دورية أكاديمية
أعرض في EDS

Discovery of gene regulatory elements through a new bioinformatics analysis of haploid genetic screens.

التفاصيل البيبلوغرافية
العنوان: Discovery of gene regulatory elements through a new bioinformatics analysis of haploid genetic screens.
المؤلفون: Patel BB; Department of Biochemistry, Stanford University School of Medicine, Stanford, California, United States of America.; Department of Medicine, Stanford University School of Medicine, Stanford, California, United States of America., Lebensohn AM; Department of Biochemistry, Stanford University School of Medicine, Stanford, California, United States of America.; Department of Medicine, Stanford University School of Medicine, Stanford, California, United States of America., Pusapati GV; Department of Biochemistry, Stanford University School of Medicine, Stanford, California, United States of America., Carette JE; Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California, United States of America., Salzman J; Department of Biochemistry, Stanford University School of Medicine, Stanford, California, United States of America.; Department of Biomedical Data Science, Stanford University School of Medicine, Stanford, California, United States of America., Rohatgi R; Department of Biochemistry, Stanford University School of Medicine, Stanford, California, United States of America.; Department of Medicine, Stanford University School of Medicine, Stanford, California, United States of America.
المصدر: PloS one [PLoS One] 2019 Jan 29; Vol. 14 (1), pp. e0198463. Date of Electronic Publication: 2019 Jan 29 (Print Publication: 2019).
نوع المنشور: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.
اللغة: English
بيانات الدورية: Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet ISSN: 1932-6203 (Electronic) Linking ISSN: 19326203 NLM ISO Abbreviation: PLoS One Subsets: MEDLINE
أسماء مطبوعة: Original Publication: San Francisco, CA : Public Library of Science
مواضيع طبية MeSH: Introns* , Models, Genetic* , Regulatory Sequences, Nucleic Acid* , Sequence Analysis, DNA*, Animals ; Computational Biology ; Genomics ; Haploidy ; Humans ; Mutagenesis, Insertional ; Retroviridae/genetics
مستخلص: The systematic identification of regulatory elements that control gene expression remains a challenge. Genetic screens that use untargeted mutagenesis have the potential to identify protein-coding genes, non-coding RNAs and regulatory elements, but their analysis has mainly focused on identifying the former two. To identify regulatory elements, we conducted a new bioinformatics analysis of insertional mutagenesis screens interrogating WNT signaling in haploid human cells. We searched for specific patterns of retroviral gene trap integrations (used as mutagens in haploid screens) in short genomic intervals overlapping with introns and regions upstream of genes. We uncovered atypical patterns of gene trap insertions that were not predicted to disrupt coding sequences, but caused changes in the expression of two key regulators of WNT signaling, suggesting the presence of cis-regulatory elements. Our methodology extends the scope of haploid genetic screens by enabling the identification of regulatory elements that control gene expression.
Competing Interests: The authors have declared that no competing interests exist.
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معلومات مُعتمدة: DP2 GM105448 United States GM NIGMS NIH HHS; R35 GM118082 United States GM NIGMS NIH HHS; R00 CA168987 United States CA NCI NIH HHS; R01 GM116847 United States GM NIGMS NIH HHS; DP2 AI104557 United States AI NIAID NIH HHS
تواريخ الأحداث: Date Created: 20190130 Date Completed: 20190916 Latest Revision: 20200309
رمز التحديث: 20240829
مُعرف محوري في PubMed: PMC6350973
DOI: 10.1371/journal.pone.0198463
PMID: 30695034
قاعدة البيانات: MEDLINE
الوصف
تدمد:1932-6203
DOI:10.1371/journal.pone.0198463