86 Works

Data from: Spatially explicit assessment of estuarine fish after Deepwater Horizon oil spill: tradeoffs in complexity and parsimony

Jill A. Awkerman, Becky Hemmer, Alex Almario, Crystal Lilavois, Mace G. Barron & Sandy Raimondo
Evaluating long-term contaminant effects on wildlife populations depends on spatial information about habitat quality, heterogeneity in contaminant exposure, and sensitivities and distributions of species integrated into a systems modeling approach. Rarely is this information readily available, making it difficult to determine the applicability of realistic models to quantify population-level risks. To evaluate the trade-offs between data demands and increased specificity of spatially explicit models for population-level risk assessments, we developed a model for a standard...

Supplementary document for Breaking the bandwidth limit of a high-quality-factor ring modulator based on thin-film lithium niobate - 6063603.pdf

Yu Xue, RanFeng Gan, kaixuan chen, gengxin chen, ziliang ruan, Junwei Zhang, Jie Liu, Daoxin Dai, Changjian Guo & Liu Liu
Supplemental Document

Molecular genetic and clinical characterization of acute myeloid leukemia with trisomy 8 as the sole chromosome abnormality

Jie Liu, WenMin Han, Xiaohui Cai, Zheng Wang, LiuJun Cao, HaiYing Hua, ZhuXia Jia, HongYing Chao, XuZhang Lu & HongJie Shen
The aim of the study was to determine molecular genetic and clinical characterization of acute myeloid leukemia (AML) with trisomy 8 as the sole chromosome abnormality, a recurrent but rare chromosomal abnormality in AML. Interphase fluorescence in situ hybridization, reverse transcriptase-quantitative polymerase chain reaction for gene rearrangement and next-generation sequencing (NGS) were performed on sole trisomy 8 AML patients. A total of 35 AML patients with trisomy 8 as the sole chromosome abnormality were screened....

Molecular genetic and clinical characterization of acute myeloid leukemia with trisomy 8 as the sole chromosome abnormality

Jie Liu, WenMin Han, Xiaohui Cai, Zheng Wang, LiuJun Cao, HaiYing Hua, ZhuXia Jia, HongYing Chao, XuZhang Lu & HongJie Shen
The aim of the study was to determine molecular genetic and clinical characterization of acute myeloid leukemia (AML) with trisomy 8 as the sole chromosome abnormality, a recurrent but rare chromosomal abnormality in AML. Interphase fluorescence in situ hybridization, reverse transcriptase-quantitative polymerase chain reaction for gene rearrangement and next-generation sequencing (NGS) were performed on sole trisomy 8 AML patients. A total of 35 AML patients with trisomy 8 as the sole chromosome abnormality were screened....

Towards reproducible structure-based chemical categories for PFAS to inform and evaluate toxicity and toxicokinetic testing

Grace Patlewicz, Ann Richard, Antony Williams, Richard Judson & Russell Thomas
Data for "Towards reproducible structure-based chemical categories for PFAS to inform and evaluate toxicity and toxicokinetic testing"
Science Inventory, CCTE products: https://cfpub.epa.gov/si/si_public_search_results.cfm?advSearch=true&showCriteria=2&keyword=CCTE&TIMSType=&TIMSSubTypeID=&epaNumber=&ombCat=Any&dateBeginPublishedPresented=07/01/2017&dateEndPublishedPresented=&dateBeginUpdated=&dateEndUpdated=&DEID=&personName=&personID=&role=Any&journalName=&journalID=&publisherName=&publisherID=&sortBy=pubDate&count=25

Supplementary document for Breaking the bandwidth limit of a high-quality-factor ring modulator based on thin-film lithium niobate - 6063603.pdf

Yu Xue, RanFeng Gan, kaixuan chen, gengxin chen, ziliang ruan, Junwei Zhang, Jie Liu, Daoxin Dai, Changjian Guo & Liu Liu
Supplemental Document

Towards Reproducible Structure-Based Chemical Categories for PFAS to Inform and Evaluate Toxicity and Toxicokinetic Testing

Grace Patlewicz, Ann Richard, Antony Williams, Richard Judson & Russell Thomas
Poster for ASCCT on Oct. 19-21, 2022 in Chapel Hill, NC
Science Inventory, CCTE products: https://cfpub.epa.gov/si/si_public_search_results.cfm?advSearch=true&showCriteria=2&keyword=CCTE&TIMSType=&TIMSSubTypeID=&epaNumber=&ombCat=Any&dateBeginPublishedPresented=07/01/2017&dateEndPublishedPresented=&dateBeginUpdated=&dateEndUpdated=&DEID=&personName=&personID=&role=Any&journalName=&journalID=&publisherName=&publisherID=&sortBy=pubDate&count=25

