Chronobiology Revisited in Psychiatric Disorders: from a Translational Perspective
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Gene Symbol Gene Description ACVR1B Activin a Receptor, Type IB
Table S1. Kinase clones included in human kinase cDNA library for yeast two-hybrid screening Gene Symbol Gene Description ACVR1B activin A receptor, type IB ADCK2 aarF domain containing kinase 2 ADCK4 aarF domain containing kinase 4 AGK multiple substrate lipid kinase;MULK AK1 adenylate kinase 1 AK3 adenylate kinase 3 like 1 AK3L1 adenylate kinase 3 ALDH18A1 aldehyde dehydrogenase 18 family, member A1;ALDH18A1 ALK anaplastic lymphoma kinase (Ki-1) ALPK1 alpha-kinase 1 ALPK2 alpha-kinase 2 AMHR2 anti-Mullerian hormone receptor, type II ARAF v-raf murine sarcoma 3611 viral oncogene homolog 1 ARSG arylsulfatase G;ARSG AURKB aurora kinase B AURKC aurora kinase C BCKDK branched chain alpha-ketoacid dehydrogenase kinase BMPR1A bone morphogenetic protein receptor, type IA BMPR2 bone morphogenetic protein receptor, type II (serine/threonine kinase) BRAF v-raf murine sarcoma viral oncogene homolog B1 BRD3 bromodomain containing 3 BRD4 bromodomain containing 4 BTK Bruton agammaglobulinemia tyrosine kinase BUB1 BUB1 budding uninhibited by benzimidazoles 1 homolog (yeast) BUB1B BUB1 budding uninhibited by benzimidazoles 1 homolog beta (yeast) C9orf98 chromosome 9 open reading frame 98;C9orf98 CABC1 chaperone, ABC1 activity of bc1 complex like (S. pombe) CALM1 calmodulin 1 (phosphorylase kinase, delta) CALM2 calmodulin 2 (phosphorylase kinase, delta) CALM3 calmodulin 3 (phosphorylase kinase, delta) CAMK1 calcium/calmodulin-dependent protein kinase I CAMK2A calcium/calmodulin-dependent protein kinase (CaM kinase) II alpha CAMK2B calcium/calmodulin-dependent -
CURRICULUM VITAE Joseph S. Takahashi Howard Hughes Medical
CURRICULUM VITAE Joseph S. Takahashi Howard Hughes Medical Institute Department of Neuroscience University of Texas Southwestern Medical Center 5323 Harry Hines Blvd., NA4.118 Dallas, Texas 75390-9111 (214) 648-1876, FAX (214) 648-1801 Email: [email protected] DATE OF BIRTH: December 16, 1951 NATIONALITY: U.S. Citizen by birth EDUCATION: 1981-1983 Pharmacology Research Associate Training Program, National Institute of General Medical Sciences, Laboratory of Clinical Sciences and Laboratory of Cell Biology, National Institutes of Health, Bethesda, MD 1979-1981 Ph.D., Institute of Neuroscience, Department of Biology, University of Oregon, Eugene, Oregon, Dr. Michael Menaker, Advisor. Summer 1977 Hopkins Marine Station, Stanford University, Pacific Grove, California 1975-1979 Department of Zoology, University of Texas, Austin, Texas 1970-1974 B.A. in Biology, Swarthmore College, Swarthmore, Pennsylvania PROFESSIONAL EXPERIENCE: 2013-present Principal Investigator, Satellite, International Institute for Integrative Sleep Medicine, World Premier International Research Center Initiative, University of Tsukuba, Japan 2009-present Professor and Chair, Department of Neuroscience, UT Southwestern Medical Center 2009-present Loyd B. Sands Distinguished Chair in Neuroscience, UT Southwestern 2009-present Investigator, Howard Hughes Medical Institute, UT Southwestern 2009-present Professor Emeritus of Neurobiology and Physiology, and Walter and Mary Elizabeth Glass Professor Emeritus in the Life Sciences, Northwestern University -
Supervised Group Lasso with Applications to Microarray Data Analysis
SUPERVISED GROUP LASSO WITH APPLICATIONS TO MICROARRAY DATA ANALYSIS Shuangge Ma1, Xiao Song2, and Jian Huang3 1Department of Epidemiology and Public Health, Yale University 2Department of Health Administration, Biostatistics and Epidemiology, University of Georgia 3Departments of Statistics and Actuarial Science, and Biostatistics, University of Iowa March 2007 The University of Iowa Department of Statistics and Actuarial Science Technical Report No. 375 1 Supervised group Lasso with applications to microarray data analysis Shuangge Ma¤1 Xiao Song 2and Jian Huang 3 1 Department of Epidemiology and Public Health, Yale University, New Haven, CT 06520, USA 2 Department of Health Administration, Biostatistics and Epidemiology, University of Georgia, Athens, GA 30602, USA 3 Department of Statistics and Actuarial Science, University of Iowa, Iowa City, IA 52242, USA Email: Shuangge Ma¤- [email protected]; Xiao Song - [email protected]; Jian