Anthony R. Calabria, Ph.D. - Related publications

Affiliations: 
2006 University of Wisconsin, Madison, Madison, WI 
Area:
Neuroscience Biology, Molecular Biology
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50 most relevant papers in past 60 days:
Year Citation  Score
2020 Farahbod M, Pavlidis P. Untangling the effects of cellular composition on coexpression analysis. Genome Research. PMID 32580998 DOI: 10.1101/gr.256735.119   
2020 Zhang D, Guelfi S, Garcia-Ruiz S, Costa B, Reynolds RH, D'Sa K, Liu W, Courtin T, Peterson A, Jaffe AE, Hardy J, Botía JA, Collado-Torres L, Ryten M. Incomplete annotation has a disproportionate impact on our understanding of Mendelian and complex neurogenetic disorders. Science Advances. 6: eaay8299. PMID 32577506 DOI: 10.1126/sciadv.aay8299   
2020 Kalafatakis I, Kalafatakis K, Tsimpolis A, Giannakeas N, Tsipouras M, Tzallas A, Karagogeos D. Using the Allen gene expression atlas of the adult mouse brain to gain further insight into the physiological significance of TAG-1/Contactin-2. Brain Structure & Function. PMID 32601750 DOI: 10.1007/s00429-020-02108-4   
2020 Hamodi AS, Martinez Sabino A, Fitzgerald ND, Moschou D, Crair MC. Transverse sinus injections drive robust whole-brain expression of transgenes. Elife. 9. PMID 32420870 DOI: 10.7554/eLife.53639   
2020 Callaghan JD, Stella NA, Lehner KM, Treat BR, Brothers KM, St Leger AJ, Shanks RMQ. Generation of Xylose-inducible promoter tools for species and their use in implicating a role for the Type II secretion system protein XcpQ in inhibition of corneal epithelial wound closure. Applied and Environmental Microbiology. PMID 32414795 DOI: 10.1128/AEM.00250-20   
2020 Demars F, Kebir O, Marzo A, Iftimovici A, Schramm C, , Krebs MO, Chaumette B. Dysregulation of peripheral expression of the YWHA genes during conversion to psychosis. Scientific Reports. 10: 9863. PMID 32555255 DOI: 10.1038/s41598-020-66901-1   
2020 Chen X, Pan Y, Yan M, Bao G, Sun X. Identification of potential crucial genes and molecular mechanisms in glioblastoma multiforme by bioinformatics analysis. Molecular Medicine Reports. PMID 32467990 DOI: 10.3892/mmr.2020.11160   
2020 Barros S, Coimbra AM, Alves N, Pinheiro M, Quintana JB, Santos MM, Neuparth T. Chronic exposure to environmentally relevant levels of simvastatin disrupts zebrafish brain gene signaling involved in energy metabolism. Journal of Toxicology and Environmental Health. Part A. 83: 113-125. PMID 32116137 DOI: 10.1080/15287394.2020.1733722   
2020 Dubois-Chevalier J, Dubois V, Staels B, Lefebvre P, Eeckhoute J. Perspectives on the use of super-enhancers as a defining feature of cell/tissue-identity genes. Epigenomics. PMID 32396464 DOI: 10.2217/epi-2019-0290   
2020 Debarba JA, Sehabiague MPC, Monteiro KM, Gerber AL, Vasconcelos ATR, Ferreira HB, Zaha A. Transcriptomic Analysis of the Early Strobilar Development of . Pathogens (Basel, Switzerland). 9. PMID 32545493 DOI: 10.3390/pathogens9060465   
2020 Wang Y, Qian M, Qu Y, Yang N, Mu B, Liu K, Yang J, Zhou Y, Ni C, Zhong J, Guo X. Genome-Wide Screen of the Hippocampus in Aged Rats Identifies Mitochondria, Metabolism and Aging Processes Implicated in Sevoflurane Anesthesia. Frontiers in Aging Neuroscience. 12: 122. PMID 32457595 DOI: 10.3389/fnagi.2020.00122   
2020 Torres T, Boloc D, Rodríguez N, Blázquez A, Plana MT, Varela E, Gassó P, Martinez-Pinteño A, Lázaro L, Arnaiz JA, Mas S. Response to fluoxetine in children and adolescents: a weighted gene co-expression network analysis of peripheral blood. American Journal of Translational Research. 12: 2028-2040. PMID 32509197   
