Exercise Alters Mouse Sperm Small Noncoding Rnas and Induces a Transgenerational Modification of Male Offspring Conditioned Fear and Anxiety
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Plasma Based Protein Signatures Associated with Small Cell Lung Cancer
cancers Article Plasma Based Protein Signatures Associated with Small Cell Lung Cancer Johannes F. Fahrmann 1,†, Hiroyuki Katayama 1,† , Ehsan Irajizad 1,†, Ashish Chakraborty 1 , Taketo Kato 1 , Xiangying Mao 1 , Soyoung Park 1, Eunice Murage 1, Leona Rusling 1, Chuan-Yih Yu 1, Yinging Cai 1, Fu Chung Hsiao 1, Jennifer B. Dennison 1, Hai Tran 2, Edwin Ostrin 3 , David O. Wilson 4, Jian-Min Yuan 5,6, Jody Vykoukal 1 and Samir Hanash 1,* 1 Department of Clinical Cancer Prevention, The University of Texas M. D. Anderson Cancer Center, Houston, TX 77030, USA; [email protected] (J.F.F.); [email protected] (H.K.); [email protected] (E.I.); [email protected] (A.C.); [email protected] (T.K.); [email protected] (X.M.); [email protected] (S.P.); [email protected] (E.M.); [email protected] (L.R.); [email protected] (C.-Y.Y.); [email protected] (Y.C.); [email protected] (F.C.H.); [email protected] (J.B.D.); [email protected] (J.V.) 2 Department of Thoracic-Head & Neck Medical Oncology, The University of Texas M. D. Anderson Cancer Center, Houston, TX 77030, USA; [email protected] 3 Department of Pulmonary Medicine, The University of Texas M. D. Anderson Cancer Center, Houston, TX 77030, USA; [email protected] 4 Division of Pulmonary, Allergy and Critical Care Medicine, School of Medicine, University of Pittsburgh, Pittsburgh, PA 15213, USA; [email protected] 5 Division of Cancer Control and Population Sciences, UPMC Hillman Cancer Center, University of Pittsburgh, Pittsburgh, PA 15232, USA; [email protected] 6 Department of Epidemiology, Graduate School of Public Health, University of Pittsburgh, Pittsburgh, PA 15261, USA Citation: Fahrmann, J.F.; Katayama, * Correspondence: [email protected] † These authors contributed equally to this work. -
Whole-Genome Microarray Detects Deletions and Loss of Heterozygosity of Chromosome 3 Occurring Exclusively in Metastasizing Uveal Melanoma
Anatomy and Pathology Whole-Genome Microarray Detects Deletions and Loss of Heterozygosity of Chromosome 3 Occurring Exclusively in Metastasizing Uveal Melanoma Sarah L. Lake,1 Sarah E. Coupland,1 Azzam F. G. Taktak,2 and Bertil E. Damato3 PURPOSE. To detect deletions and loss of heterozygosity of disease is fatal in 92% of patients within 2 years of diagnosis. chromosome 3 in a rare subset of fatal, disomy 3 uveal mela- Clinical and histopathologic risk factors for UM metastasis noma (UM), undetectable by fluorescence in situ hybridization include large basal tumor diameter (LBD), ciliary body involve- (FISH). ment, epithelioid cytomorphology, extracellular matrix peri- ϩ ETHODS odic acid-Schiff-positive (PAS ) loops, and high mitotic M . Multiplex ligation-dependent probe amplification 3,4 5 (MLPA) with the P027 UM assay was performed on formalin- count. Prescher et al. showed that a nonrandom genetic fixed, paraffin-embedded (FFPE) whole tumor sections from 19 change, monosomy 3, correlates strongly with metastatic death, and the correlation has since been confirmed by several disomy 3 metastasizing UMs. Whole-genome microarray analy- 3,6–10 ses using a single-nucleotide polymorphism microarray (aSNP) groups. Consequently, fluorescence in situ hybridization were performed on frozen tissue samples from four fatal dis- (FISH) detection of chromosome 3 using a centromeric probe omy 3 metastasizing UMs and three disomy 3 tumors with Ͼ5 became routine practice for UM prognostication; however, 5% years’ metastasis-free survival. to 20% of disomy 3 UM patients unexpectedly develop metas- tases.11 Attempts have therefore been made to identify the RESULTS. Two metastasizing UMs that had been classified as minimal region(s) of deletion on chromosome 3.12–15 Despite disomy 3 by FISH analysis of a small tumor sample were found these studies, little progress has been made in defining the key on MLPA analysis to show monosomy 3. -
