it is becoming increasingly important to determine ways to place patients on the best therapies upfront. Although various molecular subtyping systems for pancreatic cancer have been proposed, consensus regarding proposed subtypes, as well as their relative clinical utility, remains largely unknown and presents a natural barrier to wider clinical adoption. EXPERIMENTAL DESIGN: We assess three major subtype classification schemas in the context of results from two clinical trials and by meta-analysis of publicly available expression data to assess statistical criteria of subtype robustness and overall clinical relevance. We then developed a single-sample classifier (SSC) using penalized logistic regression based on the most robust and replicable schema. RESULTS: We demonstrate that a tumor-intrinsic two-subtype schema is most robust, replicable, and clinically relevant. We developed Purity Independent Subtyping of Tumors (PurIST), a SSC with robust and highly replicable performance on a wide range of platforms and sample types. We show that PurIST subtypes have meaningful associations with patient prognosis and have significant implications for treatment response to FOLIFIRNOX. CONCLUSIONS: The flexibility and utility of PurIST on low-input samples such as tumor biopsies allows it to be used at the time of diagnosis to facilitate the choice of effective therapies for patients with pancreatic ductal adenocarcinoma and should be considered in the context of future clinical trials.
La gestion des risques d’un projet : un moyen pour faciliter le développement des petites entreprises innovantes au Maroc
Creators: name: EL HSSINI, Soufiane
name: BENTAHAR, Mohammed
Publisher: name: Revue Economie, Gestion et Société
Year: 2015
Subjects: La gestion des risques, Projet d’innovation, petite entreprise, Maroc, moyen de mitigation, Etude empirique, Analyse quantitative.

description: Les projets d’innovation et plus particulièrement la conception des produits innovants peuvent être considérés comme un processus complexe que l’on n’arrive pas à maitriser dans sa totalité. Il semble donc indispensable de tenir en compte des risques liés à ces incertitudes (technologiques, financières, commerciales, environnementales, juridiques, etc.). La gestion des risques se présente donc comme l’un des moyens pour gérer ces projets d’innovation. Il est donc dans l’intérêt de tout promoteur du projet de voir à la réduction ou au contrôle du risque de son activité afin d’obtenir les meilleures conditions de financement possibles. Le risque à rémunérer devient donc le risque total du projet d’innovation dans la PME moins les éléments de couverture ou de mitigation.
description: Revue Economie, Gestion et Société, No 2 (2015)
sj-docx-1-oss-10.1177_0170840620918382 – Supplemental material for Inventing Culinary Heritage through Strategic Historical Ambiguity
Creators: name: Moser, Christine
name: Reinecke, Juliane
name: den Hond, Frank
name: Svejenova, Silviya
name: Croidieu, Grégoire
name: Marie Cappelen, Sophie
name: Strandgaard Pedersen, Jesper
Publisher: name: SAGE Journals
Year: 2023
Subjects: subject: 150310 Organisation and Management Theory
subject: FOS: Economics and business
subject: Sociology
subject: FOS: Sociology

description: Supplemental material, sj-docx-1-oss-10.1177_0170840620918382 for Inventing Culinary Heritage through Strategic Historical Ambiguity by Sophie Marie Cappelen and Jesper Strandgaard Pedersen in Organization Studies
Additional file 1 of Assessing the impact of transplant site on ovarian tissue transplantation: a single-arm meta-analysis
Creators: name: Xie, Baoli
name: Li, Jiaxu
name: Huang, Yingqin
name: Hang, Fu
name: Hu, Qianwen
name: Yu, Jiaxin
name: Qin, Aiping
Publisher: name: figshare
Year: 2023
Subjects: Medicine
Cell Biology
Biotechnology
Chemical Sciences not elsewhere classified
Science Policy

description: Supplementary Material 1: Literature search strategy
sj-docx-1-tra-10.1177_14604086221145529 - Supplemental material for Psychological and psychosocial aspects of major trauma care: A survey of current practice across UK and Ireland
Creators: name: Olive, P
name: Hives, L
name: Ashton, A
name: O’Brien, MC
name: Taylor, A
name: Mercer, G
name: Horsfield, C
name: Carey, R
name: Jassat, R
name: Spencer, J
name: Wilson, N
Publisher: name: SAGE Journals
Year: 2023
Subjects: subject: 111708 Health and Community Services
subject: FOS: Health sciences
subject: 110305 Emergency Medicine
subject: FOS: Clinical medicine

