Gene Section Review
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Profiling of Cell Cycle Genes of Breast Cells Exposed to Etodolac
1383-1391.qxd 29/3/2010 11:48 Ì ™ÂÏ›‰·1383 ONCOLOGY REPORTS 23: 1383-1391, 2010 Profiling of cell cycle genes of breast cells exposed to etodolac D. ROY1,2*, G.A. ARASON2*, B. CHOWDHURY3,4, A. MITRA5 and G.M. CALAF6,7 1Department of Natural Sciences, Hostos College of the City University of New York, Bronx, NY; 2Graduate Biotechnology Program, Manhattan College, Riverdale, NY; 3Human Retrovirus Section, Vaccine Branch, National Cancer Institute, National Institutes of Health, Frederick, MD; 4Department of Cellular Injury, Military Casualty Research, Walter Reed Army Institute of Research, Silver Spring, MD; 5Department of Chemistry, The College of Mount Saint Vincent, Riverdale, NY; 6Center for Radiological Research, Columbia University Medical Center, New York, NY, USA; 7Instituto de Alta Investigación, Universidad de Tarapaca, Arica, Chile Received September 29, 2009; Accepted November 6, 2009 DOI: 10.3892/or_00000775 Abstract. Breast cancer represents the second leading cause Introduction of cancer-related deaths in the world. There is increasing evidence that perturbation of cell cycle regulation is an Breast cancer represents the second leading cause of cancer- important contributing factor to various cancer progression related deaths in the United States and other Western countries; stages. There are key checkpoints in the cell cycle involving accounting for about 30-40% of all newly diagnosed cancers various regulatory proteins. The relationship between these (1,2). Hereditary breast cancer accounts for just 5-10% of cell cycle regulatory proteins and cell cycle arrest by cyclo- cases. It is generally believed that a family history of breast oxygenase (COX) inhibitors during neoplastic progression cancer and hormonal imbalances also contributes to the remains largely unknown. -
Gene Regulation and Speciation in House Mice
Downloaded from genome.cshlp.org on September 26, 2021 - Published by Cold Spring Harbor Laboratory Press Research Gene regulation and speciation in house mice Katya L. Mack,1 Polly Campbell,2 and Michael W. Nachman1 1Museum of Vertebrate Zoology and Department of Integrative Biology, University of California, Berkeley, California 94720-3160, USA; 2Department of Integrative Biology, Oklahoma State University, Stillwater, Oklahoma 74078, USA One approach to understanding the process of speciation is to characterize the genetic architecture of post-zygotic isolation. As gene regulation requires interactions between loci, negative epistatic interactions between divergent regulatory elements might underlie hybrid incompatibilities and contribute to reproductive isolation. Here, we take advantage of a cross between house mouse subspecies, where hybrid dysfunction is largely unidirectional, to test several key predictions about regulatory divergence and reproductive isolation. Regulatory divergence between Mus musculus musculus and M. m. domesticus was charac- terized by studying allele-specific expression in fertile hybrid males using mRNA-sequencing of whole testes. We found ex- tensive regulatory divergence between M. m. musculus and M. m. domesticus, largely attributable to cis-regulatory changes. When both cis and trans changes occurred, they were observed in opposition much more often than expected under a neutral model, providing strong evidence of widespread compensatory evolution. We also found evidence for lineage-specific positive se- lection on a subset of genes related to transcriptional regulation. Comparisons of fertile and sterile hybrid males identified a set of genes that were uniquely misexpressed in sterile individuals. Lastly, we discovered a nonrandom association between these genes and genes showing evidence of compensatory evolution, consistent with the idea that regulatory interactions might contribute to Dobzhansky-Muller incompatibilities and be important in speciation. -