Huang - [email protected]; ¤Corresponding author Abstract Background: A tremendous amount of e®orts have been devoted to identifying genes for diagnosis and prognosis of diseases using microarray gene expression data. It has been demonstrated that gene expression data have cluster structure, where the clusters consist of co-regulated genes which tend to have coordinated functions. However, most available statistical methods for gene selection do not take into consideration the cluster structure. Results: We propose a supervised group Lasso approach that takes into account the cluster structure in gene expression data for gene selection and predictive model building. For gene expression data without biological cluster information, we ¯rst divide genes into clusters using the K-means approach and determine the optimal number of clusters using the Gap method. -
Distinct Splicing Signatures Affect Converged Pathways in Myelodysplastic Syndrome Patients Carrying Mutations in Different Splicing Regulators
Downloaded from rnajournal.cshlp.org on September 30, 2021 - Published by Cold Spring Harbor Laboratory Press Distinct splicing signatures affect converged pathways in myelodysplastic syndrome patients carrying mutations in different splicing regulators JINSONG QIU,1,7 BING ZHOU,1,7 FELICITAS THOL,2 YU ZHOU,1 LIANG CHEN,1 CHANGWEI SHAO,1 CHRISTOPHER DEBOEVER,3 JIAYI HOU,4 HAIRI LI,1 ANUHAR CHATURVEDI,2 ARNOLD GANSER,2 RAFAEL BEJAR,5 DONG-ER ZHANG,6 XIANG-DONG FU,1,3 and MICHAEL HEUSER2 1Department of Cellular and Molecular Medicine, School of Medicine, University of California, San Diego, La Jolla, California 92093, USA 2Department of Hematology, Hemostasis, Oncology and Stem cell Transplantation, Hannover Medical School, 30625 Hannover, Germany 3Institute for Genomic Medicine, University of California, San Diego, La Jolla, California 92093, USA 4Clinical and Translational Research Institute, University of California, San Diego, La Jolla, California 92093, USA 5Division of Hematology-Oncology, Moores Cancer Center, University of California, San Diego, La Jolla, California 92093, USA 6Department of Pathology, Moores Cancer Center, University of California, San Diego, La Jolla, California 92093, USA ABSTRACT Myelodysplastic syndromes (MDS) are heterogeneous myeloid disorders with prevalent mutations in several splicing factors, but the splicing programs linked to specific mutations or MDS in general remain to be systematically defined. We applied RASL-seq, a sensitive and cost-effective platform, to interrogate 5502 annotated splicing events in 169 samples from MDS patients or healthy individuals. We found that splicing signatures associated with normal hematopoietic lineages are largely related to cell signaling and differentiation programs, whereas MDS-linked signatures are primarily involved in cell cycle control and DNA damage responses. -
Biotechnology School of Biotechnology G.M
Programme Structure Post Graduate in Biotechnology School of Biotechnology G.M. University, Sambalpur Post graduate programme comprising two years, will be divided into 4 (four) semesters each of six months duration. Year Semesters First Year Semester I Semester II Second Year Semester III Semester IV The detail of title of papers, credit hours, division of marks etc of all the papers of all semesters is given below. There will be two elective groupsnamely: Discipline Specific Elective in SemII. Interdisciplinary Elective in SemIII. A student has to select one of the DSE paper in Sem II and one of the papers in Sem III as offered by the department at the beginning of the semester II and semester IIIrespectively. Each paper will be of 100 marks out of which 80 marks shall be allocated for semester examination and 20 marks for internal assessment (Mid TermExamination). There will be four lecture hours of teaching per week for eachpaper. Duration of examination of each paper shall be of threehours. Pass Percentage: The minimum marks required to pass any paper shall be 40 percent in each paper and 40 percent in aggregate of asemester. No students will be allowed to avail more than three (3) chances to pass in any paper inclusive of first attempt. Semester-1 Papers Marks Total Duration Credit Paper No Title Mid End Marks (Hrs) Hours Term Term 101 Cell & Molecular Biology 20 80 100 4 4 102 Microbiology 20 80 100 4 4 103 Biochemistry 20 80 100 4 4 104 Genetics 20 80 100 4 4 105 Lab course 100 100 4 4 Total 500 20 20 Semester-2 Papers Marks Total Duration Credit Paper Title Mid End Marks (Hrs) Hours No Term Term 201 Genetic Engineering 20 80 100 4 4 202 Instrumentation and Computer 20 80 100 4 4 Techniques 1 | P a g e 203 Biostatistics and Basics of 20 80 100 4 4 Bioinformatics 204 Developmental Biology (Plant & 20 80 100 4 4 Animal) 205 Lab course 100 100 4 4 DSEPapers* 206 A Animal Physiology 20 80 100 4 4 206 B Plant Physiology 20 80 100 4 4 206 C Bioenergetics and Metabolism 20 80 100 4 4 Total 600 24 *Discipline Specific Elective Paper. -
