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Deep data analytics for genetic engineering of diatoms linking genotype to phenotype via machine learning

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npj Computational Materials 2019年第1期5卷 580-587页

作者： Artem A.Trofimov Alison A.Pawlicki Nikolay Borodinov Shovon Mandal teresa j.Mathews Mark Hildebrand Maxim A.Ziatdinov Katherine A.Hausladen Paulina K.Urbanowicz Chad A.Steed Anton V.Ievlev Alex Belianinov joshua K.Michener Rama Vasudevan Olga S.Ovchinnikova Center for Nanophase Materials Sciences Oak Ridge National LaboratoryOak RidgeTN 37831USA Environmental Sciences Division Oak Ridge National LaboratoryOak RidgeTN 37830USA Scripps Institute of Oceanography University of CaliforniaSan DiegoLa JollaCA 92093USA Computer Science and Mathematics Division Oak Ridge National LaboratoryOak RidgeTN 37830USA Biosciences Division Oak Ridge National LaboratoryOak RidgeTN 37830USA

Genome engineering for materials synthesis is a promising avenue for manufacturing materials with unique properties under ambient *** in diatoms,unicellular algae that use silica to construct micron-scale cell walls with nanoscale features,is an attractive candidate for functional synthesis of materials for applications including photonics,sensing,filtration,and drug ***,controllably modifying diatom structure through targeted genetic modifications for these applications is a very promising *** this work,we used gene knockdown in Thalassiosira pseudonana diatoms to create modified strains with changes to structural morphology and linked genotype to phenotype using supervised machine *** artificial neural network(NN)was developed to distinguish wild and modified diatoms based on the SEM images of frustules exhibiting phenotypic changes caused by a specific protein(Thaps3_21880),resulting in 94% detection *** activation maps visualized physical changes that allowed the NNs to separate diatom strains,subsequently establishing a specific gene that controls pores.A further NN was created to batch process image data,automatically recognize pores,and extract pore-related *** interrelationship of the extracted paraments was visualized using a multivariate data visualization tool,called CrossVis,and allowed to directly link changes in morphological diatom phenotype of pore size and distribution with changes in the genotype.

关键词： pores walls linking

Review of natural products with hepatoprotective effects

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World journal of Gastroenterology 2014年第40期20卷 14787-14804页

作者： Eduardo Madrigal-Santillán Eduardo Madrigal-Bujaidar Isela álvarez-González María teresa Sumaya-Martínez josé Gutiérrez-Salinas Mirandeli Bautista ángel Morales-González Manuel García-Luna y González-Rubio j Leopoldo Aguilar-Faisal josé A Morales-González Laboratorio Medicina de Conservación Escuela Superior de Medicina Instituto Politécnico Nacional Plan de San Luis y Díaz Mirón Col. Casco de Santo Tomás Del. Miguel Hidalgo México DF 11340 México Laboratorio de Genética Escuela Nacional de Ciencias Biológicas Instituto Politécnico Nacional Unidad profesional Adolfo López Mateos Col. Lindavista Delegación Gustavo A. Madero México DF 07738 México Secretaria de Investigación y Estudios de Posgrado Universidad Autónoma de Nayarit "Ciu-dad de la Cultura Amado Nervo" Nayarit 28000 México Laboratorio de Bioquímica y Medicina Experimental División de Investigación Biomédica Centro Médico Nacional "20 de Noviembre" ISSSTE México DF 03100 México área Académica de Farmacia Instituto de Ciencias de la Salud UAEH Pachuca Hidalgo 42000 México Escuela Superior de Cómputo Instituto Politécnico Nacional Av. Juan de Dios Bátiz s/n esquina Miguel Othón de Mendizabal Unidad Profesional Adolfo López Mateos México DF 07738 Mexico Facultad de Odontología UNAM México DF 04510 Mexico

The liver is one of the most important organs in the body,performing a fundamental role in the regulationof diverse processes,among which the metabolism,secretion,storage,and detoxification of endogenous and exogenous substances are *** to these functions,hepatic diseases continue to be among the main threats to public health,and they remain problems throughout the *** enormous advances in modern medicine,there are no completely effective drugs that stimulate hepatic function,that offer complete protection of the organ,or that help to regenerate hepatic ***,it is necessary to identify pharmaceutical alternatives for the treatment of liver diseases,with the aim of these alternatives being more effective and less *** use of some plants and the consumption of different fruits have played basic roles in human health care,and diverse scientific investigations have indicated that,in those plants and fruits so identified,their beneficial effects can be attributed to the presence of chemical compounds that are called *** present review had as its objective the collecting of data based on research conducted into some fruits(grapefruit,cranberries,and grapes)and plants[cactus pear(nopal)and cactus pear fruit,chamomile,silymarin,and spirulina],which are consumed frequently by humans and which have demonstrated hepatoprotective capacity,as well as an analysis of a resin(propolis)and some phytochemicals extracted from fruits,plants,yeasts,and algae,which have been evaluated in different models of hepatotoxicity.

