Beuren Syndrome Associated with Chronic Granulomatous Disease
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Mai Muudatuntuu Ti on Man Mini
MAIMUUDATUNTUU US009809854B2 TI ON MAN MINI (12 ) United States Patent ( 10 ) Patent No. : US 9 ,809 ,854 B2 Crow et al. (45 ) Date of Patent : Nov . 7 , 2017 Whitehead et al. (2005 ) Variation in tissue - specific gene expression ( 54 ) BIOMARKERS FOR DISEASE ACTIVITY among natural populations. Genome Biology, 6 :R13 . * AND CLINICAL MANIFESTATIONS Villanueva et al. ( 2011 ) Netting Neutrophils Induce Endothelial SYSTEMIC LUPUS ERYTHEMATOSUS Damage , Infiltrate Tissues, and Expose Immunostimulatory Mol ecules in Systemic Lupus Erythematosus . The Journal of Immunol @(71 ) Applicant: NEW YORK SOCIETY FOR THE ogy , 187 : 538 - 552 . * RUPTURED AND CRIPPLED Bijl et al. (2001 ) Fas expression on peripheral blood lymphocytes in MAINTAINING THE HOSPITAL , systemic lupus erythematosus ( SLE ) : relation to lymphocyte acti vation and disease activity . Lupus, 10 :866 - 872 . * New York , NY (US ) Crow et al . (2003 ) Microarray analysis of gene expression in lupus. Arthritis Research and Therapy , 5 :279 - 287 . * @(72 ) Inventors : Mary K . Crow , New York , NY (US ) ; Baechler et al . ( 2003 ) Interferon - inducible gene expression signa Mikhail Olferiev , Mount Kisco , NY ture in peripheral blood cells of patients with severe lupus . PNAS , (US ) 100 ( 5 ) : 2610 - 2615. * GeneCards database entry for IFIT3 ( obtained from < http : / /www . ( 73 ) Assignee : NEW YORK SOCIETY FOR THE genecards. org /cgi - bin / carddisp .pl ? gene = IFIT3 > on May 26 , 2016 , RUPTURED AND CRIPPLED 15 pages ) . * Navarra et al. (2011 ) Efficacy and safety of belimumab in patients MAINTAINING THE HOSPITAL with active systemic lupus erythematosus : a randomised , placebo FOR SPECIAL SURGERY , New controlled , phase 3 trial . The Lancet , 377 :721 - 731. * York , NY (US ) Abramson et al . ( 1983 ) Arthritis Rheum . -
The Evolution and Population Diversity of Human-Specific Segmental Duplications
The evolution and population diversity of human-specific segmental duplications Megan Y. Dennis1,2, Lana Harshman2, Bradley J. Nelson2, Osnat Penn2, Stuart Cantsilieris2, John Huddleston2,3, Francesca Antonacci4, Kelsi Penewit2, Laura Denman2, Archana Raja2,3, Carl Baker2, Kenneth Mark2, Maika Malig2, Nicolette Janke2, Claudia Espinoza2, Holly A. Stessman2, Xander Nuttle2, Kendra Hoekzema2, Tina A. Graves5, Richard K. Wilson5, Evan E. Eichler2,3† 1Genome Center, MIND Institute, and Department of Biochemistry & Molecular Medicine, University of California, Davis, CA 95616, USA 2Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA 3Howard Hughes Medical Institute, University of Washington, Seattle, WA 98195, USA 4Dipartimento di Biologia, Università degli Studi di Bari “Aldo Moro”, Bari 70125, Italy 5McDonnell Genome Institute at Washington University, Washington University School of Medicine, St. Louis, MO 63108, USA †Corresponding author: Evan E. Eichler, Ph.D. University of Washington School of Medicine Howard Hughes Medical Institute Box 355065 Foege S413C, 3720 15th Ave NE Seattle, WA 98195 E-mail: [email protected] 1 ABSTRACT Segmental duplications contribute significantly to the evolution, adaptation and disease- associated instability of the human genome. The largest and most identical duplications suffer from the poorest characterization, often corresponding to genome gaps and misassembly. Here we focus on creating a framework to understand the evolution, copy number variation and -
2.4 Gene Expression Analysis
