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| 1 | Diagnostic and prognostic potential of tissue and circulating long non-coding RNAs in colorectal tumors显示文摘Long non-coding RNAs(lncRNAs)are members of the non-protein coding RNA family longer than 200 nucleotides.They participate in the regulation of gene and protein expression influencing apoptosis,cell proliferation and immune responses,thereby playing a critical role in the development and progression of various cancers,including colorectal cancer(CRC).As CRC is one of the most frequently diagnosed malignancies worldwide with high mortality,its screening and early detection are crucial,so the identification of disease-specific biomarkers is necessary.LncRNAs are promising candidates as they are involved in carcinogenesis,and certain lncRNAs(e.g.,CCAT1,CRNDE,CRCAL1-4)show altered expression in adenomas,making them potential early diagnostic markers.In addition to being useful as tissue-specific markers,analysis of circulating lncRNAs(e.g.,CCAT1,CCAT2,BLACAT1,CRNDE,NEAT1,UCA1)in peripheral blood offers the possibility to establish minimally invasive,liquid biopsy-based diagnostic tests.This review article aims to describe the origin,structure,and functions of lncRNAs and to discuss their contribution to CRC development.Moreover,our purpose is to summarise lncRNAs showing altered expression levels during tumor formation in both colon tissue and plasma/serum samples and to demonstrate their clinical implications as diagnostic or prognostic biomarkers for CRC. | Orsolya Galamb Barbara K Barták Alexandra Kalmár Zsófia B Nagy Krisztina A Szigeti Zsolt Tulassay Peter Igaz Béla Molnár | 2019 | World Journal of Gastroenterology2019，25，34： | 18 |
| 2 | Aging related methylation influences the gene expression of key control genes in colorectal cancer and adenoma显示文摘AIM To analyze colorectal carcinogenesis and age-related DNA methylation alterations of gene sequences associated with epigenetic clock CpG sites. METHODS In silico DNA methylation analysis of 353 epigenetic clock Cp G sites published by Steve Horvath was performed using methylation array data for a set of 123 colonic tissue samples [64 colorectal cancer(CRC), 42 adenoma, 17 normal; GEO accession number: GSE48684]. Among the differentially methylated agerelated genes, secreted frizzled related protein 1(SFRP1) promoter methylation was further investigated in colonic tissue from 8 healthy adults, 19 normal children, 20 adenoma and 8 CRC patients using bisulfite-specific PCR followed by methylation-specific high resolution melting(MS-HRM) analysis. m RNA expression of age-related 'epigenetic clock' genes was studied using Affymetrix HGU133 Plus2.0 whole transcriptome data of 153 colonic biopsy samples(49 healthy adult, 49 adenoma, 49 CRC, 6 healthy children)(GEO accession numbers: GSE37364, GSE10714, GSE4183, GSE37267). Whole promoter methylation analysis of genes showing inverse DNA methylationgene expression data was performed on 30 colonic samples using methyl capture sequencing.RESULTS Fifty-seven age-related Cp G sites including hypermethylated PPP1R16 B, SFRP1, SYNE1 and hypomethylated MGP, PIPOX were differentially methylated between CRC and normal tissues(P < 0.05, ?β≥ 10%). In the adenoma vs normal comparison, 70 CpG sites differed significantly, including hypermethylated DKK3, SDC2, SFRP1, SYNE1 and hypomethylated CEMIP, SPATA18(P < 0.05, ?