2020 Perzel Mandell KA, Price AJ, Wilton R, Collado-Torres L, Tao R, Eagles NJ, Szalay AS, Hyde TM, Weinberger DR, Kleinman JE, Jaffe AE. Characterizing the dynamic and functional DNA methylation landscape in the developing human cortex. Epigenetics. PMID 32602773 DOI: 10.1080/15592294.2020.1786304   
2020 Herath S, Dai H, Erlich J, Au AY, Taylor K, Succar L, Endre ZH. Selection and validation of reference genes for normalisation of gene expression in ischaemic and toxicological studies in kidney disease. Plos One. 15: e0233109. PMID 32437461 DOI: 10.1371/journal.pone.0233109   
2020 Piras IS, Bleul C, Schrauwen I, Talboom J, Llaci L, De Both MD, Naymik MA, Halliday G, Bettencourt C, Holton JL, Serrano GE, Sue LI, Beach TG, Stefanova N, Huentelman MJ. Transcriptional profiling of multiple system atrophy cerebellar tissue highlights differences between the parkinsonian and cerebellar sub-types of the disease. Acta Neuropathologica Communications. 8: 76. PMID 32493431 DOI: 10.1186/s40478-020-00950-5   
2020 Kim JY, Choi BG, Jelinek J, Kim DH, Lee SH, Cho K, Rha SH, Lee YH, Jin HS, Choi DK, Kim GE, Kwon SU, Hwang J, Cha JK, Lee S, et al. Promoter methylation changes in ALOX12 and AIRE1: novel epigenetic markers for atherosclerosis. Clinical Epigenetics. 12: 66. PMID 32398127 DOI: 10.1186/s13148-020-00846-0   
2020 Li X, He Y, Hao C, Li X, Li X. Weighted Gene Correlation Network Analysis (WGCNA) Reveals Novel Regulatory Modules Associated with Recurrent Early Pregnancy Loss. Bioscience Reports. PMID 32401299 DOI: 10.1042/BSR20193938   
2020 Kim SM, Cho SY, Kim MW, Roh SR, Shin HS, Suh YH, Geum D, Lee MA. Genome-Wide Analysis Identifies NURR1-Controlled Network of New Synapse Formation and Cell Cycle Arrest in Human Neural Stem Cells. Molecules and Cells. PMID 32522891 DOI: 10.14348/molcells.2020.0071   
2020 Li CY, Cai JH, Tsai JJP, Wang CCN. Identification of Hub Genes Associated With Development of Head and Neck Squamous Cell Carcinoma by Integrated Bioinformatics Analysis. Frontiers in Oncology. 10: 681. PMID 32528874 DOI: 10.3389/fonc.2020.00681   
2020 Du G, Geng D, Zhou K, Fan Y, Su R, Zhou Q, Liu B, Duysenbi S. Identification of potential key pathways, genes and circulating markers in the development of intracranial aneurysm based on weighted gene co-expression network analysis. Artificial Cells, Nanomedicine, and Biotechnology. 48: 999-1007. PMID 32589050 DOI: 10.1080/21691401.2020.1770264   
2020 Markenscoff-Papadimitriou E, Whalen S, Przytycki P, Thomas R, Binyameen F, Nowakowski TJ, Kriegstein AR, Sanders SJ, State MW, Pollard KS, Rubenstein JL. A Chromatin Accessibility Atlas of the Developing Human Telencephalon. Cell. PMID 32610082 DOI: 10.1016/j.cell.2020.06.002   
2020 Dikshit A, Zong H, Anderson C, Zhang B, Ma XJ. Simultaneous Visualization of RNA and Protein Expression in Tissue Using a Combined RNAscope™ In Situ Hybridization and Immunofluorescence Protocol. Methods in Molecular Biology (Clifton, N.J.). 2148: 301-312. PMID 32394390 DOI: 10.1007/978-1-0716-0623-0_19   
2020 Yang J, Yang X, Kuang Z, Li B, Lu X, Cao X, Kang J. Selection of suitable reference genes for qRT-PCR expression analysis of Codonopsis pilosula under different experimental conditions. Molecular Biology Reports. PMID 32410139 DOI: 10.1007/s11033-020-05501-8   