The Mitotic Checkpoint Protein MAD2 Delivers Monoamine Transporters to Endocytosis
bioRxiv preprint doi: https://doi.org/10.1101/2021.06.09.447721; this version posted June 10, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. 1 The mitotic checkpoint protein MAD2 delivers monoamine transporters to endocytosis. Florian Koban1*, Michael Freissmuth1 https://orcid.org/0000-0003-0912-3114, https://orcid.org/0000-0001-9398-1765 1Institute of Pharmacology and the Gaston H. Glock Research Laboratories for Exploratory Drug Development, Center of Physiology and Pharmacology, Medical University of Vienna, Vienna, Austria. *Corresponding Author: Florian Koban, PhD Institute of Pharmacology and the Gaston H. Glock Research Laboratories for Exploratory Drug Development, Center of Physiology and Pharmacology, Medical University of Vienna. Waehringer Strasse 13A, 1090 Vienna, Austria E-mail: [email protected] Tel.: +43 1 40160 31328 Author contributions: F. K. conceptualized the study; F. K. conducted research; F. K. and M. F. analyzed data; F.K. and M.F. wrote the paper. bioRxiv preprint doi: https://doi.org/10.1101/2021.06.09.447721; this version posted June 10, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. 2 ABSTRACT Monoamine transporters retrieve serotonin (SERT), dopamine (DAT) and norepinephrine (NET) from the synaptic cleft. Surface levels of transporters are also regulated by internalization. Clathrin-mediated endocytosis of cargo proteins requires adaptor protein 2 (AP2), which recruits cargo to the nascent clathrin- cage. The transporter C-terminus is required for internalization but lacks an AP2- binding site. -
Gene Section Review
Atlas of Genetics and Cytogenetics in Oncology and Haematology OPEN ACCESS JOURNAL AT INIST-CNRS Gene Section Review MAD2L1 (mitotic arrest deficient 2, yeast, human homolog like-1) Elizabeth M. Petty, Kenute Myrie Division of Medical Genetics Departments of Human Genetics and Internal Medicine University of Michigan Medical School 1150 West Medical Center Drive, 4301 MSRB III, Ann Arbor, Michigan 48109- 0638, USA (EMP, KM) Published in Atlas Database: March 2001 Online updated version : http://AtlasGeneticsOncology.org/Genes/MAD2L1ID304.html DOI: 10.4267/2042/37729 This work is licensed under a Creative Commons Attribution-Noncommercial-No Derivative Works 2.0 France Licence. © 2001 Atlas of Genetics and Cytogenetics in Oncology and Haematology Identity Other names: HsMAD2; MAD2; MAD2A HGNC (Hugo): MAD2L1 Shadded boxes (1-5) depict the 5 exons of MAD2L1. The black Location : 4q27 triangle indicates a del A mutation that was found in the CAL51 Local order: As noted on the GM99-GB4 breast cancer cell line. Open triangkes depict the locations of Chromosome 4 map: Position: 548.24 (cR3000) Lod identified sequence variants. Figure is not drawn to scale. score: 1.16 Reference Interval: D4S2945-D4S430 Transcription (115.1-125.1 cM) It is located within the NCBI BAC MAD2L1 has 5 coding exons. No alternative splicing genomic contig: NT_006302.2 which is part of the has been described. Regulation of its transcription in homo sapiens chromosome 4 sequence segment. human cells is currently poorly understood. Note: MAD2L1 was intially (and errounously) mapped by fluorescence in situ hybridization (FISH) to 5q23- Protein q31. Subsequent comprehensive mapping studies using somatic cell hybrid analysis, radiation hybrid (RH) Description mapping, and FISH localized it to 4q27. -
