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Editorial: Complexity in genomes

Yannis Almirantis, Peter Arndt, Wentian Li, Astero Provata
2014 Computational biology and chemistry  
The C in "low complexity" (e.g. Wootton and Federhen, 1993) regions and the C in "more complex" genomes (e.g.  ...  In the literature, the term complexity (C) in genomes is used with several meanings. Some people use the number of genes in a genome to measure its complexity (Hahn and Wray, 2002) .  ... 
doi:10.1016/j.compbiolchem.2014.08.003 pmid:25239778 fatcat:qakbbg2xdjd3pgyxaihi4hhe7u

Editorial [Hot Topic: Genetics Dissection of Complex Traits in the Genomic Era (Guest Editor: Bernardo Ordas)]

Bernardo Ordas
2012 Current Genomics  
EDITORIAL Genetics Dissection of Complex Traits in the Genomic Era There is a renewed interest for Quantitative genetics since the genomic revolution.  ...  This is in agreement with the principles of genomic selection, although the success of prediction methods for complex diseases will be limited by the disease prevalence and the heritability.  ... 
doi:10.2174/138920212800543075 pmid:23115519 pmcid:PMC3382272 fatcat:hjzwxlpoenekrfd4pkatiryngq

Genetic pleiotropy in complex traits and diseases: implications for genomic medicine

Jacob Gratten, Peter M. Visscher
2016 Genome Medicine  
Editorial summary Several recent papers have used summary results from genome-wide association studies to characterize genetic overlap between human complex traits and common diseases.  ...  Here, we review key advances from these papers that enable more in-depth investigations of pleiotropy, and we discuss their implications for genomic medicine.  ...  Acknowledgements We thank members of the Center for Neurogenetics and Statistical Genomics at the University of Queensland for helpful discussions.  ... 
doi:10.1186/s13073-016-0332-x pmid:27435222 pmcid:PMC4952057 fatcat:2vrcjgxd6bbyplnawcjhz4qeeu

Genomic Diversity of the Major Histocompatibility Complex in Health and Disease

Kulski, Shiina, Dijkstra
2019 Cells  
The human Major Histocompatibility Complex (MHC) genes are part of the supra‐locus onchromosome 6p21 known as the human leukocyte antigen (HLA) system [...]  ...  office, and especially Daniela Zhang for her friendly and accommodating editorial assistance.  ...  Acknowledgments: We thank all the authors, reviewers, editors and assistant editors for their efforts and timely submissions and patience during the review process for this Special Issue, the staff of Cells' editorial  ... 
doi:10.3390/cells8101270 pmid:31627481 pmcid:PMC6830316 fatcat:pqwz5xjrxbhzrm6db4domd2blu

Dimensional phenotypes in psychiatric genetics: lessons from genome-wide association studies of alcohol use phenotypes

Travis T. Mallard, Sandra Sanchez-Roige
2021 Complex Psychiatry  
Over the past decade, genome-wide association studies (GWASs) have proved to be useful tools for advancing our knowledge of genetic influences on complex traits like AUD.  ...  Conflict of Interest Statement SSR is an editorial board member for Complex Psychiatry but has no other conflicts of interest to declare. TTM has no conflicts of interest to declare.  ... 
doi:10.1159/000518863 pmid:35083441 pmcid:PMC8739983 fatcat:drggt4lqofgifnviq4nymtnv4y

Synaptic dysfunction in complex psychiatric disorders: from genetics to mechanisms

Xinyuan Wang, Kimberly M. Christian, Hongjun Song, Guo-li Ming
2018 Genome Medicine  
Dysregulated synaptic development, properties, and plasticity have been hypothesized to underlie altered neuronal function in complex neuropsychiatric disorders, such as schizophrenia (SCZ) and autism  ...  Editorial summary Breakthroughs on many fronts have provided strong evidence to support synaptic dysfunction as a causal factor for neuropsychiatric diseases.  ...  Abbreviations ASD: Autism spectrum disorder; GWAS: Genome-wide association study; iPSC: Induced pluripotent stem cell; MHC: Major histocompatibility complex; PDE: Phosphodiesterase; SCZ: Schizophrenia;  ... 
doi:10.1186/s13073-018-0518-5 pmid:29386063 pmcid:PMC5793422 fatcat:r4mvb2a73nbu7pgrd4xrmoyhra

The Validity of Brief Phenotyping in Population Biobanks for Psychiatric Genome-Wide Association Studies on the Biobank Scale

Jonathan R.I. Coleman
2021 Complex Psychiatry  
Conflict of Interest Statement J.R.I.C. is an editorial board member for Complex Psychiatry but has no other conflicts of interest to declare.  ...  Some such phenotyping has been achieved through medical record linkage, which has numerous complexities beyond the scope of this editorial [21, 22] .  ...  In this editorial, I will discuss some of these challenges with a particular focus on the use of brief phenotyping measures.  ... 
doi:10.1159/000516837 pmid:34883499 pmcid:PMC8443942 fatcat:glwcsjlxzzb4bjf5be4apxj5be

Systematic analysis of essential yeast TAFs in genome-wide transcription and preinitiation complex assembly

W.-C. Shen
2003 EMBO Journal  
This work was supported in part by grants from the NIH (M.R.G.) and the Leukemia and Lymphoma Society (W.-C.S.).  ...  Acknowledgements We thank P.Anthony Weil for the anti-TAF antibodies; Lynne Apone for helpful discussions; Jin Wang and Lynn Jones for technical assistance; and Sara Evans for editorial assistance.  ...  complex (PIC).  ... 
doi:10.1093/emboj/cdg336 pmid:12840001 pmcid:PMC165660 fatcat:akwhtk4n3zeitdza466prl73cy