國 立 交 通 大 學 生物資訊及系統生物研究所 博士論文 探討人類可轉錄假基因的調控及功能分析 Exploring Regulations and Functions of Transcribed Pseudogenes in Homo Sapiens 研 究 生:詹雯玲 指導教授:黃憲達 教授 張建國 教授 中 華 民 國 一 百 零 一 年 十一月 i 探討人類可轉錄假基因的調控及功能分析 Exploring Regulations and Functions of Transcribed Pseudogenes in Homo Sapiens 研 究 生 : 詹雯玲 Student : Wen-Ling Chan 指導教授 : 黃憲達 博士 Advisor : Dr. Hsien-Da Huang 張建國 博士 Dr. Jan-Gowth Chang 國立交通大學 生物資訊及系統生物研究所 博士論文 A Thesis Submitted to Institute of Bioinformatics and Systems Biology College of Biological Science and Technology National Chiao Tung University In partial Fulfillment of the Requirements for the Degree of Ph.D. in Bioinformatics and Systems Biology November 2012 Hsinchu, Taiwan, Republic of China 中 華 民 國 一 百 零 一 年 十一月 ii 探討人類可轉錄假基因的調控及功能分析 學生 : 詹雯玲 指導教授 : 黃憲達 博士 張建國 博士 國立交通大學 生物資訊及系統生物研究所 摘要 假基因 (pseudogene)主要被認為是演化過程中所產生的垃圾 DNA 序列。然而,近年來研 究發現假基因-特別是可轉錄的假基因,可能經由產生內生性小的干擾 RNA、反股 RNA 或抑制 RNA,以扮演調控基因的角色。在老鼠及果蠅已被証實轉錄假基因可以產生內生 性小的干擾 RNA 進而調控蛋白質基因的表現,但是在人類此機制未知。因此,本研究主 要目的是系統化探討人類可轉錄假基因的二個機制:產生內生性小的干擾 RNA 以及 miRNA 誘餌的功能。為了系統化的處理及更新這些結果及相關的資訊,我們也建立一個 新頴整合性的資炓庫-pseudoMap,做為研究人類可轉錄假基因的研究平台。由生物資訊 所導出的一個假基因PPM1K-經由 PPM1K 部分反轉錄所產生的轉錄假基因,因反向重覆 序列建構成髮夾式結構而產生二個內生性小的干擾 RNA 進而調控許多細胞相關基因,也 包含了 NEK8。41 對肝癌及其周邊非癌化組織研究顯示,由PPM1K 所產生的二個內生性 小的干擾 RNA 及其對應的正常蛋白質基因,在癌組織的表現均低於非癌化組織的表現, 而此現象相反於所預測的 esiRNA1 的調控基因 NEK8 的表現。除此之外,NEK8 及 PPM1K 在過度表現PPM1K 的載體比將 esiRNA1 刪除的載體表現還低。甚至於若將 NEK8 表現在 已轉染PPM1K 的載體,顯示 NEK8 可抵消PPM1K 對細胞成長的抑制。就我們所知,這 是第一個實驗証實人類可轉錄假基因所產生的內生性小的干擾 RNA 調控肝癌細胞的表現。 也同時驗証生物資訊預測的可行性。經由此研究,可以對人類可轉錄假基因的功能、調 控,以及與其他蛋白質基因的關係有更完整、深入的認識。 iii Exploring Regulations and Functions of Transcribed Pseudogenes in Homo Sapiens Student: Wen-Ling Chan Advisor : Dr. Hsien-Da Huang Dr. Jan-Gowth Chang Institute of Bioinformatics and Systems Biology, National Chiao Tung University Abstract Pseudogenes have been mainly considered as “junk” DNA, failed copies of genes that arise during the evolution of genomes. -
The Evolution and Population Diversity of Human-Specific Segmental Duplications
HHS Public Access Author manuscript Author ManuscriptAuthor Manuscript Author Nat Ecol Manuscript Author Evol. Author manuscript; Manuscript Author available in PMC 2017 August 17. Published in final edited form as: Nat Ecol Evol. 2017 ; 1: . doi:10.1038/s41559-016-0069. The evolution and population diversity of human-specific segmental duplications Megan Y. Dennis1,2, Lana Harshman2, Bradley J. Nelson2, Osnat Penn2, Stuart Cantsilieris2, John Huddleston2,3, Francesca Antonacci4, Kelsi Penewit2, Laura Denman2, Archana Raja2,3, Carl Baker2, Kenneth Mark2, Maika Malig2, Nicolette Janke2, Claudia Espinoza2, Holly A.F. Stessman2, Xander Nuttle2, Kendra Hoekzema2, Tina A. Lindsay- Graves5, Richard K. Wilson5, and Evan E. Eichler2,3,* 1Genome Center, MIND Institute, and Department of Biochemistry & Molecular Medicine, University of California, Davis, CA 95616, USA 2Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA 3Howard Hughes Medical Institute, University of Washington, Seattle, WA 98195, USA 4Dipartimento di Biologia, Università degli Studi di Bari “Aldo Moro”, Bari 70125, Italy 5McDonnell Genome Institute at Washington University, Washington University School of Medicine, St. Louis, MO 63108, USA SUMMARY Segmental duplications contribute to human evolution, adaptation and genomic instability but are often poorly characterized. We investigate the evolution, genetic variation and coding potential of human-specific segmental duplications (HSDs). We identify 218 HSDs based on analysis of 322 deeply sequenced archaic and contemporary hominid genomes. We sequence 550 human and nonhuman primate genomic clones to reconstruct the evolution of the largest, most complex regions with protein-coding potential (n=80 genes/33 gene families). We show that HSDs are non- randomly organized, associate preferentially with ancestral ape duplications termed “core duplicons”, and evolved primarily in an interspersed inverted orientation. -
A Boy with Conduct Disorder (CD), Attention Deficit Hyperactivity