Protein Interactions in the Cancer Proteome† Cite This: Mol
Molecular BioSystems View Article Online PAPER View Journal | View Issue Small-molecule binding sites to explore protein– protein interactions in the cancer proteome† Cite this: Mol. BioSyst., 2016, 12,3067 David Xu,ab Shadia I. Jalal,c George W. Sledge Jr.d and Samy O. Meroueh*aef The Cancer Genome Atlas (TCGA) offers an unprecedented opportunity to identify small-molecule binding sites on proteins with overexpressed mRNA levels that correlate with poor survival. Here, we analyze RNA-seq and clinical data for 10 tumor types to identify genes that are both overexpressed and correlate with patient survival. Protein products of these genes were scanned for binding sites that possess shape and physicochemical properties that can accommodate small-molecule probes or therapeutic agents (druggable). These binding sites were classified as enzyme active sites (ENZ), protein–protein interaction sites (PPI), or other sites whose function is unknown (OTH). Interestingly, the overwhelming majority of binding sites were classified as OTH. We find that ENZ, PPI, and OTH binding sites often occurred on the same structure suggesting that many of these OTH cavities can be used for allosteric modulation of Creative Commons Attribution 3.0 Unported Licence. enzyme activity or protein–protein interactions with small molecules. We discovered several ENZ (PYCR1, QPRT,andHSPA6)andPPI(CASC5, ZBTB32,andCSAD) binding sites on proteins that have been seldom explored in cancer. We also found proteins that have been extensively studied in cancer that have not been previously explored with small molecules that harbor ENZ (PKMYT1, STEAP3,andNNMT) and PPI (HNF4A, MEF2B,andCBX2) binding sites. All binding sites were classified by the signaling pathways to Received 29th March 2016, which the protein that harbors them belongs using KEGG. -
Identi Cation of Novel Hub Genes Associated with Gastric Cancer
Identication of Novel Hub Genes Associated With Gastric Cancer Using Integrated Bioinformatics Analysis Xiao-Qing Lu Department of Breast Surgery, the second hospital of Shanxi Medical University Jia-qian Zhang Shanxi Medical University Second Aliated Hospital https://orcid.org/0000-0001-9042-0305 Jun Qiao Department of Rheumatology, the Second Hospital of Shanxi Medical University Sheng-Xiao Zhang Department of Rheumatology, the Second Hospital of Shanxi Medical University Meng-Ting Qiu Department of Rheumatology, the Second Hospital of Shanxi Medical University Xiang-Rong Liu Department of Breast Surgery, the Second Hospital of Shanxi Medical University Xiao-Xia Chen Department of Breast Surgery, the Second Hospital of Shanxi Medical University Chong Gao Department of Pathology, Brigham and Women's Hospital, Harvard Medical School Huan-Hu Zhang ( [email protected] ) Department of Gastroenterology Shanxi Cancer Hospital Taiyuan, Shanxi 030001 China Research article Keywords: Gastric cancer, Bioinformatics analysis, Differentially expressed genes Posted Date: September 10th, 2020 DOI: https://doi.org/10.21203/rs.3.rs-58756/v1 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Page 1/25 Abstract Background: Gastric cancer (GC) is one of the most common solid malignant tumors worldwide with a high- recurrence-rate. Identifying the molecular signatures and specic biomarkers of GC might provide novel clues for GC prognosis and targeted therapy. Methods: Gene expression proles were obtained from the ArrayExpress and Gene Expression Omnibus database. Differentially expressed genes (DEGs) were picked out by R software. The hub genes were screened by cytoHubba plugin. Their prognostic values were assessed by Kaplan–Meier survival analyses and the gene expression proling interactive analysis (GEPIA). -