Expression Patterns of Slit and Robo Family Members in Adult Mouse Spinal Cord and Peripheral Nervous System
RESEARCH ARTICLE Expression patterns of Slit and Robo family members in adult mouse spinal cord and peripheral nervous system Lauren Carr1, David B. Parkinson1, Xin-peng Dun1,2* 1 Plymouth University Peninsula Schools of Medicine and Dentistry, Plymouth, Devon, United Kingdom, 2 Hubei University of Science and Technology, Xian-Ning City, Hubei, China a1111111111 * [email protected] a1111111111 a1111111111 a1111111111 Abstract a1111111111 The secreted glycoproteins, Slit1-3, are classic axon guidance molecules that act as repul- sive cues through their well characterised receptors Robo1-2 to allow precise axon pathfind- ing and neuronal migration. The expression patterns of Slit1-3 and Robo1-2 have been OPEN ACCESS most characterized in the rodent developing nervous system and the adult brain, but little is Citation: Carr L, Parkinson DB, Dun X-p (2017) known about their expression patterns in the adult rodent peripheral nervous system. Here, Expression patterns of Slit and Robo family we report a detailed expression analysis of Slit1-3 and Robo1-2 in the adult mouse sciatic members in adult mouse spinal cord and nerve as well as their expression in the nerve cell bodies within the ventral spinal cord peripheral nervous system. PLoS ONE 12(2): (motor neurons) and dorsal root ganglion (sensory neurons). Our results show that, in the e0172736. doi:10.1371/journal.pone.0172736 adult mouse peripheral nervous system, Slit1-3 and Robo1-2 are expressed in the cell bod- Editor: Thomas H Gillingwater, University of ies and axons of both motor and sensory neurons. While Slit1 and Robo2 are only Edinburgh, UNITED KINGDOM expressed in peripheral axons and their cell bodies, Slit2, Slit3 and Robo1 are also Received: November 14, 2016 expressed in satellite cells of the dorsal root ganglion, Schwann cells and fibroblasts of Accepted: February 8, 2017 peripheral nerves. -
Signature Redacted Signatureredacted
The biochemical basis for the cooperative action of microRNAs S ISTITUTE By By MAssACHUSEOFTECHNOLOGY > Daniel Briskin OCT 0 12019 B.S., Molecular Genetics (2012) LIBRARIES 0 Ohio State University SUBMITTED TO THE DEPARTMENT OF BIOLOGY IN PARTIAL FULFILLMENT OF THE REQUIREMENTS FOR THE DEGREE OF DOCTOR OF PHILOSOPHY AT THE MASSACHUSETTS INSTITUTE OF TECHNOLOGY -SEPTEMBER-2019- -fve e 7-1012 © 2019 Massachusetts Institute of Technology All rights reserved Signature redacted Signature of Author: DanielBriskin Department of Biology 17 September 2019 Signature redacted Certified By:__ David P. Bartel Professor of Biology Thesis Supervisor Accepted By: Signatureredacted -V Stephen Bell Uncas and Helen Whitaker Professor of Biology Investigator, Howard Hughes Medical Institute Co-Director, Biology Graduate Committee 1 2 The biochemical basis for the cooperative action of microRNAs by Daniel Briskin Submitted to the Department of Biology on 17 September 2019 In partial fulfillment of the requirements for the degree of doctor of philosophy Abstract In metazoans, microRNAs (miRNAs) act to repress mRNAs through a combination of translational repression and target degradation. miRNAs predominantly pair within the 3' untranslated region (3' UTR) of the mRNA. In cells, closely spaced miRNA target sites within an mRNA can act cooperatively, leading to more repression of the target mRNA than expected by independent action at each site. This dissertation details the use of purified miRNA-AGO2 complexes, synthetic target RNAs, and a purified domain of TNRC6B that is able to simultaneously bind multiple AGO proteins. We examined the target site occupancy and affinities for miRNA-AGO2 binding in the absence and presence of TNRC6B, for target RNAs with a single miRNA site as well as multiple miRNA sites spaced at varying distances. -