β≥ 10%). In MS-HRM analysis, the SFRP1 promoter region was significantly hypermethylated in CRC(55.0% ± 8.4 %) and adenoma tissue samples(49.9% ± 18.1%) compared to normal adult(5.2% ± 2.7%) and young(2.2% ± 0.7%) colonic tissue(P < 0.0001). DNA methylation of SFRP1 promoter was slightly, but significantly increased in healthy adults compared to normal young samples(P < 0.02). This correlated with significantly increased SFRP1 m RNA levels in children compared to normal adult samples(P < 0.05). In CRC tissue the mR NA expression of 117 agerelated genes were changed, while in adenoma samples 102 genes showed differential expression compared with normal colonic tissue(P < 0.05, logF C > 0.5). The change of expression for several genes including SYNE1, CLEC3 B, LTBP3 and SFRP1, followed the same pattern in aging and carcinogenesis, though not for all genes(e.g., MGP). CONCLUSION Several age-related DNA methylation alterations can be observed during CRC development and progression affecting the m RNA expression of certain CRC- and adenoma-related key control genes. | Orsolya Galamb Alexandra Kalmár Barbara Kinga Barták árpád V Patai Katalin Leiszter Bálint Péterfia Barnabás Wichmann Gábor Valcz Gábor Veres Zsolt Tulassay Béla Molnár | 2016 | World Journal of Gastroenterology2016，22，47： | 7 |
| 3 | Prediction of delayed graft function using different scoring algorithms: A single-center experience显示文摘AIM To compare the performance of 3 published delayed graftfunction(DGF) calculators that compute the theoretical risk of DGF for each patient.METHODS This single-center,retrospective study included 247 consecutive kidney transplants from a deceased donor.These kidney transplantations were performed at our institution between January 2003 and December 2012.We compared the occurrence of observed DGF in our cohort with the predicted DGF according to three different published calculators. The accuracy of the calculators was evaluated by means of the c-index(receiver operating characteristic curve).RESULTS DGF occurred in 15.3% of the transplants under study.The c index of the Irish calculator provided an area under the curve(AUC) of 0.69 indicating an acceptable level of prediction,in contrast to the poor performance of the Jeldres nomogram(AUC = 0.54) and the Chapal nomogram(AUC = 0.51). With the Irish algorithm the predicted DGF risk and the observed DGF probabilities were close. The mean calculated DGF risk was significantly different between DGF-positive and DGF-negative subjects(P < 0.0001). However,at the level of the individual patient the calculated risk of DGF overlapped very widely with ranges from 10% to 51% for recipients with DGF and from 4% to 56% for those without DGF.The sensitivity,specificity and positive predictive value of a calculated DGF risk ≥ 30% with the Irish nomogram were 32%,91% and 38%. CONCLUSION Predictive models for DGF after kidney transplantation are performant in the population in which they were derived,but less so in external validations. | Magda Michalak Kristien Wouters Erik Fransen Rachel Hellemans Amaryllis H Van Craenenbroeck Marie M Couttenye Bart Bracke Dirk K Ysebaert Vera Hartman Kathleen De Greef Thiery Chapelle Geert Roeyen Gerda Van Beeumen Marie-Paule Emonds Daniel Abramowicz Jean-Louis Bosmans | 2017 | World Journal of Transplantation2017，7，5： | 3 |
| 4 | Fungal diversity notes 1–110:taxonomic and phylogenetic contributions to fungal species显示文摘This paper is a compilation of notes on 110 fungal taxa,including one new family,10 new genera,and 76 new species,representing a wide taxonomic and geographic range.The new family,Paradictyoarthriniaceae is introduced based on its distinct lineage in Dothideomycetes and its unique morphology.The family is sister to Biatriosporaceae and Roussoellaceae.The new genera are Allophaeosphaeria(Phaeosphaeriaceae),Amphibambusa(Amphisphaeriaceae),Brunneomycosphaerella(Capnodiales genera incertae cedis),Chaetocapnodium(Capnodiaceae),Flammeascoma(Anteagloniaceae),Multiseptospora(Pleosporales genera incertae cedis),Neogaeumannomyces(Magnaporthaceae),Palmiascoma(Bambusicolaceae),Paralecia(Squamarinaceae)and Sarimanas(Melanommataceae).The newly described species are the Ascomycota Aliquandostipite manochii,Allophaeosphaeria dactylidis,A.muriformia,Alternaria cesenica,Amphibambusa bambusicola,Amphisphaeria sorbi,Annulohypoxylon thailandicum,Atrotorquata