description: Supplemental material, sj-docx-1-tra-10.1177_14604086221145529 for Psychological and psychosocial aspects of major trauma care: A survey of current practice across UK and Ireland by P Olive, L Hives, A Ashton, MC O’Brien, A Taylor, G Mercer, C Horsfield, R Carey, R Jassat, J Spencer and N Wilson in Trauma
Pred-Skin: A Web Portal for Accurate Prediction of Human Skin Sensitizers
Creators: name: Muratov, Eugene N.
name: Alves, Vinicius M.
name: Andrade, Carolina Horta
name: Braga, Rodolpho C.
name: Tropsha, Alexander
name: Borba, Joyce V. B.
name: Kleinstreuer, Nicole
Publisher: name: American Chemical Society (ACS)
Year: 2020

description: Safety assessment is an essential component of the regulatory acceptance of industrial chemicals. Previously, we have developed a model to predict the skin sensitization potential of chemicals for two assays, the human patch test and murine local lymph node assay, and implemented this model in a web portal. Here, we report on the substantially revised and expanded freely available web tool, Pred-Skin version 3.0. This up-to-date version of Pred-Skin incorporates multiple quantitative structure-activity relationship (QSAR) models developed with in vitro, in chemico, and mice and human in vivo data, integrated into a consensus na¯ve Bayes model that predicts human effects. Individual QSAR models were generated using skin sensitization data derived from human repeat insult patch tests, human maximization tests, and mouse local lymph node assays. In addition, data for three validated alternative methods, the direct peptide reactivity assay, KeratinoSens, and the human cell line activation test, were employed as well. Models were developed using open-source tools and rigorously validated according to the best practices of QSAR modeling. Predictions obtained from these models were then used to build a na¯ve Bayes model for predicting human skin sensitization with the following external prediction accuracy: correct classification rate (89%), sensitivity (94%), positive predicted value (91%), specificity (84%), and negative predicted value (89%). As an additional assessment of model performance, we identified 11 cosmetic ingredients known to cause skin sensitization but were not included in our training set, and nine of them were accurately predicted as sensitizers by our models. Pred-Skin can be used as a reliable alternative to animal tests for predicting human skin sensitization.
Putative neurochemical and cell type contributions to hemodynamic activity in the rodent caudate putamen
Creators: name: Houston, Kaiulani M
name: Cerri, Domenic H
name: Katz, Brittany M
name: Shih, Yen-Yu Ian
name: Walton, Lindsay R
Publisher: name: SAGE Publications
Year: 2022

description: Functional magnetic resonance imaging (fMRI) is widely used by researchers to noninvasively monitor brain-wide activity. The traditional assumption of a uniform relationship between neuronal and hemodynamic activity throughout the brain has been increasingly challenged. This relationship is now believed to be impacted by heterogeneously distributed cell types and neurochemical signaling. To date, most cell-type- and neurotransmitter-specific influences on hemodynamics have been examined within the cortex and hippocampus of rodent models, where glutamatergic signaling is prominent. However, neurochemical influences on hemodynamics are relatively unknown in largely GABAergic brain regions such as the rodent caudate putamen (CPu). Given the extensive contribution of CPu function and dysfunction to behavior, and the increasing focus on this region in fMRI studies, improved understanding of CPu hemodynamics could have broad impacts. Here we discuss existing findings on neurochemical contributions to hemodynamics as they may relate to the CPu with special consideration for how these contributions could originate from various cell types and circuits. We hope this review can help inform the direction of future studies as well as interpretation of fMRI findings in the CPu.
sj-docx-4-hss-10.1177_15563316231183379 – Supplemental material for Early Experiences With Single-Position Prone Lateral Lumbar Interbody Fusion: Safety and Outcomes
Creators: name: Subramanian, Tejas
name: Maayan, Omri
name: Shahi, Pratyush
name: Du, Jerry
name: Araghi, Kasra
name: Amen, Troy B.
name: Shinn, Daniel
name: Song, Junho
name: Dalal, Sidhant
name: Sheha, Evan
name: Dowdell, James
name: Iyer, Sravisht
name: Qureshi, Sheeraz A.
Publisher: name: SAGE Journals
Year: 2023
Subjects: classificationCode: 110323
subject: Surgery