Mir-145 Inhibits Breast Cancer Cell Growth Through RTKN
1461-1466 24/3/2009 01:35 ÌÌ ™ÂÏ›‰·1461 INTERNATIONAL JOURNAL OF ONCOLOGY 34: 1461-1466, 2009 miR-145 inhibits breast cancer cell growth through RTKN SHIHUA WANG, CHUNJING BIAN, ZHUO YANG, YE BO, JING LI, LIFEN ZENG, HONG ZHOU and ROBERT CHUNHUA ZHAO Center of Tissue Engineering, Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences, School of Basic Medicine Peking Union Medical College, Beijing 100005, P.R. China Received November 25, 2008; Accepted February 3, 2009 DOI: 10.3892/ijo_00000275 Abstract. MicroRNAs (miRNAs) represent a class of small miR-15a and miR-16 are down-regulated by hemizygous or non-coding RNAs regulating gene expression by inducing homozygous deletion or other unknown mechanisms in RNA degradation or interfering with translation. Aberrant 68% of CLLs (7) and miR-17-92 cluster is markedly over- miRNA expression has been described for several human expressed in B-cell lymphomas (8). Also in a large-scale malignancies. Herein, we show that miR-145 is down-regulated analysis of 540 tumor samples from lung, breast, stomach, in human cancer cell line MCF-7 when compared to normal prostate, colon, and pancreatic tumors, a so-called solid human mammary epithelial cell line MCF10A. Overexpression cancer microRNA signature was identified (9). However, of miR-145 by plasmid inhibits MCF-7 cell growth and induces although miRNAs have been the subject of extensive research apoptosis. Subsequently, RTKN is identified as a potential in recent years, the molecular basis of miRNA-mediated gene miR-145 target by bioinformatics. Using reporter constructs, regulation and the effect of these genes on tumor growth we show that the RTKN 3' untranslated region (3'UTR) remain largely unknown because of our limited understanding carries the directly binding site of miR-145. -
A Robust 11-Genes Prognostic Model Can
Lin et al. Cancer Cell Int (2020) 20:402 https://doi.org/10.1186/s12935-020-01491-6 Cancer Cell International PRIMARY RESEARCH Open Access A robust 11-genes prognostic model can predict overall survival in bladder cancer patients based on fve cohorts Jiaxing Lin1†, Jieping Yang1†, Xiao Xu2, Yutao Wang1, Meng Yu3* and Yuyan Zhu1* Abstract Background: Bladder cancer is the tenth most common cancer globally, but existing biomarkers and prognostic models are limited. Method: In this study, we used four bladder cancer cohorts from The Cancer Genome Atlas and Gene Expression Omnibus databases to perform univariate Cox regression analysis to identify common prognostic genes. We used the least absolute shrinkage and selection operator regression to construct a prognostic Cox model. Kaplan–Meier analysis, receiver operating characteristic curve, and univariate/multivariate Cox analysis were used to evaluate the prognostic model. Finally, a co-expression network, CIBERSORT, and ESTIMATE algorithm were used to explore the mechanism related to the model. Results: A total of 11 genes were identifed from the four cohorts to construct the prognostic model, including eight risk genes (SERPINE2, PRR11, DSEL, DNM1, COMP, ELOVL4, RTKN, and MAPK12) and three protective genes (FABP6, C16orf74, and TNK1). The 11-genes model could stratify the risk of patients in all fve cohorts, and the prognosis was worse in the group with a high-risk score. The area under the curve values of the fve cohorts in the frst year are all greater than 0.65. Furthermore, this model’s predictive ability is stronger than that of age, gender, grade, and T stage. -