spartii,Brunneomycosphaerella laburni,Byssosphaeria musae,Camarosporium aborescentis,C.aureum,C.frutexensis,Chaetocapnodium siamensis,Chaetothyrium agathis,Colletotrichum sedi,Conicomyces pseudotransvaalensis,Cytospora berberidis,C.sibiraeae,Diaporthe thunbergiicola,Diatrype palmicola,Dictyosporium aquaticum,D.meiosporum,D.thailandicum,Didymella cirsii,Dinemasporium nelloi,Flammeascoma bambusae,Kalmusia italica,K.spartii,Keissleriella sparticola,Lauriomyces synnematicus,Leptosphaeria ebuli,Lophiostoma pseudodictyosporium,L.ravennicum,Lophiotrema eburnoides,Montagnula graminicola,Multiseptospora thailandica,Myrothecium macrosporum,Natantispora unipolaris,Neogaeumannomyces bambusicola,Neosetophoma clematidis,N.italica,Oxydothis atypica,Palmiascoma gregariascomum,Paraconiothyrium nelloi,P.thysanolaenae,Paradictyoarthrinium tectonicola,Paralecia pratorum,Paraphaeosphaeria spartii,Pestalotiopsis digitalis,P.dracontomelon,P.italiana,Phaeoisaria pseudoclematidis,Phragmocapnias philippinensis,Pseudocamarosporium cotinae,Pseudocercospora tamarindi,Pseudotrichia rubriostiolata,P.thailandica,Psiloglonium multiseptatum,Saagaromyces mangrovei,Sarimanas pseudofluviatile,S.shirakamiense,Tothia spartii,Trichomerium siamensis,Wojnowicia dactylidicola,W.dactylidis and W.lonicerae.The Basidiomycota Agaricus flavicentrus,A.hanthanaensis,A.parvibicolor,A.sodalis,Cantharellus luteostipitatus,Lactarius atrobrunneus,L.politus,Phylloporia dependens and Russula cortinarioides are also introduced.Epitypifications or reference specimens are designated for Hapalocystis berkeleyi,Meliola tamarindi,Pallidocercospora acaciigena,Phaeosphaeria musae,Plenodomus agnitus,Psiloglonium colihuae,P.sasicola and Zasmidium musae while notes and/or new sequence data are provided for Annulohypoxylon leptascum,A.nitens,A.stygium,Biscogniauxia marginata,Fasciatispora nypae,Hypoxylon fendleri,H.monticulosum,Leptosphaeria doliolum,Microsphaeropsis olivacea,Neomicrothyrium,Paraleptosphaeria nitschkei,Phoma medicaginis and Saccotheciaceae.A full description of each species is provided with light micrographs(or drawings).Molecular data is provided for 90 taxa and used to generate phylogenetic trees to establish a natural classification for species. | Jian Kui Liu Kevin D.Hyde E.B.Gareth Jones Hiran A.Ariyawansa Darbhe J.Bhat Saranyaphat Boonmee Sajeewa S.N.Maharachchikumbura Eric H.C.McKenzie Rungtiwa Phookamsak Chayanard Phukhamsakda Belle Damodara Shenoy Mohamed A,Abdel-Wahab Bart Buyck Jie Chen K.W.Thilini Chethana Chonticha Singtripop Dong Qin Dai Yu Cheng Dai Dinushani ADaranagama Asha J.Dissanayake Mingkwan Doilom Melvina J.D’souza Xin Lei Fan Ishani DGoonasekara Kazuyuki Hirayama Sinang Hongsanan Subashini C.Jayasiri Ruvishika S.Jayawardena Samantha C.Karunarathna Wen Jing Li Ausana Mapook Chada Norphanphoun Ka Lai Pang Rekhani H.Perera Derek Peršoh Umpava Pinruan Indunil CSenanayake Sayanh Somrithipol Satinee Suetrong Kazuaki Tanaka Kasun M.Thambugala Qing Tian Saowaluck Tibpromma Danushka Udayanga Nalin N.Wijayawardene Dhanuska Wanasinghe Komsit Wisitrassameewong Xiang Yu Zeng Faten AAbdel-Aziz Slavomir Adamčík Ali H.Bahkali Nattawut Boonyuen Timur Bulgakov Philippe Callac Putarak Chomnunti Katrin Greiner Akira Hashimoto Valerie Hofstetter Ji Chuan Kang David Lewis Xing Hong Li Xing Zhong Liu Zuo Yi Liu Misato Matsumura Peter E.Mortimer Gerhard Rambold Emile Randrianjohany Genki Sato Veera Sri-Indrasutdhi Cheng Ming Tian Annemieke Verbeken Wolfgang von Brackel Yong Wang Ting Chi Wen Jian Chu Xu Ji Ye Yan Rui Lin Zhao Erio Camporesi | 2015 | Fungal Diversity2015，，3： | 3 |