BRAF-MAD1L1 and BRAF-ZC3H7A: Novel Gene Fusion in Rhabdomyosarcoma and Lung Adenocarcinoma
Case report: BRAF-MAD1L1 and BRAF-ZC3H7A: novel gene fusion in Rhabdomyosarcoma and Lung adenocarcinoma Da Jiang Fourth Hospital of Heibei Medical University Hui Jin Fourth Hospital of Heibei Medical University Xinliang Zhou Fourth Hospital of Heibei Medical University Shaoshuang Fan Fourth Hospital of Heibei Medical University Mengping Lei Origimed Mian Xu Origimed Xiaoyan Chen ( [email protected] ) The Hospital of Shunyi District Beijing Case Report Keywords: novel gene fusion, BRAF-MAD1L1, BRAF-ZC3H7A, Rhabdomyosarcoma, Lung adenocarcinoma Posted Date: August 26th, 2020 DOI: https://doi.org/10.21203/rs.3.rs-58002/v1 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Page 1/13 Abstract Background Rhabdomyosarcoma (RMS) and lung adenocarcinoma (LADC) epitomizes the success of cancer prevention by the development of conventional therapy, but huge challenges remain in the therapy of advanced diseases. Case presentation We reported two cases of novel BRAF gene fusion. The rst case was a 34-year-old female with RMS harboring a BRAF-MAD1L1 fusion. She suffered tumor resection, recurrence and rapid progression. The second case was a 72-year-old female with LADC harboring a BRAF-ZC3H7A fusion, and she gained rapid progression after receiving a rst-line course of chemotherapy. Conclusions These two BRAF fusions retain the intact BRAF kinase domain (exon 11-18) and showed poor prognosis in RMS and LADC. Background Rhabdomyosarcoma (RMS) is an aggressive malignancy of soft-tissue in children and adolescents (1). There are 4.5 cases per 1 million in children per year and it accounts for 4–5% of all childhood malignancies (2). -
The RARS–MAD1L1 Fusion Gene Induces Cancer Stem Cell–Like
Published OnlineFirst November 13, 2017; DOI: 10.1158/1078-0432.CCR-17-0352 Biology of Human Tumors Clinical Cancer Research The RARS–MAD1L1 Fusion Gene Induces Cancer Stem Cell–like Properties and Therapeutic Resistance in Nasopharyngeal Carcinoma Qian Zhong1, Zhi-Hua Liu1,2, Zhi-Rui Lin1, Ze-Dong Hu3, Li Yuan1,Yan-min Liu1, Ai-Jun Zhou1, Li-Hua Xu4, Li-Juan Hu5, Zi-Feng Wang1, Xin-Yuan Guan1, Jia-Jie Hao6, Vivian W.Y. Lui7, Ling Guo1,8, Hai-Qiang Mai1,8, Ming-Yuan Chen1,8, Fei Han1,8, Yun-Fei Xia1,9, Jennifer R. Grandis10, Xing Zhang1, and Mu-Sheng Zeng1 Abstract Purpose: Nasopharyngeal carcinoma (NPC) is the most com- pression increased cell proliferation, colony formation, and mon head and neck cancer in Southeast Asia. Because local tumorigenicity in vitro, and the silencing of endogenous RARS- recurrence and distant metastasis are still the main causes of NPC MAD1L1 reduced cancer cell growth and colony formation treatment failure, it is urgent to identify new tumor markers and in vitro. In addition, RARS-MAD1L1 increased the side population therapeutic targets for advanced NPC. (SP) ratio and induced chemo- and radioresistance. Furthermore Experimental Design: RNA sequencing (RNA-seq) was RARS-MAD1L1 interacted with AIMP2, which resulted in activa- applied to look for interchromosome translocation in NPC. tion of FUBP1/c-Myc pathway. The silencing of FUBP1 or the PCR, FISH, and immunoprecipitation were used to examine the administration of a c-Myc inhibitor abrogated the cancer stem cell fusion gene expression at RNA, DNA, and protein levels in NPC (CSC)-like characteristics induced by RARS-MAD1L1. -
Proteomic Analysis of Ubiquitin Ligase KEAP1 Reveals Associated Proteins That Inhibit NRF2 Ubiquitination