A Set of Regulatory Genes Co-Expressed in Embryonic Human Brain Is Implicated in Disrupted Speech Development
Molecular Psychiatry https://doi.org/10.1038/s41380-018-0020-x ARTICLE A set of regulatory genes co-expressed in embryonic human brain is implicated in disrupted speech development 1 1 1 2 3 Else Eising ● Amaia Carrion-Castillo ● Arianna Vino ● Edythe A. Strand ● Kathy J. Jakielski ● 4,5 6 7 8 9 Thomas S. Scerri ● Michael S. Hildebrand ● Richard Webster ● Alan Ma ● Bernard Mazoyer ● 1,10 4,5 6,11 6,12 13 Clyde Francks ● Melanie Bahlo ● Ingrid E. Scheffer ● Angela T. Morgan ● Lawrence D. Shriberg ● Simon E. Fisher 1,10 Received: 22 September 2017 / Revised: 3 December 2017 / Accepted: 2 January 2018 © The Author(s) 2018. This article is published with open access Abstract Genetic investigations of people with impaired development of spoken language provide windows into key aspects of human biology. Over 15 years after FOXP2 was identified, most speech and language impairments remain unexplained at the molecular level. We sequenced whole genomes of nineteen unrelated individuals diagnosed with childhood apraxia of speech, a rare disorder enriched for causative mutations of large effect. Where DNA was available from unaffected parents, CHD3 SETD1A WDR5 fi 1234567890();,: we discovered de novo mutations, implicating genes, including , and . In other probands, we identi ed novel loss-of-function variants affecting KAT6A, SETBP1, ZFHX4, TNRC6B and MKL2, regulatory genes with links to neurodevelopment. Several of the new candidates interact with each other or with known speech-related genes. Moreover, they show significant clustering within a single co-expression module of genes highly expressed during early human brain development. This study highlights gene regulatory pathways in the developing brain that may contribute to acquisition of proficient speech. -
Involvement of Microrna in Solid Cancer: Role and Regulatory Mechanisms
biomedicines Review Involvement of microRNA in Solid Cancer: Role and Regulatory Mechanisms Ying-Chin Lin 1,2,†, Tso-Hsiao Chen 3,†, Yu-Min Huang 4,5 , Po-Li Wei 4,6,7,8,9,* and Jung-Chun Lin 10,11,12,* 1 Department of Family Medicine, School of Medicine, College of Medicine, Taipei Medical University, Taipei 110, Taiwan 2 Department of Family Medicine, Wan Fang Hospital, Taipei Medical University, Taipei 116, Taiwan; [email protected] 3 Division of Nephrology, Wan Fang Hospital, Taipei Medical University, Taipei 116, Taiwan; [email protected] 4 Department of Surgery, School of Medicine, College of Medicine, Taipei Medical University, Taipei 110, Taiwan 5 Division of Gastrointestinal Surgery, Department of Surgery, Taipei Medical University Hospital, Taipei Medical University, Taipei 110, Taiwan; [email protected] 6 Division of Colorectal Surgery, Department of Surgery, Taipei Medical University Hospital, Taipei Medical University, Taipei 110, Taiwan 7 Cancer Research Center, Taipei Medical University Hospital, Taipei Medical University, Taipei 110, Taiwan 8 Translational Laboratory, Department of Medical Research, Taipei Medical University Hospital, Taipei Medical University, Taipei 110, Taiwan 9 Graduate Institute of Cancer Biology and Drug Discovery, Taipei Medical University, Taipei 110, Taiwan 10 School of Medical Laboratory Science and Biotechnology, College of Medical Science and Technology, Taipei Medical University, Taipei 110, Taiwan 11 Program in Medical Biotechnology, College of Medical Science and Technology, Taipei Medical University, Taipei 110, Taiwan 12 Pulmonary Research Center, Wan Fang Hospital, Taipei Medical University, Taipei 110, Taiwan Citation: Lin, Y.-C.; Chen, T.-H.; * Correspondence: [email protected] (P.-L.W.); [email protected] (J.-C.L.); Huang, Y.-M.; Wei, P.-L.; Lin, J.-C. -