| 5 | Sensitivity analysis of parameters and contrasting performance of ground filtering algorithms with UAV photogrammetry-based and LiDAR point clouds显示文摘Most ground filtering algorithms are primarily designed for airborne LiDAR point cloud processing and their successful use in identifying ground points from photogrammetric point clouds remains questionable.We compared six ground filtering algorithms implemented in Metashape,ArcGIS,CloudCompare,LAStools,and PDAL.We used UAV photogrammetry-based(acquired under leaf-off conditions)and airborne LiDAR(leaf-on)point clouds of the same area to:(i)compare accuracy of generated DTMs;(ii)evaluate the effect of vegetation density and terrain slope on filtering accuracy;and(iii)assess which algorithm parameters have the greatest effect on the filtering accuracy.Our results show that the performance of filtering algorithms was affected by the point cloud type,terrain slope and vegetation cover.The results were generally better for LiDAR(RMSE 0.13–0.19 m)than for photogrammetric(RMSE 0.19–0.23 m)point clouds.The behavior in varying vegetation and terrain conditions was consistent for LiDAR point clouds.However,when applied on photogrammetric point clouds,the algorithms’behavior was inconsistent,especially in areas of steep slope(except for the Progressive Triangulated Irregular Network in LAStools).Parameters related to the selection of the initial minimum elevation ground points were the most influential in all algorithms and point clouds. | Petr Klápště Michal Fogl Vojtěch Barták Kateřina Gdulová Rudolf Urban Vítězslav Moudrý | 2020 | International Journal of Digital Earth2020，13，12： | 2 |
| 6 | Methods to evaluate egg freshness in research and industry显示文摘 | Romdhane K Bart K Flip B | 2006 | European Food Research and Tec Mology2006，222，56： | 1 |
| 7 | Chemical corrosion of highly radioactive borosilicate nuclear waste glass under simulated repository conditions显示文摘 | WERME L O BJORNER I K BART G | 1990 | J Mater Res1990，5，： | 1 |
| 8 | Role of neuraminidase in lethal synergism between influenza virus and Streptococcus pneumoniae显示文摘 | MCCLLERS J A BARTNESS K C | | 0，，06： | 1 |
| 9 | Regulatory role of SGTI in early R Gene-Mediated plant defenses显示文摘 | Mark J Paul M Katherine K Bart J Jonathan D G Jane E | 2002 | Science2002，295，15： | 1 |
| 10 | Constraint satisfaction tech-niques in planning and scheduling显示文摘 | Bart仳k R Salido M A Rossi F | | 0，，1： | 1 |
| 11 | Benchmarking least squares support vector machine classifiers显示文摘 | Gestel Tony Van Suykens J A K Baesens Bart | 2004 | Machine learning2004，54，1： | 1 |
| 12 | Identification of MIMO Hammerstein models using least squares support vector machines 显示文摘 | Ivan Goethals Kristiaan Pelekmans Johan A K Suykens Bart De Moor | 2005 | Automatica2005，41，7： | 1 |
| 13 | New data on enantiomeric excess versus conversion during enantioselective hydrogenation of activated ketones on a platinum catalyst显示文摘 | Balázsik K Bartók M | | 0，，2： | 1 |
| 14 | Making Mission Statements Count显示文摘 | Bart C K | 1999 | CA Mag- azine1999，132，2： | 1 |
| 15 | Stress-indueed immune changes in the oyslcr Crassostrea gigas 显示文摘 | Lacoste A Malham S K Gélébart F | 2001 | Developmental and Comparative Immunology2001，26，： | 1 |
| 16 | Lasting Inspiration显示文摘 | Bart C K | 2000 | CA Magazine2000，133，4： | 1 |
| 17 | Matrixmetalloproteinase 3 polymorphisms as a potential marker ofenhanced susceptibility to lung cancer in chronic obstructivepulmonary disease subjects 显示文摘 | Brz6ska K Bart omiejczyk T Sochanowicz B | 2014 | Ann Agric Environ Med2014，21，3： | 1 |
| 18 | Review: Improving our knowledge of male mosquito biology in relation to genetic control programmes显示文摘 | Rosemary SL Bart K Romeo B | 2014 | Acta Tropica2014，132，： | 1 |
| 19 | Cardiorenalrescue study in acute decompensated heart failure : rationaleand design of CARRESS-HF, for the Heart Failure ClinicalResearch Network显示文摘 | BART B A GOLDSMITH S R LEE K L | 2012 | J Card Fail2012，18，3： | 1 |
| 20 | Impacts of wind power on thermal generation unit commitment and dispatch显示文摘 | BART C U MADELEINE G ENGBERTPELGRUMW L K | 2007 | IEEE Trans on Energy Conversion2007，22，1： | 1 |
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