关键词： Hepatoprotection Grapefruit Vaccinium spp Vitis vinifera L Opuntia ficus-indica Spirulina Propolis Glucans Alcoholic liver disease

Conversion of Rapid Prototyping Models into Metallic Tools by Ceramic Moulding—an Indirect Rapid Tooling Process

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厦门大学学报(自然科学版) 2002年第S1期41卷 218-218页

作者： teresa P DUARTE j M FERREIRA F jorge LINO A BARBEDO Rui NETO FEUP-Faculdade de Engenharia da Universidade do Porto DEMEGI-Departamento de Engenharia Mecanica e Gestāo IndustrialPortugal Departamento de Engenharia Cermica e do Vidro CICECOUniversidade de AveiroPortugal INEGI-Instituto de Engenharia Mecanica e Gestāo Industrial CETECOFF-Fundicāo e Novas TecnologiasPortugal

A process to convert models made by rapid prototypi ng techniques like SL(stereolitography)and LOM(laminated object manufacturing)or by conventional techniques(silicones,resins,wax,etc.)into metallic mould s or tools has been *** main purpose of this technique is to rapidly obtain the first prototypes of parts,for plastics injection,forging or any oth er manufacturing process using the tools produced by casting a metal into a cera mic ***,it can be said that the ceramic moulds are produced by mixing in variab le proportions,depending on the type of ceramics employed,strength and roughne ss desired,a ceramic mixture composed by alumina and/or zirconium silicates bon ded with silica coming from a liquid binder,based on ethyl silicate.A catalyst is added to the slurry in order to produce a sol-gel *** liquid slur ry is poured into the box containing the mould to be *** a short p eriod of time,controlled by the amount of gelling agent,the ceramic mixture ac quires a rubber *** pattern is removed from the ceramic mould,whic h is fired to stop the gelation *** this stabilization the ceramic m ould is sintered at high temperatures in order to generate an inert mould wi th the desired strength in which almost all metallic alloys can be *** effect of ceramic materials(shape,granulometric distribution,chemical com position,etc.),processing parameters(proportion binder/ceramic/catalyst,sint ering conditions,etc.)and casting conditions(mould pre-heating temperature a nd pouring temperature)were studied in order to obtain metallic moulds or tools with tailored properties(high dimensional accuracy,low roughness and high mec hanical strength).

关键词： Conversion of Rapid Prototyping Models into Metallic Tools by Ceramic Moulding an Indirect Rapid Tooling Process

Responses of Macroinvertebrate Community Metrics to a Wastewater Discharge in the Upper Blue River of Kansas and Missouri, USA

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journal of Water Resource and Protection 2015年第15期7卷 1195-1220页

作者： Barry C. Poulton jennifer L. Graham teresa j. Rasmussen Mandy L. Stone Mandy L. Stone U.S. Geological Survey Columbia Environmental Research Center Columbia Missouri USA U.S. Geological Survey Kansas Water Science Center Lawrence Kansas USA

The Blue River Main wastewater treatment facility (WWTF) discharges into the upper Blue River (725 km2), and is recently upgraded to implement biological nutrient removal. We measured biotic condition upstream and downstream of the discharge utilizing the macroinvertebrate protocol developed for Kansas streams. We examined responses of 34 metrics to determine the best indicators for discriminating site differences and for predicting biological condition. Significant differences between sites upstream and downstream of the discharge were identified for 15 metrics in April and 12 metrics in August. Upstream biotic condition scores were significantly greater than scores at both downstream sites in April (p = 0.02), and in August the most downstream site was classified as non-biologically supporting. Thirteen EPT taxa (Ephemeroptera, Plecoptera, Trichoptera) considered intolerant of degraded stream quality were absent at one or both downstream sites. Increases in tolerance metrics and filtering macroinvertebrates, and a decline in ratio of scrapers to filterers all indicated effects of increased nutrient enrichment. Stepwise regressions identified several significant models containing a suite of metrics with low redundancy (R2 = 0.90 - 0.99). Based on the rapid decline in biological condition downstream of the discharge, the level of nutrient removal resulting from the facility upgrade (10% - 20%) was not enough to mitigate negative effects on macroinvertebrate communities.