description: Supplemental material, sj-docx-4-hss-10.1177_15563316231183379 for Early Experiences With Single-Position Prone Lateral Lumbar Interbody Fusion: Safety and Outcomes by Tejas Subramanian, Omri Maayan, Pratyush Shahi, Jerry Du, Kasra Araghi, Troy B. Amen, Daniel Shinn, Junho Song, Sidhant Dalal, Evan Sheha, James Dowdell, Sravisht Iyer and Sheeraz A. Qureshi in HSS Journal®
QSAR Modeling of SARS-CoV Mpro Inhibitors Identifies Sufugolix, Cenicriviroc, Proglumetacin, and other Drugs as Candidates for Repurposing against SARS-CoV-2
Creators: name: Tropsha, Alexander
name: Auerbach, Scott
name: Schmitt, Charles
name: Melo-Filho, Cleber C.
name: Korn, Daniel
name: Muratov, Eugene N.
name: Alves, Vinicius M.
name: Bobrowski, Tesia
Publisher: name: Wiley
Year: 2020

description: The main protease (Mpro) of the SARS-CoV-2 has been proposed as one of the major drug targets for COVID-19. We have identified the experimental data on the inhibitory activity of compounds tested against the closely related (96% sequence identity, 100% active site conservation) Mpro of SARS-CoV. We developed QSAR models of these inhibitors and employed these models for virtual screening of all drugs in the DrugBank database. Similarity searching and molecular docking were explored in parallel, but docking failed to correctly discriminate between experimentally active and inactive compounds, so it was not relied upon for prospective virtual screening. Forty-two compounds were identified by our models as consensus computational hits. Subsequent to our computational studies, NCATS reported the results of experimental screening of their drug collection in SARS-CoV-2 cytopathic effect assay (https://opendata.ncats.nih.gov/covid19/). Coincidentally, NCATS tested 11 of our 42 hits, and three of them, cenicriviroc (AC50 of 8.9 μM), proglumetacin (tested twice independently, with AC50 of 8.9 μM and 12.5 μM), and sufugolix (AC50 12.6 μM), were shown to be active. These observations support the value of our modeling approaches and models for guiding the experimental investigations of putative anti-COVID-19 drug candidates. All data and models used in this study are publicly available via Supplementary Materials, GitHub (https://github.com/alvesvm/sars-cov-mpro), and Chembench web portal (https://chembench.mml.unc.edu/).
Additional file 2 of Assessing the impact of transplant site on ovarian tissue transplantation: a single-arm meta-analysis
Creators: name: Xie, Baoli
name: Li, Jiaxu
name: Huang, Yingqin
name: Hang, Fu
name: Hu, Qianwen
name: Yu, Jiaxin
name: Qin, Aiping
Publisher: name: figshare
Year: 2024
Subjects: Medicine
Cell Biology
Biotechnology
Chemical Sciences not elsewhere classified
Science Policy

description: Supplementary Material 2: The Newcastle–Ottawa Scale (NOS)
Additional file 1 of Simulating complex patient populations with hierarchical learning effects to support methods development for post-market surveillance
Creators: name: Davis, Sharon E.
name: Ssemaganda, Henry
name: Koola, Jejo D.
name: Mao, Jialin
name: Westerman, Dax
name: Speroff, Theodore
name: Govindarajulu, Usha S.
name: Ramsay, Craig R.
name: Sedrakyan, Art
name: Ohno-Machado, Lucila
name: Resnic, Frederic S.
name: Matheny, Michael E.
Publisher: name: figshare
Year: 2024
Subjects: subject: Statistics
subject: FOS: Mathematics
subject: Artificial Intelligence and Image Processing
subject: FOS: Computer and information sciences

description: Additional file 1: Appendix Table A.1. Full description of available specification parameters. Appendix Table A.2. Implemented function learning curve forms where $$x$$ x is the case number, $$b$$ b is the initial learning-associated probability of an adverse outcome. Other parameter values are calculated based on the specified speed of learning. Appendix Figure A.1. Illustrative learning curves for the forms available in the current DGP implementation. Example curves shows a situation in which learning occurs over 100 cases and reduces reducing initial risk by 25% for a device with a steady state outcome rate of 10%. Appendix Figure A.4. For each patient-level feature, distribution of mean values across simulated datasets grouped by ranges of sample size. Appendix Figure A.5. For each continuous patient-level feature, distribution of standard deviation values across simulated datasets grouped by ranges of sample size.
The Identification of Clinically Relevant Biomarkers by Massively Parallel Sequencing
Creators: name: ANTONY DAVID KASPI
Publisher: name: Monash University
Year: 2018
Subjects: subject: 60102 Bioinformatics
subject: FOS: Computer and information sciences
subject: 60404 Epigenetics (incl. Genome Methylation and Epigenomics)
subject: FOS: Biological sciences
subject: 110107 Metabolic Medicine
subject: FOS: Clinical medicine