Purine-rich low complexity regions are potential RNA binding hubs in the human genome

Ivan Antonov, Yulia A. Medvedeva
2019 F1000Research  
The universal TTSs were enriched with the purine-rich low complexity regions. Nowadays, the role of the chromatin bound RNAs in the formation of 3D chromatin structure is actively discussed.  ...  While the universal TTSs were quite rare in the human genome (around 0.5%), they were more frequent (>15%) among the MEG3 binding sites (ChOP-seq peaks) and especially among the shared Capture-seq peaks  ...  We have updated the title of the article to: 'Purine-rich low complexity regions are potential RNA binding hubs in the human genome'.  ... 
doi:10.12688/f1000research.13522.2 fatcat:ezu67fhiuva6nalccpuhih7zmq

Ethical implications of array comparative genomic hybridization in complex phenotypes: points to consider in research

Holly K Tabor, Mildred K Cho
2007 Genetics in Medicine  
These considerations are especially important in the use of array comparative genome hybridization to study complex and common traits.  ...  We examined recent publications on autism as an example of the application of array comparative genome hybridization to a complex phenotype.  ...  ACKNOWLEDGMENTS The authors were supported by Grant P50HG003389 from the National Human Genome Research Institute.  ... 
doi:10.1097/gim.0b013e3181485688 pmid:17873651 pmcid:PMC2220022 fatcat:y7rkcmbysbf35l3trvivntufhq

Eleven Densely Clustered Genes, Six of them Novel, in 176 kb of Mouse t-complex DNA

G. J. Kargul
2000 Genome Research  
Finally, we thank Serafino Pantano for the use of his Tce1 Northern blot data, Shoshana Stern for assistance in the analysis, and Kristen Keener for editorial consultation.  ...  The publication costs of this article were defrayed in part by payment of page charges.  ...  About 1% of the mouse genome is included in the t-complex region of chromosome 17, which is known to encode genes involved in embryonic development, distortion of male transmission ratio, male sterility  ... 
doi:10.1101/gr.10.7.916 pmid:10899141 pmcid:PMC310918 fatcat:rzogdhmk4fanfm4xa7lflec2uy

Modeling the genetic complexity of Parkinson's disease by targeted genome edition in iPS cells

Carles Calatayud, Giulia Carola, Antonella Consiglio, Angel Raya
2017 Current Opinion in Genetics and Development  
Division of the subject into sections The subject of Genetics and Development is divided into six themed sections, each of which is reviewed once a year: • Cancer GenomicsGenome Architecture and Expression  ...  The Editorial Board provides support to the Editors and the Section Editors with their comments and suggestions on names and topics.  ...  In order to ensure that your video or animation material is directly usable, please provide the file in one of our recommended file formats with a preferred maximum size of 150 MB per file, 1 GB in total  ... 
doi:10.1016/j.gde.2017.06.002 pmid:28759872 fatcat:jvshgo2u4rbdrnmv6spks52d3e

CellWalker integrates single-cell and bulk data to resolve regulatory elements across cell types in complex tissues

Pawel F Przytycki, Katherine S Pollard
2021 Genome Biology  
Single-cell and bulk genomics assays have complementary strengths and weaknesses, and alone neither strategy can fully capture regulatory elements across the diversity of cells in complex tissues.  ...  noisy scATAC-seq and annotates cell type-specific regulatory elements in bulk data.  ...  We were able to define cell types in a complex tissue and annotate genomic loci with the cell types in which they are active.  ... 
doi:10.1186/s13059-021-02279-1 pmid:33583425 pmcid:PMC7883575 fatcat:gfznxmk52zfhnoagecztt3f4gu

Debutant iOS app and gene-disease complexities in clinical genomics and precision medicine

Zeeshan Ahmed, Saman Zeeshan, Ruoyun Xiong, Bruce T. Liang
2019 Clinical and Translational Medicine  
This tool with accelerate users' abilities to understand the genetic basis of human complex diseases and by assimilating genomic and phenotypic data will support future work to identify gene-specific designer  ...  Adopting NGS with Whole-Genome and RNA sequencing in a diagnostic context has the potential to improve disease-risk detection in support of precision medicine and drug discovery.  ...  Christopher Bonin for providing editorial support. We are grateful to the Ahmed lab at UConn Health, School of Medicine, Department of Genetics and Genome Sciences. We thank The Jackson Labora-  ... 
doi:10.1186/s40169-019-0243-8 pmid:31586224 pmcid:PMC6778157 fatcat:exkuwafqvballajb4zwhbbnjii

Genomic Complexity of the Variable Region-Containing Chitin-Binding Proteins in Amphioxus

Larry J Dishaw, Gail Mueller, Natasha Gwatney, John P Cannon, Robert N Haire, Ronda T Litman, Chris T Amemiya, Tatsuya Ota, Lee Rowen, Gustavo Glusman, Gary W Litman
2008 BMC Genetics  
In this report, we describe VCBP genomic organization and characterize adjacent and intervening genetic features which may influence both their polymorphism and complex transcriptional repertoire.  ...  In at least one haplotype, inverted repeats occur more frequently than elsewhere in the genome.  ...  Acknowledgements We would like to thank, Robert Hubley for informatics support running the RepeatModeler and RepeatMasker software on the amphioxus genome; Barbara Pryor for editorial assistance; Bruce  ... 
doi:10.1186/1471-2156-9-78 pmid:19046437 pmcid:PMC2632668 fatcat:xpvhy7i7k5bnpj2lbo5bpkptdu
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