Kolaitis et al. Child Adolesc Psychiatry Ment Health (2016) 10:33 Child and Adolescent Psychiatry DOI 10.1186/s13034-016-0121-8 and Mental Health CASE REPORT Open Access A boy with conduct disorder (CD), attention deficit hyperactivity disorder (ADHD), borderline intellectual disability, and 47,XXY syndrome in combination with a 7q11.23 duplication, 11p15.5 deletion, and 20q13.33 deletion Gerasimos Kolaitis4*, Christian G. Bouwkamp5, Alexia Papakonstantinou1, Ioanna Otheiti1, Maria Belivanaki1, Styliani Haritaki1, Terpsihori Korpa1, Zinovia Albani1, Elena Terzioglou1, Polyxeni Apostola1, Aggeliki Skamnaki1, Athena Xaidara2, Konstantina Kosma3, Sophia Kitsiou‑Tzeli3 and Maria Tzetis3 Abstract Background: This is a case with multiple chromosomal aberrations which are likely etiological for the observed psy‑ chiatric phenotype consisting of attention deficit hyperactivity and conduct disorders. Case presentation: We report on an 11 year-old boy, admitted to the pediatric hospital for behavioral difficulties and a delayed neurodevelopmental trajectory. A cytogenetic analysis and high-resolution microarray comparative genomic hybridization (CGH) analysis was performed. The cytogenetic analysis revealed 47,XYY syndrome, while CGH analysis revealed an additional duplication and two deletions. The 7q11.23 duplication is associated with speech and language delay and behavioral symptoms, a 20q13.33 deletion is associated with autism and early onset schizophre‑ nia and the 11p15.5 microdeletion is associated with developmental delay, autism, and epilepsy. The patient under‑ went a psychiatric history, physical examination, laboratory testing, and a detailed cognitive, psychiatric, and occupa‑ tional therapy evaluation which are reported here in detail. Conclusions: In the case of psychiatric patients presenting with complex genetic aberrations and additional psycho‑ social problems, traditional psychiatric and psychological approaches can lead to significantly improved functioning. -
Human-Specific Genes, Cortical Progenitor Cells, and Microcephaly
cells Review Human-Specific Genes, Cortical Progenitor Cells, and Microcephaly Michael Heide * and Wieland B. Huttner * Max Planck Institute of Molecular Cell Biology and Genetics (MPI-CBG), Pfotenhauerstr. 108, D-01307 Dresden, Germany * Correspondence: [email protected] (M.H.); [email protected] (W.B.H.); Tel.: +49-351-210-2905 (M.H.); +49-351-210-1500 (W.B.H.) Abstract: Over the past few years, human-specific genes have received increasing attention as potential major contributors responsible for the 3-fold difference in brain size between human and chimpanzee. Accordingly, mutations affecting these genes may lead to a reduction in human brain size and therefore, may cause or contribute to microcephaly. In this review, we will concentrate, within the brain, on the cerebral cortex, the seat of our higher cognitive abilities, and focus on the human-specific gene ARHGAP11B and on the gene family comprising the three human-specific genes NOTCH2NLA, -B, and -C. These genes are thought to have significantly contributed to the expansion of the cerebral cortex during human evolution. We will summarize the evolution of these genes, as well as their expression and functional role during human cortical development, and discuss their potential relevance for microcephaly. Furthermore, we will give an overview of other human-specific genes that are expressed during fetal human cortical development. We will discuss the potential involvement of these genes in microcephaly and how these genes could be studied functionally to identify a possible role in microcephaly. Keywords: human-specific genes; microcephaly; neocortex development; ARHGAP11B; NOTCH2NL; Citation: Heide, M.; Huttner, W.B.