description: Many clinically important diseases still cannot be either identified or understood at a molecular level. This thesis explores the usage and analysis of high throughput sequencing data to measure disease related epigenetic changes in a diverse range of animal models as well as in the clinic.
66016: O Tan-Faced Prairie Boy
Creators: name: Project Team, First World War Poetry Digital Archive
Publisher: name: University of Oxford
Year: 2024
Subjects: classificationCode: 430304
subject: British history
classificationCode: 430308
subject: European history (excl. British, classical Greek and Roman)
classificationCode: 430316
subject: International history

description: Typescript prepared by Marion Scott with pencil notations in an unknown hand. The title is after a poem by the American poet Walt Whitman. The 'Michael' of line 6 is a reference to the Archangel who barred Adam and Eve from Paradise. Included in the Edmund Blunden edition of Ivor Gurney's poems published in 1954 as well as the Appendix to P.J. Kavanagh's 'Ivor Gurney: Collected Poems' (2004).
QSAR without borders
Creators: name: Winkler, David A.
name: Agrafiotis, Dimitris
name: Tropsha, Alexander
name: Fourches, Denis
name: Filimonov, Dmitry
name: Roitberg, Adrian
name: Tetko, Igor V.
name: Varnek, Alexandre
name: Cohen, Yoram
name: Cherkasov, Artem
name: Sheridan, Robert P.
name: Baskin, Igor I.
name: Muratov, Eugene N.
name: Bajorath, Jürgen
name: Poroikov, Vladimir
name: Aspuru-Guzik, Alan
name: Oprea, Tudor I.
name: Isayev, Olexandr
name: Curtalolo, Stefano
Publisher: name: Royal Society of Chemistry (RSC)
Year: 2020

description: Prediction of chemical bioactivity and physical properties has been one of the most important applications of statistical and more recently, machine learning and artificial intelligence methods in chemical sciences. This field of research, broadly known as quantitative structure-activity relationships (QSAR) modeling, has developed many important algorithms and has found a broad range of applications in physical organic and medicinal chemistry in the past 55+ years. This Perspective summarizes recent technological advances in QSAR modeling but it also highlights the applicability of algorithms, modeling methods, and validation practices developed in QSAR to a wide range of research areas outside of traditional QSAR boundaries including synthesis planning, nanotechnology, materials science, biomaterials, and clinical informatics. As modern research methods generate rapidly increasing amounts of data, the knowledge of robust data-driven modelling methods professed within the QSAR field can become essential for scientists working both within and outside of chemical research. We hope that this contribution highlighting the generalizable components of QSAR modeling will serve to address this challenge.
Additional file 3 of Assessing the impact of transplant site on ovarian tissue transplantation: a single-arm meta-analysis
Creators: name: Xie, Baoli
name: Li, Jiaxu
name: Huang, Yingqin
name: Hang, Fu
name: Hu, Qianwen
name: Yu, Jiaxin
name: Qin, Aiping
Publisher: name: figshare
Year: 2024
Subjects: Medicine
Cell Biology
Biotechnology
Chemical Sciences not elsewhere classified
Science Policy

description: Supplementary Material 3: Sensitivity Analysis
Quantitative Structure-Activity Relationship Modeling and Docking of Monoterpenes with Insecticidal Activity Against Reticulitermes chinensis Snyder and Drosophila melanogaster
Creators: name: Scotti, Marcus Tullius
name: Rodrigues, Gabriela Cristina Soares
name: Muratov, Eugene N.
name: Scotti, Luciana
name: dos Santos Maia, Mayara
Publisher: name: American Chemical Society (ACS)
Year: 2020