Development of a CSRML version of the Analog Identification Methodology (AIM) fragments and their evaluation within the Generalised Read-Across (GenRA) approach (ORD-050445)

Matthew Adams, Hannah Hilde, Daniel Chang, Ann Richard, Antony Williams, Imran Shah & Grace Patlewicz
Dataset for " Development of a CSRML version of the Analog Identification Methodology (AIM) fragments and their evaluation within the Generalised Read-Across (GenRA) approach"
Science Inventory, CCTE products: https://cfpub.epa.gov/si/si_public_search_results.cfm?advSearch=true&showCriteria=2&keyword=CCTE&TIMSType=&TIMSSubTypeID=&epaNumber=&ombCat=Any&dateBeginPublishedPresented=07/01/2017&dateEndPublishedPresented=&dateBeginUpdated=&dateEndUpdated=&DEID=&personName=&personID=&role=Any&journalName=&journalID=&publisherName=&publisherID=&sortBy=pubDate&count=25

Metabolic Similarity in Read-Across Prediction: A Case Study in Using Graph Kernels and Predicted Metabolism Information

Brett Hagan, Grace Patlewicz & Imran Shah
Poster for ASCCT in Oct. 19-21, 2022 in Durham, NC
Science Inventory, CCTE products: https://cfpub.epa.gov/si/si_public_search_results.cfm?advSearch=true&showCriteria=2&keyword=CCTE&TIMSType=&TIMSSubTypeID=&epaNumber=&ombCat=Any&dateBeginPublishedPresented=07/01/2017&dateEndPublishedPresented=&dateBeginUpdated=&dateEndUpdated=&DEID=&personName=&personID=&role=Any&journalName=&journalID=&publisherName=&publisherID=&sortBy=pubDate&count=25

Additional file 1 of The NORMAN Suspect List Exchange (NORMAN-SLE): facilitating European and worldwide collaboration on suspect screening in high resolution mass spectrometry

Hiba Mohammed Taha, Reza Aalizadeh, Nikiforos Alygizakis, Jean-Philippe Antignac, Hans Peter H. Arp, Richard Bade, Nancy Baker, Lidia Belova, Lubertus Bijlsma, Evan E. Bolton, Werner Brack, Alberto Celma, Wen-Ling Chen, Tiejun Cheng, Parviel Chirsir, Ľuboš Čirka, Lisa A. D’Agostino, Yannick Djoumbou Feunang, Valeria Dulio, Stellan Fischer, Pablo Gago-Ferrero, Aikaterini Galani, Birgit Geueke, Natalia Głowacka, Juliane Glüge … & Emma L. Schymanski
Additional file 1: Summary of the NORMAN-SLE datasets (CSV format) as of 4 May 2022 [81].

Additional file 3 of The NORMAN Suspect List Exchange (NORMAN-SLE): facilitating European and worldwide collaboration on suspect screening in high resolution mass spectrometry

Hiba Mohammed Taha, Reza Aalizadeh, Nikiforos Alygizakis, Jean-Philippe Antignac, Hans Peter H. Arp, Richard Bade, Nancy Baker, Lidia Belova, Lubertus Bijlsma, Evan E. Bolton, Werner Brack, Alberto Celma, Wen-Ling Chen, Tiejun Cheng, Parviel Chirsir, Ľuboš Čirka, Lisa A. D’Agostino, Yannick Djoumbou Feunang, Valeria Dulio, Stellan Fischer, Pablo Gago-Ferrero, Aikaterini Galani, Birgit Geueke, Natalia Głowacka, Juliane Glüge … & Emma L. Schymanski
Additional file 3: Summary of Zenodo view and download statistics, plus citations (CSV format) as of 28 April 2022 [235].

Additional file 4 of The NORMAN Suspect List Exchange (NORMAN-SLE): facilitating European and worldwide collaboration on suspect screening in high resolution mass spectrometry

Hiba Mohammed Taha, Reza Aalizadeh, Nikiforos Alygizakis, Jean-Philippe Antignac, Hans Peter H. Arp, Richard Bade, Nancy Baker, Lidia Belova, Lubertus Bijlsma, Evan E. Bolton, Werner Brack, Alberto Celma, Wen-Ling Chen, Tiejun Cheng, Parviel Chirsir, Ľuboš Čirka, Lisa A. D’Agostino, Yannick Djoumbou Feunang, Valeria Dulio, Stellan Fischer, Pablo Gago-Ferrero, Aikaterini Galani, Birgit Geueke, Natalia Głowacka, Juliane Glüge … & Emma L. Schymanski
Additional file 4: Summary of Zenodo citations plus DOIs per list (CSV format) as of 1 May 2022 [236].