2020 Nebeluk N, Foster TP. Design, Validation and Evaluation of a SYBR Green-based Quantitative PCR Array for Comprehensive Analysis of Adenovirus Type 5 Transcriptional Patterns. Journal of Virological Methods. 113880. PMID 32413477 DOI: 10.1016/j.jviromet.2020.113880   
2020 Xia P, Li Q, Wu G, Huang Y. Identification of Glioma Cancer Stem Cell Characteristics Based on Weighted Gene Prognosis Module Co-Expression Network Analysis of Transcriptome Data Stemness Indices. Journal of Molecular Neuroscience : Mn. PMID 32451841 DOI: 10.1007/s12031-020-01590-z   
2020 Almarzooq S, Kwon J, Willis A, Craig J, Morris BJ. Novel alternatively-spliced exons of the VRK2 gene in mouse brain and microglial cells. Molecular Biology Reports. PMID 32583282 DOI: 10.1007/s11033-020-05584-3   
2020 Oury C, Maréchal P, Donis N, Hulin A, Hego A, Tridetti J, Nguyen ML, Dulgheru R, Fillet M, Nchimi A, Lancellotti P. Dexfenfluramine and Pergolide Cause Heart Valve Disease via Valve Metabolic Reprogramming and Ongoing Matrix Remodeling. International Journal of Molecular Sciences. 21. PMID 32503311 DOI: 10.3390/ijms21114003   
2020 Bustelo M, Bruno MA, Loidl CF, Rey-Funes M, Steinbusch HWM, Gavilanes AWD, van den Hove DLA. Statistical differences resulting from selection of stable reference genes after hypoxia and hypothermia in the neonatal rat brain. Plos One. 15: e0233387. PMID 32437382 DOI: 10.1371/journal.pone.0233387   
2020 Dudziak K, Sozoniuk M, Szczerba H, Kuzdraliński A, Kowalczyk K, Börner A, Nowak M. Identification of stable reference genes for qPCR studies in common wheat ( L.) seedlings under short-term drought stress. Plant Methods. 16: 58. PMID 32355504 DOI: 10.1186/s13007-020-00601-9   
2020 Myung SH, Park J, Han JH, Kim TH. Development of the mammalian expression vector system that can be induced by IPTG and/or lactose. Journal of Microbiology and Biotechnology. PMID 32423185 DOI: 10.4014/jmb.2003.03030   
2020 Zeng G, Gao P, Wang J, Zhang J, Zhang M, Sun D. Algicidal Molecular Mechanism and Toxicological Degradation of by White-Rot Fungi. Toxins. 12. PMID 32575534 DOI: 10.3390/toxins12060406   
2020 Deng Y, Ma H, Hao J, Xie Q, Zhao R. and Are Potential Biomarkers for the Diagnosis and Prognosis of Pancreatic Cancer. Biomed Research International. 2020: 8604340. PMID 32420375 DOI: 10.1155/2020/8604340   
2020 Chen J, Chen Y, Olivero A, Chen X. Identification and Validation of Potential Biomarkers and Their Functions in Acute Kidney Injury. Frontiers in Genetics. 11: 411. PMID 32528518 DOI: 10.3389/fgene.2020.00411   
2020 Ye Z, Zeng Z, Wang D, Lei S, Shen Y, Chen Z. Identification of key genes associated with the progression of intrahepatic cholangiocarcinoma using weighted gene co-expression network analysis. Oncology Letters. 20: 483-494. PMID 32565973 DOI: 10.3892/ol.2020.11600   
2020 Koshimizu H, Suzuki S, Kawai A, Miura R, Ohta KI, Miki T, Adachi N, Matsuoka H. Vexin is upregulated in cerebral cortical neurons by brain-derived neurotrophic factor. Neuropsychopharmacology Reports. PMID 32558188 DOI: 10.1002/npr2.12119   
2020 Yu L, Wei M, Li F. Longitudinal Analysis of Gene Expression Changes During Cervical Carcinogenesis Reveals Potential Therapeutic Targets. Evolutionary Bioinformatics Online. 16: 1176934320920574. PMID 32489245 DOI: 10.1177/1176934320920574   
2020 Peng M, Sun M, Song W, Li R, Qi J. Molecular characterization and expression analysis of foxo3l in response to exogenous hormones in black rockfish (Sebastes schlegelii). Gene. 144777. PMID 32428695 DOI: 10.1016/j.gene.2020.144777   