description: The goal of this study was to perform in silico identification of bioinsecticidal potential of 42 monoterpenes against Drosophila melanogaster and Reticulitermes chinensis Snyder. Quantitative structure-activity relationship (QSAR) modeling was performed for both organisms, while docking and molecular dynamics were used only for Drosophila melanogaster. Neryl acetate has the lowest interaction energy (-87 kcal/mol) against active site of acetylcholinesterase, which is comparable to the ones of methiocarb and pirimicarb (-90 kcal/mol) and reported PDB binder 9-(3-iodobenzylamino)-1,2,3,4-tetrahydroacridine (-112.67 kcal/mol). Interaction stability was verified by molecular dynamics simulations and showed that the stability of ACHE active site complexes with three selected terpenes is comparable to the one of the pirimicarb and methiocarb. Overall, our results suggest that pulegone, citronellal, carvacrol, linalyl acetate, neryl acetate, citronellyl acetate, and geranyl acetate may be considered as a potential pesticide candidates.
sj-docx-2-jvi-10.1177_02646196221145378 – Supplemental material for Eye movement in reading and linguistic processing among bilingualism in oculomotor apraxia in patients with aphasia
Creators: name: Afshangian, Fazlallah
name: Rahimi Jaberi, Abbas
name: Wellington, Jack
name: Ahmed Kamel Amer, Sherif
name: Chaurasia, Bipin
name: khanzadeh, Shokufeh
name: Safari, Hosien
name: Freddi, Tomas
name: Soltani, Ahmad
name: Pipek, Leonardo
name: Zimelewicz Oberman, Dan
name: Resid Onen, Mehmet
name: Akgul, Erol
name: Montemurro, Nicola
name: Hajebi Khaniki, Saeedeh
name: Pashmforoosh, Radnoosh
Publisher: name: SAGE Journals
Year: 2023
Subjects: subject: 111708 Health and Community Services
subject: FOS: Health sciences
subject: 111799 Public Health and Health Services not elsewhere classified
subject: 160512 Social Policy
subject: FOS: Political science
subject: 130312 Special Education and Disability
subject: FOS: Educational sciences

description: Supplemental material, sj-docx-2-jvi-10.1177_02646196221145378 for Eye movement in reading and linguistic processing among bilingualism in oculomotor apraxia in patients with aphasia by Fazlallah Afshangian, Abbas Rahimi Jaberi, Jack Wellington, Sherif Ahmed Kamel Amer, Bipin Chaurasia, Shokufeh khanzadeh, Hosien Safari, Tomas Freddi, Ahmad Soltani, Leonardo Pipek, Dan Zimelewicz Oberman, Mehmet Resid Onen, Erol Akgul, Nicola Montemurro, Saeedeh Hajebi Khaniki and Radnoosh Pashmforoosh in The British Journal of Visual Impairment
Optimal Design of Agricultural Sustainability Standards: Insights from a Delphi Study in Germany
Creators: name: Hannus, Veronika
Publisher: name: CentMa, Intern Center for Management, Communication, and Research
Year: 2017

description: Although there is persistent public attention on sustainability and there are growing markets for sustainable food, broad distribution of agricultural sustainability standards in Germany is missing. There are first sector specific studies regarding the motivation to use this management innovation. Specific research on benefits for farmers and on organizational issues concerning standard design is scarce. The Delphi method was used to identify the major reasons for standard adoption or rejection and to get insights to potential standard users’ perception of sustainability. In the second Delphi round with 16 participants the importance and optimal configuration of 13 standard design elements, such as compliance assessment, technical support, used data basis for sustainability assessment or consulting intensity, was analysed. Linking the gained insights to Rogers’ Model of Five Stages in the Innovation-Decision Process (Rogers, 2003) missing demonstration of the relative advantage, major deficiencies in standards’ compatibility, together with high complexity as well as lacking trialability and observability are identified as main factors impeding further dissemination of sustainability standards as an innovation in farm management.
description: Proceedings in Food System Dynamics, Proceedings in System Dynamics and Innovation in Food Networks 2017
title: Setting up a research data management support service at LSE
title: NEREUS Workshop: Open Data, Restricted Data and the Library Role – Practical Cases in Economics and Social Sciences
titleType: Subtitle
Creators: name: Horton, Laurence
Publisher: name: London School of Economics and Political Science (LSE)
Year: 2015
Subjects: subject: Z Bibliography. Library Science. Information Resources
subject: Z665 Library Science. Information Science

description: Presentation outlining the setting up of a Research Data Management (RDM) service at the London School of Economics and Political Science (LSE).