KIAA0319 and ROBO1: Evidence on Association with Reading and Pleiotropic Effects on Language and Mathematics Abilities in Developmental Dyslexia
Journal of Human Genetics (2014) 59, 189–197 & 2014 The Japan Society of Human Genetics All rights reserved 1434-5161/14 www.nature.com/jhg ORIGINAL ARTICLE KIAA0319 and ROBO1: evidence on association with reading and pleiotropic effects on language and mathematics abilities in developmental dyslexia Sara Mascheretti1, Valentina Riva1, Roberto Giorda2, Silvana Beri2, Lara Francesca Emilia Lanzoni1, Maria Rosaria Cellino3 and Cecilia Marino4,5 Substantial heritability has been reported for developmental dyslexia (DD), and KIAA0319 and ROBO1 appear as more than plausible candidate susceptibility genes for this developmental disorder. Converging evidence indicates that developmental difficulties in oral language and mathematics can predate or co-occur with DD, and substantial genetic correlations have been found between these abilities and reading traits. In this study, we explored the role of eight single-nucleotide polymorphisms spanning within KIAA0319 and ROBO1 genes, and DD as a dichotomic trait, related neuropsychological phenotypes and comorbid language and mathematical (dis)abilities in a large cohort of 493 Italian nuclear families ascertained through a proband with a diagnosis of DD. Marker-trait association was analyzed by implementing a general test of family-based association for quantitative traits (that is, the Quantitative Transmission Disequilibrium Test, version 2.5.1). By providing evidence for significant association with mathematics skills, our data add further result in support of ROBO1 contributing to the deficits in -
Rho/Rhotekin-Mediated NF-Jb Activation Confers Resistance to Apoptosis
Oncogene (2004) 23, 8731–8742 & 2004 Nature Publishing Group All rights reserved 0950-9232/04 $30.00 www.nature.com/onc Rho/Rhotekin-mediated NF-jB activation confers resistance to apoptosis Ching-Ann Liu1, Mei-Jung Wang2, Chin-Wen Chi3, Chew-Wun Wu4 and Jeou-Yuan Chen*,2 1Graduate Institute of Life Sciences, National Defense Medical Center, Taiwan, ROC; 2Institute of Biomedical Sciences, Academia Sinica, Taipei, Taiwan, ROC; 3Department of Medical Research and Education, Taiwan, ROC; 4Department of Surgery, Veterans General Hospital, Taipei, Taiwan, ROC Rhotekin (RTKN), the gene coding for the Rho effector, Introduction RTKN, was shown to be overexpressed in human gastric cancer (GC). In this study, we further showed that RTKN The Rho GTPases are members of the Ras superfamily is expressed at a low level in normal cells and is of monomeric low molecular mass (approx. 21 kDa) overexpressed in many cancer-derived cell lines. The guanine nucleotide-binding proteins. By cycling between function of RTKN as an effector protein in Rho GTPase- an active (GTP-bound) and an inactive (GDP-bound) mediated pathways regulating apoptosis was investigated. state, Rho GTPases function as molecular switches to By transfection and expression of RTKN in cells that control signal transduction pathways in regulation of a expressed endogenous RTKN at a low basal level, we plethora of cellular processes, including cytoskeleton showed that RTKN overexpression conferred cell resis- reorganization, gene transcription, cell-cycle progres- tance to apoptosis induced by serum deprivation or sion, and survival (Bishop and Hall, 2000). The diverse treatment with sodium butyrate, and the increased function of Rho GTPases is mediated through interact- resistance correlated to the level of RTKN. -
Datasheet: VPA00168 Product Details