Correlation Between Circadian Gene Variants and Serum Levels of Sex Steroids and Insulin-Like Growth Factor-I
3268 Correlation between Circadian Gene Variants and Serum Levels of Sex Steroids and Insulin-like Growth Factor-I Lisa W. Chu,1,2 Yong Zhu,3 Kai Yu,1 Tongzhang Zheng,3 Anand P. Chokkalingam,4 Frank Z. Stanczyk,5 Yu-Tang Gao,6 and Ann W. Hsing1 1Division of Cancer Epidemiology and Genetics and 2Cancer Prevention Fellowship Program, Office of Preventive Oncology, National Cancer Institute, NIH, Bethesda, Maryland; 3Department of Epidemiology and Public Health, Yale University School of Medicine, New Haven, Connecticut; 4Division of Epidemiology, School of Public Health, University of California at Berkeley, Berkeley, California; 5Department of Obstetrics and Gynecology, Keck School of Medicine, University of Southern California, Los Angeles, California; and 6Department of Epidemiology, Shanghai Cancer Institute, Shanghai, China Abstract A variety of biological processes, including steroid the GG genotype. In addition, the PER1 variant was hormone secretion, have circadian rhythms, which are associated with higher serum levels of sex hormone- P influenced by nine known circadian genes. Previously, binding globulin levels ( trend = 0.03), decreasing we reported that certain variants in circadian genes 5A-androstane-3A,17B-diol glucuronide levels P P were associated with risk for prostate cancer. To pro- ( trend = 0.02), and decreasing IGFBP3 levels ( trend = vide some biological insight into these findings, we 0.05). Furthermore, the CSNK1E variant C allele was examined the relationship of five variants of circadian associated with higher -
Ck1e Is Required for Breast Cancers Dependent on B- Catenin Activity
CK1e Is Required for Breast Cancers Dependent on b- Catenin Activity So Young Kim1,4,5,6., Ian F. Dunn1,2,6., Ron Firestein1,3,5,6, Piyush Gupta6, Leslie Wardwell1, Kara Repich1,6, Anna C. Schinzel1,4,5,6, Ben Wittner7,8, Serena J. Silver6, David E. Root6, Jesse S. Boehm5,6, Sridhar Ramaswamy6,7,8,9, Eric S. Lander6, William C. Hahn1,4,5,6* 1 Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, United States of America, 2 Department of Neurosurgery, Brigham and Women’s Hospital and Harvard Medical School, Boston, Massachusetts, United States of America, 3 Department of Pathology, Brigham and Women’s Hospital and Harvard Medical School, Boston, Massachusetts, United States of America, 4 Department of Medicine, Brigham and Women’s Hospital and Harvard Medical School, Boston, Massachusetts, United States of America, 5 Center for Cancer Genome Discovery, Dana-Farber Cancer Institute, Boston, Massachusetts, United States of America, 6 Broad Institute, Cambridge, Massachusetts, United States of America, 7 Massachusetts General Hospital Cancer Center, Boston, Massachusetts, United States of America, 8 Department of Medicine, Harvard Medical School, Boston, Massachusetts, United States of America, 9 Harvard Stem Cell Institute, Cambridge, Massachusetts, United States of America Abstract Background: Aberrant b-catenin signaling plays a key role in several cancer types, notably colon, liver and breast cancer. However approaches to modulate b-catenin activity for therapeutic purposes have proven elusive to date. Methodology: To uncover genetic dependencies in breast cancer cells that harbor active b-catenin signaling, we performed RNAi-based loss-of-function screens in breast cancer cell lines in which we had characterized b-catenin activity. -
Chronobiology an Internal Clock L for All Seasons