2020 Radens CM, Blake D, Jewell P, Barash Y, Lynch KW. Meta-Analysis of Transcriptomic Variation in T cell Populations Reveals both Variable and Consistent Signatures of Gene Expression and Splicing. Rna (New York, N.Y.). PMID 32554554 DOI: 10.1261/rna.075929.120   
2020 Qian J, Zhang M, Dai C, Huo S, Ma H. Transcriptomic analysis of Listeria monocytogenes under pulsed magnetic field treatment. Food Research International (Ottawa, Ont.). 133: 109195. PMID 32466941 DOI: 10.1016/j.foodres.2020.109195   
2020 Kwak MS, Lee HH, Cha JM, Shin HP, Jeon JW, Yoon JY. Novel candidate drugs in anti-tumor necrosis factor refractory Crohn's diseases: in silico study for drug repositioning. Scientific Reports. 10: 10708. PMID 32612148 DOI: 10.1038/s41598-020-67801-0   
2020 Diez-Hermano S, Mejias A, Sanchez D, Gutierrez G, Ganfornina MD. Control of the neuroprotective Lipocalin Apolipoprotein D expression by alternative promoter regions and differentially expressed mRNA 5' UTR variants. Plos One. 15: e0234857. PMID 32559215 DOI: 10.1371/journal.pone.0234857   
2020 Kaushik M, Rai S, Venkadesan S, Sinha SK, Mohan S, Mandal PK. Transcriptome Analysis Reveals Important Candidate Genes Related to Nutrient Reservoir, Carbohydrate Metabolism, and Defence Proteins during Grain Development of Hexaploid Bread Wheat and Its Diploid Progenitors. Genes. 11. PMID 32380773 DOI: 10.3390/genes11050509   
2020 Liao Y, Wang Y, Cheng M, Huang C, Fan X. Weighted Gene Coexpression Network Analysis of Features That Control Cancer Stem Cells Reveals Prognostic Biomarkers in Lung Adenocarcinoma. Frontiers in Genetics. 11: 311. PMID 32391047 DOI: 10.3389/fgene.2020.00311   
2020 Wang G, Shen G, Jiang X, Chen Z, Yin T. Assessment of para-inflammation in a wound healing model. Experimental and Therapeutic Medicine. 20: 655-661. PMID 32509025 DOI: 10.3892/etm.2020.8666   
2020 Wang G, Shen G, Jiang X, Chen Z, Yin T. Assessment of para-inflammation in a wound healing model. Experimental and Therapeutic Medicine. 20: 655-661. PMID 32509025 DOI: 10.3892/etm.2020.8666   
2020 Agarwal N. Construction of a novel CRISPRi-based tool for silencing of multiple genes in Mycobacterium tuberculosis. Plasmid. 110: 102515. PMID 32535164 DOI: 10.1016/j.plasmid.2020.102515   
2020 Koskela EV, Gonzalez Salcedo A, Piirainen MA, Iivonen HA, Salminen H, Frey AD. Mining Data From Plasma Cell Differentiation Identified Novel Genes for Engineering of a Yeast Antibody Factory. Frontiers in Bioengineering and Biotechnology. 8: 255. PMID 32296695 DOI: 10.3389/fbioe.2020.00255   
2020 Li X, Ren Z, Xiong C, Geng J, Li Y, Liu C, Ren C, Liu H. Minichromosome maintenance 6 complex component identified by bioinformatics analysis and experimental validation in esophageal squamous cell carcinoma. Oncology Reports. PMID 32583000 DOI: 10.3892/or.2020.7658   
2020 Yi Z, Keung KL, Li L, Hu M, Lu B, Nicholson L, Jimenez-Vera E, Menon MC, Wei C, Alexander SI, Murphy B, O'Connell PJ, Zhang W. Key driver genes as potential therapeutic targets in renal allograft rejection. Jci Insight. PMID 32634125 DOI: 10.1172/jci.insight.136220   
2020 Wu Y, Song T, Chen P, Jiang X, Wang Q, Chen Q. Prolonged siRNA expression in mammalian cells using an Epstein-Barr virus-based plasmid expression system. Biochemical and Biophysical Research Communications. 529: 51-56. PMID 32560818 DOI: 10.1016/j.bbrc.2020.05.219