Published OnlineFirst February 4, 2013; DOI: 10.1158/0008-5472.CAN-12-4400 Cancer Molecular and Cellular Pathobiology Research Proteomic Analysis of Ubiquitin Ligase KEAP1 Reveals Associated Proteins That Inhibit NRF2 Ubiquitination Bridgid E. Hast1, Dennis Goldfarb2, Kathleen M. Mulvaney1, Michael A. Hast4, Priscila F. Siesser1, Feng Yan1, D. Neil Hayes3, and Michael B. Major1,2 Abstract Somatic mutations in the KEAP1 ubiquitin ligase or its substrate NRF2 (NFE2L2) commonly occur in human cancer, resulting in constitutive NRF2-mediated transcription of cytoprotective genes. However, many tumors display high NRF2 activity in the absence of mutation, supporting the hypothesis that alternative mechanisms of pathway activation exist. Previously, we and others discovered that via a competitive binding mechanism, the proteins WTX (AMER1), PALB2, and SQSTM1 bind KEAP1 to activate NRF2. Proteomic analysis of the KEAP1 protein interaction network revealed a significant enrichment of associated proteins containing an ETGE amino acid motif, which matches the KEAP1 interaction motif found in NRF2. Like WTX, PALB2, and SQSTM1, we found that the dipeptidyl peptidase 3 (DPP3) protein binds KEAP1 via an "ETGE" motif to displace NRF2, thus inhibiting NRF2 ubiquitination and driving NRF2-dependent transcription. Comparing the spectrum of KEAP1-interacting proteins with the genomic profile of 178 squamous cell lung carcinomas characterized by The Cancer Genome Atlas revealed amplification and mRNA overexpression of the DPP3 gene in tumors with high NRF2 activity but lacking NRF2 stabilizing mutations. We further show that tumor-derived mutations in KEAP1 are hypomorphic with respect to NRF2 inhibition and that DPP3 overexpression in the presence of these mutants further promotes NRF2 activation. -
Expression and Mutational Analyses of the Human MAD2L1 Gene in Breast Cancer Cells
GENES,CHROMOSOMES&CANCER29:356–362(2000) BRIEFCOMMUNICATION ExpressionandMutationalAnalysesoftheHuman MAD2L1GeneinBreastCancerCells MelanieJ.Percy,1 KenuteA.Myrie,2 ChristopherK.Neeley,1 JamesN.Azim,1 StephenP.Ethier,3 and ElizabethM.Petty1,2* 1DepartmentofInternalMedicine,UniversityofMichiganMedicalCenter,AnnArbor,Michigan 2DepartmentofHumanGenetics,UniversityofMichiganMedicalCenter,AnnArbor,Michigan 3DepartmentofRadiationOncology,UniversityofMichiganComprehensiveCancerCenter,AnnArbor,Michigan Breastcancerisaheterogeneousdisorderinwhichmosttumorsdisplaysomedegreeofaneuploidy,especiallythoseatlater stagesofthedisease.Aneuploidyandassociatedchromosomeinstabilitymaybeimportantintheprogressionofmammary tumorigenesis.Aneuploidyispreventedduringnormalcelldivisioninpartthroughregulationofamitoticspindlecheckpoint wheremitoticarrestpreventssegregationofmisalignedchromosomesintodaughtercellsatanaphase.Mitoticarrestgenes, includingtheMADfamily,whichwasoriginallycharacterizedinyeast,helpregulatenormalfunctionofthemitoticspindle checkpoint.DecreasedexpressionofthehumangeneMAD2L1waspreviouslyreportedinabreastcancercelllineexhibiting chromosomeinstabilityandaneuploidy.ToexplorefurtherthepotentialroleofMAD2L1inbreastcancer,weanalyzed MAD2L1geneexpressionin13minimallytogrosslyaneuploidhumanbreastcancercelllinesandfoundsignificantdifferences ofexpressioninthreelines.SequenceanalysisofMAD2L1cDNAintheseaswellasnineadditionalaneuploidbreastcancer andfiveimmortalizednormalhumanmammaryepithelialcelllinesrevealedoneheterozygousframeshift(572delA)mutation inacancercelllinethatdemonstratedahighleveloftranscriptexpression.Inaddition,two3ЈUTRsequencevariantswere -
Anti-MAD1 Antibody (ARG58117)