Additional file 5 of The NORMAN Suspect List Exchange (NORMAN-SLE): facilitating European and worldwide collaboration on suspect screening in high resolution mass spectrometry

Hiba Mohammed Taha, Reza Aalizadeh, Nikiforos Alygizakis, Jean-Philippe Antignac, Hans Peter H. Arp, Richard Bade, Nancy Baker, Lidia Belova, Lubertus Bijlsma, Evan E. Bolton, Werner Brack, Alberto Celma, Wen-Ling Chen, Tiejun Cheng, Parviel Chirsir, Ľuboš Čirka, Lisa A. D’Agostino, Yannick Djoumbou Feunang, Valeria Dulio, Stellan Fischer, Pablo Gago-Ferrero, Aikaterini Galani, Birgit Geueke, Natalia Głowacka, Juliane Glüge … & Emma L. Schymanski
Additional file 5: Authorship contributions and acknowledgements mapped to NORMAN-SLE lists (XLSX format).

ToxValDB v9.3

Richard Judson
This resource is a compilation of information sourced from many sites, databases and sources, including U.S. Federal and state sources and international bodies, which can save the user time by providing information in one location. The data are not reviewed by USEPA – the user must apply judgment in use of the information. You should consult the original scientific paper or data source if possible to ensure an understanding of the context of the data...

Screening of anti-fatigue active ingredients of Eleutherococcus senticosus via spectrum-effect relationship based on factor analysis and LC-MS/MS

Jiabo Cheng, Lequn Qiu, Naveed Ahmad, Jie Liu, Mengfei Tian, Chunying Li & Chunjian Zhao
ES contains compounds known to have significant anti-fatigue activity. In recent years, it has received extensive attention because it is efficient. However, its active ingredients on antifatigue effect are still unclear. This study attempts to establish the spectrum-effect relationship of ES antifatigue activity to screen the effective components. The results showed that the similarity of 15 ES fingerprints obtained by LC-MS/MS was 0.533–0.992, and the chemical structures of 22 common peaks were identified. The anti-fatigue...

Data from: Genetic variation at aryl hydrocarbon receptor (AHR) loci in populations of Atlantic killifish (Fundulus heteroclitus) inhabiting polluted and reference habitats

Adam M. Reitzel, Sibel I. Karchner, Diana G. Franks, Brad R. Evans, Diane Nacci, Denise Champlin, Verónica M. Vieira & Mark E. Hahn
Background: The non-migratory killifish Fundulus heteroclitus inhabits clean and polluted environments interspersed throughout its range along the Atlantic coast of North America. Several populations of this species have successfully adapted to environments contaminated with toxic aromatic hydrocarbon pollutants such as polychlorinated biphenyls (PCBs). Previous studies suggest that the mechanism of resistance to these and other “dioxin-like compounds” (DLCs) may involve reduced signaling through the aryl hydrocarbon receptor (AHR) pathway. Here we investigated gene diversity and...

Initial application of the noise-sorted scanning clustering algorithm to the analysis of composition-dependent organic aerosol thermal desorption measurements

Christopher Cappa, Ziyue Li, Emma D'Ambro, Siegfried Schobesberger, John Shilling, Felipe Lopez-Hilfiker, Jiumeng Liu, Cassandra Gaston & Joel Thornton
The FIGAERO-CIMS (Filter Inlet for Gases and AEROsols + chemical ionization mass spectrometer) measures thermal desorption profiles for individual ions evolved from evaporation of organic aerosol components. Often, hundreds of individual thermograms are obtained, reflecting the compositional complexity of organic aerosol. We have developed a novel clustering algorithm, Noise-Sorted Scanning Clustering (NSSC), that provides a robust, reproducible analysis of the FIGAERO temperature-dependent mass spectral data. The NSSC allows for determination of thermal profiles for compositionally...

Are Tidal Salt Marshes Exposed to Nutrient Pollution more Vulnerable to Sea Level Rise?

Johannes Krause, Elizabeth Watson, Cathleen Wigand & Nicole Maher
Over the past four decades, Long Island, NY, USA, has lost coastal wetlands at a rate of 4% per decade due to submergence. In this study, we examined relationships between the rate of tidal salt marsh loss and environmental factors, including marsh elevation, tidal range, and wastewater exposure through analysis of stable isotope ratios of marsh soils and biota. Our goal was to identify factors that increase vulnerability of marshes to sea level rise, with...

Data from: Exposure effects beyond the epithelial barrier: trans-epithelial induction of oxidative stress by diesel exhaust particulates in lung fibroblasts in an organotypic human airway model

Samantha Faber, Nicole McNabb, Pablo Ariel, Emily Aungst & Shaun McCullough
In vitro bronchial epithelial monoculture models have been pivotal in defining the adverse effects of inhaled toxicant exposures; however, they are only representative of one cellular compartment and may not accurately reflect the effects of exposures on other cell types. Lung fibroblasts exist immediately beneath the bronchial epithelial barrier and play a central role in lung structure and function, as well as disease development and progression. We tested the hypothesis that in vitro exposure of...