关键词： Macroinvertebrates Metrics Wastewater Nutrients

Purification of the Drosophila melanogaster Proteins Inscuteable and Staufen Expressed in Escherichia coli

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Advances in Bioscience and Biotechnology 2015年第7期6卷 485-493页

作者： Xristo Zárate Megan M.McEvoy teresa Vargas-Cortez jéssica j.Gómez-Lugo Claudia j.Barahona Elena Cantú-Cárdenas Alberto Gómez-Trevino Universidad Autónoma de Nuevo León Facultad de Ciencias QuímicasCd.UniversitariaSan Nicolás de los GarzaMéxico Department of Chemistry and Biochemistry University of ArizonaTucsonUSA

The proteins Inscuteable and Staufen are key components during asymmetric cell division of neuroblasts for the development of Drosophila melanogaster. Expression and purification of both proteins has been a difficult task for structure-function studies. Based on codon optimization for protein expression in Escherichia coli, we have been able to produce, in soluble form, the C-terminal domains of Inscuteable and Staufen as chimeras with N-terminal maltose binding protein tag that contains a rigid linker between them for feasible crystallization. In addition, using an optimized synthetic gene, corresponding to the amino acid region 250 - 623 of Inscuteable fused to glutathione-S-transferase, low-scale expression experiments showed production of soluble protein. Finally, eukaryotic expression of Inscuteable in the methylothropic yeast Pichia pastoris failed to produce the Drosophila protein at detectable amounts, reinforcing the fact that E. coli still was the microorganism of choice for high-yield protein expression.

关键词： Inscuteable Staufen Protein Expression and Purification Maltose-Binding Protein Escherichia coli

ASTM国际标准组织与中国纺织信息中心加强合作

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中国标准化 2010年第1期 64-64页

作者：沈睿莎（teresa cendrowska）胡亚楠 ASTNI国际标准组织

ASTM国际标准组织与中国纺织信息中心自2007年起开始合作，并一直保持着良好的合作关系。中国纺织信息中心与国家纺织产品开发中心合署办公，并设有中国纺织工程学会秘书处和中国流行色协会的秘书处。中国纺织信息中心以产业提升为己任... 详细信息

ASTM国际标准组织与中国纺织信息中心自2007年起开始合作，并一直保持着良好的合作关系。中国纺织信息中心与国家纺织产品开发中心合署办公，并设有中国纺织工程学会秘书处和中国流行色协会的秘书处。中国纺织信息中心以产业提升为己任、以行业导向为宗旨、以标准确立为目标、以解决方案为手段，既服务于政府决策又为企业技术进步提供服务。

关键词：中国纺织工程学会中国流行色协会国际标准组织信息中心合作关系 ASTM 企业技术进步产品开发

Pulmonary arterial hypertension related to human immunodeficiency virus infection:A case series

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World journal of Cardiology 2014年第6期6卷 495-501页

作者： Inês Araújo Cristina Enjuanes-Grau Carmen jimenez Lopez-Guarch Dariusz Narankiewicz Maria j Ruiz-Cano teresa Velazquez-Martin juan Delgado Pilar Escribano 3~(rd) Medicine Department S?o Francisco Xavier HospitalCHLO1449-005 LisboaPortugal Cardiology Department University Hospital of Canarias38320 La LagunaTenerifeSpain teresa Velazquez-Martin Juan DelgadoPilar EscribanoPulmonary Hypertension UnitUniversity Hospital of 12 de Octubre28041 MadridSpain Internal Medicine Department Carlos Haya Hospital29010 MálagaSpain Pulmonary Hypertension Unit University Hospital of 12 de Octubre28041 MadridSpain