Datasheet: VPA00168 Description: RABBIT ANTI ROBO1 Specificity: ROBO1 Format: Purified Product Type: PrecisionAb™ Polyclonal Isotype: Polyclonal IgG Quantity: 100 µl Product Details Applications This product has been reported to work in the following applications. This information is derived from testing within our laboratories, peer-reviewed publications or personal communications from the originators. Please refer to references indicated for further information. For general protocol recommendations, please visit www.bio-rad-antibodies.com/protocols. Yes No Not Determined Suggested Dilution Western Blotting 1/1000 PrecisionAb antibodies have been extensively validated for the western blot application. The antibody has been validated at the suggested dilution. Where this product has not been tested for use in a particular technique this does not necessarily exclude its use in such procedures. Further optimization may be required dependant on sample type. Target Species Human Product Form Purified IgG - liquid Preparation Rabbit polyclonal antibody purified by affinity chromatography Buffer Solution Phosphate buffered saline Preservative 0.09% Sodium Azide (NaN ) Stabilisers 3 Immunogen Synthetic peptide corresponding to amino acids 1632-1644 of human ROBO1 External Database Links UniProt: Q2M1J3 Related reagents Specificity Rabbit anti Human ROBO1 antibody recognizes the ROBO1 protein ROBO1 is a member of the immunoglobulin gene superfamily and encodes an integral membrane protein that functions in axon guidance and neuronal precursor cell migration. This receptor is activated by SLIT-family proteins, resulting in a repulsive effect on glioma cell guidance in the developing brain. A related gene is located at an adjacent region on chromosome 3. Multiple transcript variants encoding different isoforms have been found for ROBO1 (provided by RefSeq, Page 1 of 2 Mar 2009). -
Identification of Predictive Biomarkers of Response to HSP90 Inhibitors In
International Journal of Molecular Sciences Article Identification of Predictive Biomarkers of Response to HSP90 Inhibitors in Lung Adenocarcinoma Ángela Marrugal 1, Irene Ferrer 1,2, David Gómez-Sánchez 1,2, Álvaro Quintanal-Villalonga 3, María Dolores Pastor 4, Laura Ojeda 1, Luis Paz-Ares 1,2,5,6,*,† and Sonia Molina-Pinelo 2,4,*,† 1 H12O-CNIO Lung Cancer Clinical Research Unit, Instituto de Investigación Hospital 12 de Octubre & Centro Nacional de Investigaciones Oncológicas (CNIO), 28029 Madrid, Spain; [email protected] (Á.M.); [email protected] (I.F.); [email protected] (D.G.-S.); [email protected] (L.O.) 2 CIBERONC, Respiratory Tract Tumors Program, 28029 Madrid, Spain 3 Program in Molecular Pharmacology, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA; [email protected] 4 Institute of Biomedicine of Seville (IBIS) (HUVR, CSIC, Universidad de Sevilla), 41013 Sevilla, Spain; [email protected] 5 Medical Oncology Department, Hospital Universitario Doce de Octubre, 28041 Madrid, Spain 6 Medical School, Universidad Complutense, 28040 Madrid, Spain * Correspondence: [email protected] (L.P.-A.); [email protected] (S.M.-P.) † These authors contributed equally to this work. Abstract: Heat shock protein 90 (HSP90) plays an essential role in lung adenocarcinoma, acting as a key chaperone involved in the correct functioning of numerous highly relevant protein drivers of this disease. To this end, HSP90 inhibitors have emerged as promising therapeutic strategies, even Citation: Marrugal, Á.; Ferrer, I.; though responses to them have been limited to date. Given the need to maximize treatment efficacy, Gómez-Sánchez, D.; the objective of this study was to use isobaric tags for relative and absolute quantitation (iTRAQ)- Quintanal-Villalonga, Á.; Pastor, based proteomic techniques to identify proteins in human lung adenocarcinoma cell lines whose M.D.; Ojeda, L.; Paz-Ares, L.; basal abundances were correlated with response to HSP90 inhibitors (geldanamycin and radicicol Molina-Pinelo, S.