Primary detection records for aquatic nonindigenous species in global estuarine and marine ecosystems and the Great Lakes

Sarah Bailey, Lyndsay Brown, Marnie Campbell, João Canning-Clode, James Carlton, Nuno Castro, Paula Chainho, Farrah Chan, Joel Creed, Amelia Curd, John Darling, Paul Fofonoff, Bella Galil, Chad Hewitt, Graeme Inglis, Inti Keith, Nicholas Mandrak, Agnese Marchini, Cynthia McKenzie, Anna Occhipinti-Ambrogi, Henn Ojaveer, Larissa Pires-Teixeira, Tamara Robinson, Gregory Ruiz, Kimberley Seaward … & Aibin Zhan
Aim The introduction of aquatic non-indigenous species (ANS) has become a major driver for global changes in species biogeography. We examined spatial patterns and temporal trends of ANS detections since 1965 to inform conservation policy and management. Location Global Methods We assembled an extensive dataset of first records of detection of ANS (1965-2015) across 49 aquatic ecosystems, including the i) year of first collection, ii) population status and iii) potential pathway(s) of introduction. Data were...

The Alginate Immobilization of Metabolic Enzymes (AIME) platform retrofits an estrogen receptor transactivation assay with metabolic competence

Chad Deisenroth, Danica DeGroot, Todd Zurlinden, Andrew Eicher, James McCord, Mi-Young Lee, Paul Carmichael & Russell Thomas
The U.S. EPA Endocrine Disruptor Screening Program utilizes data across the ToxCast/Tox21 high-throughput screening (HTS) programs to evaluate the biological effects of potential endocrine active substances (EAS). A potential limitation to the use of in vitro assay data in regulatory decision-making is the lack of coverage for xenobiotic metabolic processes. Both hepatic- and peripheral-tissue metabolism can yield metabolites that exhibit greater activity than the parent compound (bioactivation) or are inactive (bioinactivation) for a given biological...

Role of lncRNA LINC01194 in hepatocellular carcinoma via the miR-655-3p/SMAD family member 5 axis

Yang Liu, Jie Liu, Junkai Cui, Ruolei Zhong & Guoyang Sun
Long non-coding RNAs (lncRNAs) are involved in developing hepatocellular carcinoma (HCC). The present study explored the role of lncRNA LINC01194, which is upregulated in HCC tissues and might be a vital regulator in HCC progression. Levels of LINC01194, microRNA (miR)-655-3p, and SMAD family member 5 (SMAD5) were assessed using reverse transcription quantitative real-time polymerase chain reaction (RT-qPCR). The bioactivity of Huh-7 cells was assessed using cell counting kit-8 and transwell assays and flow cytometry. Western...

Salidroside orchestrates metabolic reprogramming by regulating the Hif-1α signalling pathway in acute mountain sickness

Xiaoning Yan, Jie Liu, Meixia Zhu, Lirong Liu, Yijun Chen, Yinhuan Zhang, Menghan Feng, Zhixin Jia & Hongbin Xiao
Rhodiola crenulata (Hook. f. et Thoms.) H. Ohba (Crassulaceae) is used to prevent and treat acute mountain sickness. However, the mechanisms underlying its effects on the central nervous system remain unclear. To investigate the effect of Rhodiola crenulata on cellular metabolism in the central nervous system. The viability and Hif-1α levels of microglia and neurons at 5% O2 for 1, 3, 5 and 24 h were examined. We performed the binding of salidroside (Sal), rhodiosin,...

Salidroside orchestrates metabolic reprogramming by regulating the Hif-1α signalling pathway in acute mountain sickness

Xiaoning Yan, Jie Liu, Meixia Zhu, Lirong Liu, Yijun Chen, Yinhuan Zhang, Menghan Feng, Zhixin Jia & Hongbin Xiao
Rhodiola crenulata (Hook. f. et Thoms.) H. Ohba (Crassulaceae) is used to prevent and treat acute mountain sickness. However, the mechanisms underlying its effects on the central nervous system remain unclear. To investigate the effect of Rhodiola crenulata on cellular metabolism in the central nervous system. The viability and Hif-1α levels of microglia and neurons at 5% O2 for 1, 3, 5 and 24 h were examined. We performed the binding of salidroside (Sal), rhodiosin,...

ToxValDB v9.2

Richard Judson
This resource is a compilation of information sourced from many sites, databases and sources, including U.S. Federal and state sources and international bodies, which can save the user time by providing information in one location. The data are not reviewed by USEPA – the user must apply judgment in use of the information. You should consult the original scientific paper or data source if possible to ensure an understanding of the context of the data...

Registration Year

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