AIM: To present 18 new cases of human immunodeficiency virus(HIV)-related pulmonary arterial hypertension(PAH) with presenting features,treatment options and follow-up ***: This is a single-centre,retrospective,observational study that used prospectively collected data,conducted during a 14-year period on HIV-related PAH patients who were referred to a pulmonary hy-pertension unit. All patients infected with HIV were consecutively admitted for an initial evaluation of PAH during the study period and included in our study. Right heart catheterisation was used for the diagnosis of PAH. Specific PAH treatment was started according to the physician's judgment and the recommendations for idiopathic PAH. The data collected included demographic characteristics,parameters related to both HIV infection and PAH and disease ***: Eighteen patients were included. Intravenous drug use was the major risk factor for HIV infection. Risk factors for PAH,other than HIV infection,were present in 55.5% patients. The elapsed time between HIV infection and PAH diagnoses was 12.2 ± 6.9 years. At PAH diagnosis,94.1% patients had a CD4 cell count > 200 cells/μL. Highly active antiretroviral therapy(present in 47.1% patients) was associated with an accelerated onset of PAH. Survival rates were 93.8%,92.9% and 85.7% at one,two and three years,respectively. Concerning specific therapy,33.3% of the patients were started on a prostacyclin analogue,and the rest were on oral drugs,mainly phosphodiesterase-5 inhibitors. During the follow-up period,specific therapy was de-escalated to oral drugs in all of the living ***: The survival rates of HIV-related PAH patients were higher,most likely due to new aggressive specific therapy. The majority of patients were on oral specific therapy and clinically stable. Moreover,sildenafil appears to be a safe therapy for less severe HIVrelated PAH.

关键词： Human immunodeficiency virus infection Pulmonary arterial hypertension Treatment

Split liver transplantation in adults

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World journal of Gastroenterology 2016年第33期22卷 7500-7506页

作者： koji hashimoto masato fujiki cristiano quintini federico n aucejo teresa diago uso dympna m kelly bijan eghtesad john j fung charles m miller department of general surgery digestive disease institutecleveland clinicCleveland OH 44 195 United States

Split liver transplantation(SLT),while widely accepted in pediatrics,remains underutilized in adults. Advancements in surgical techniques and donor-recipient matching,however,have allowed expansion of SLT from utilization of the right trisegment graft to now include use of the hemiliver graft as well. Despite less favorable outcomes in the early experience,better outcomes have been reported by experienced centers and have further validated the feasibility of SLT. Importantly,more than two decades of experience have identified key requirements for successful SLT in adults. When these requirements are met,SLT can achieve outcomes equivalent to those achieved with other types of liver transplantation for adults. However,substantial challenges,such as surgical techniques,logistics,and ethics,persist as ongoing barriers to further expansion of this highly complex procedure. This review outlines the current state of SLT in adults,focusing on donor and recipient selection based on physiology,surgical techniques,surgical outcomes,and ethical issues.

关键词： Split liver transplantation Adults Graft survival Graft size Donor and recipient selection Surgical technique Ethical issues

Pathophysiology of cerebral oedema in acute liver failure

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World journal of Gastroenterology 2013年第48期19卷 9240-9255页

作者： teresa R Scott Victoria T Kronsten Robin D Hughes Debbie L Shawcross Institute of Liver Studies King’s College London School of Medicine at King’s College Hospital King’s College Hospital London SE5 9RS United Kingdom

Cerebral oedema is a devastating consequence of acute liver failure(ALF)and may be associated with the development of intracranial hypertension and *** ALF,some patients may develop cerebral oedema and increased intracranial pressure but progression to lifethreatening intracranial hypertension is less frequent than previously described,complicating less than one third of cases who have proceeded to coma since the advent of improved clinical *** rapid onset of encephalopathy may be dramatic with the development of asterixis,delirium,seizures and *** and vasogenic oedema mechanisms have been implicated with a preponderance of experimental data favouring a cytotoxic *** swelling is the most consistent neuropathological finding in humans with ALF and ammonia plays a definitive role in the development of cytotoxic brain *** mechanism(s)by which ammonia induces astrocyte swelling remains unclear but glutamine accumulation within astrocytes has led to the osmolyte *** evidence also supports an alternate‘Trojan horse’hypothesis,with glutamine as a carrier of ammonia into mitochondria,where its accumulation results in oxidative stress,energy failure and ultimately astrocyte *** a complete breakdown of the blood-brain barrier is not evident in human ALF,increased permeation to water and other small molecules such as ammonia has been demonstrated resulting from subtle alterations in the protein composition of paracellular tight *** present,there is no fully efficacious therapy for cerebral oedema other than liver transplantation and this reflects our incomplete knowledge of the precise mechanisms underlying this process which remain largely unknown.

关键词： Cerebral oedema Acute liver failure Ammonia Hepatic encephalopathy Intracranial pressure Intracranial hypertension Cerebral blood flow