Product datasheet [email protected] ARG58117 Package: 100 μl anti-MAD1 antibody Store at: -20°C Summary Product Description Rabbit Polyclonal antibody recognizes MAD1 Tested Reactivity Hu, Ms Tested Application ICC/IF, IHC-P, WB Host Rabbit Clonality Polyclonal Isotype IgG Target Name MAD1 Antigen Species Human Immunogen Recombinant protein of Human MAD1. Epitope Recombinant funsion protein corresponding to aa. 360-700 of Human MAD1 (NP_001013859.1). Conjugation Un-conjugated Alternate Names Mitotic spindle assembly checkpoint protein MAD1; Tax-binding protein 181; MAD1-like protein 1; MAD1; Mitotic checkpoint MAD1 protein homolog; hMAD1; HsMAD1; TP53I9; PIG9; TXBP181; Mitotic arrest deficient 1-like protein 1 Application Instructions Application table Application Dilution ICC/IF 1:50 - 1:200 IHC-P 1:50 - 1:200 WB 1:500 - 1:2000 Application Note * The dilutions indicate recommended starting dilutions and the optimal dilutions or concentrations should be determined by the scientist. Positive Control HeLa Calculated Mw 83 kDa Observed Size 95 kDa Properties Form Liquid Purification Affinity purified. Buffer PBS (pH 7.3), 0.02% Sodium azide and 50% Glycerol. Preservative 0.02% Sodium azide www.arigobio.com 1/3 Stabilizer 50% Glycerol Storage instruction For continuous use, store undiluted antibody at 2-8°C for up to a week. For long-term storage, aliquot and store at -20°C. Storage in frost free freezers is not recommended. Avoid repeated freeze/thaw cycles. Suggest spin the vial prior to opening. The antibody solution should be gently mixed before use. Note For laboratory research only, not for drug, diagnostic or other use. Bioinformation Gene Symbol MAD1L1 Gene Full Name MAD1 mitotic arrest deficient-like 1 (yeast) Background MAD1L1 is a component of the mitotic spindle-assembly checkpoint that prevents the onset of anaphase until all chromosome are properly aligned at the metaphase plate. -
Genome-Wide DNA Methylation Analysis in Obese Women Predicts an Epigenetic Signature for Future Endometrial Cancer
www.nature.com/scientificreports OPEN Genome-wide DNA methylation analysis in obese women predicts an epigenetic signature for future Received: 30 November 2018 Accepted: 9 April 2019 endometrial cancer Published: xx xx xxxx Masaru Nagashima1, Naofumi Miwa2,3, Hajime Hirasawa3, Yukiko Katagiri1, Ken Takamatsu2 & Mineto Morita1 Aberrant DNA methylation is associated with the oncogenesis of a variety of human cancers, including endometrial cancer (EC), the seventh most common cancer among women. Obesity is known to be a high-risk factor for EC; however, whether obesity infuences DNA methylation in the presymptomatic uterus and if this infuences EC development remain unclear. Here, we performed genome-wide DNA methylation analysis of isolated endometrial epithelial cells obtained from obese presymptomatic participants. Using the Illumina MethylationEPIC array (850 K), we identifed 592 diferentially methylated regions (DMRs), most of which undergo hypomethylated changes. These DMRs were enriched for pyrimidine metabolism, Epstein-Barr virus infection, and B cell signaling pathways, indicating obesity-related dysregulation of certain metabolic processes in the presymptomatic uterus. Comparison of the DMRs with those in stage I EC revealed that 54 DMRs overlapped; additionally, B cell signaling and Epstein-Barr virus infection pathways were shared between the presymptomatic uterus of obese women and stage I EC with greater hypomethylation in women with EC than in presymptomatic obese women. These fndings indicated that obesity infuences DNA methylation in presymptomatic endometrial epithelial cells, and persistent dysregulation of DNA methylation in obese women may result in EC development. Endometrial cancer (EC) is the seventh most common cancer among women, with 13,951 new cases and 2,243 deaths in Japan in 20141.