Eommsnts” EUGENE GARFIELD ~: INSTITUTE FOR SCIENTIFIC lNFORMATION~ 3501 MARKET ST,, PHILADELPHIA, PA 19104 %;%%%?% Chronobiology An Internal Clock L for All Seasons. Part 1. The Development of the Science k of Biological Rhythm Number 1 January 4, 1988 The lives of virtually all plants and animals, from the simplest one-celled organisms to humans, are governed by a variety of internal biological rhythms. This essay (the first of two parts) discusses chronobiology, the study of these biological clocks. Biological periodicities may range from ultradi- an and circadian to circahmar and circasrnualcycles. Using ISI” data, we trace the development of the field from its earliest underpismirrgsin botany and zoology and identify the authors of Citation Ck.rsics”, such as Jurgen Aschoff, Erwin Burming, and Colin S. Phtendrigh. Living organisms exhibit myriad cycles. ing to the daily rise and fall of the sun. In- Annually, the leaves of deciduous trees in deed, so familiar are these rhythms that, ac- the temperate zones turn brilliant hues of cording to pharmacologists Joseph S. Tak- yellow, orange, and red as the days shorten ahashi and Martin Zatz, Laboratory of Clin- and winter approaches. Each year, anirnrds ical Science, National Institute of Mentaf go through cycles related to reproduetion; Health, Bethesda, Maryland, they did not most of those in the temperate zones also elicit systematic, scholarly investigation until experience rhythms that prepare them for the the 1700s.7 Since that time, however, the period of inactivity that comes with winter. study of these biological rhythms has Cycles that take less than a year to com- slowly coalesced into the science of chro- plete are also plentiful. -
Integrative Physiology 1
Integrative Physiology 1 Bustamante, Heidi Margarita (https://experts.colorado.edu/display/ INTEGRATIVE PHYSIOLOGY fisid_146491/) Senior Instructor; MS, University of Colorado Boulder Physiology is the field of biology that deals with function in living organisms. The academic foundation of the department is the knowledge Byrnes, William (https://experts.colorado.edu/display/fisid_100643/) of how humans and animals function at the level of genes, cells, organs Associate Professor Emeritus; PhD, University of Wisconsin–Madison and systems. Our multidisciplinary curriculum requires students to take Carey, Cynthia foundational courses in anatomy, mathematics, physics, physiology and Professor Emerita statistics. With this basic knowledge, students can undertake a flexible curriculum that includes the study of biomechanics, cell physiology, Casagrand, Janet L. (https://experts.colorado.edu/display/fisid_100934/) endocrinology, immunology, exercise physiology, neurophysiology and Senior Instructor; PhD, Case Western Reserve University sleep physiology. The department also encourages student participation in research. DeSouza, Christopher A. (https://experts.colorado.edu/display/ fisid_107460/) Students completing a degree in integrative physiology are expected to Professor; PhD, University of Maryland, College Park acquire the ability and skills to: Eaton, Robert • read, evaluate and synthesize information from the research literature Professor Emeritus on integrative physiology; • observe living organisms and be able to understand the physiological Ehringer, Marissa A. (https://experts.colorado.edu/display/fisid_126595/) principles underlying function; Associate Professor; PhD, University of Colorado Denver • be able to interpret movement and performance data from laboratory Enoka, Roger M. (https://experts.colorado.edu/display/fisid_110122/) measurements; and Professor; PhD, University of Washington • communicate the outcome of an investigation and its contribution to the body of knowledge on integrative physiology. -
Altered Affective Behaviors in Casein Kinase 1 Epsilon Mutant Mice
bioRxiv preprint doi: https://doi.org/10.1101/2020.06.26.158600; this version posted June 27, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. Altered Affective Behaviors in Casein Kinase 1 Epsilon Mutant Mice Lili Zhou1#a*, Karrie Fitzpatrick1#b, Christopher Olker1, Martha H. Vitaterna1, Fred W. Turek1* 1. Center for Sleep and Circadian Biology, Department of Neurobiology, Northwestern University, Evanston, IL, USA. #a. Current address: Department of Neurology, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA. #b. Current address: Department of Psychiatry, University of Minnesota Medical School, Minneapolis, MN, USA. *Correspondence to: [email protected] or [email protected] 1 bioRxiv preprint doi: https://doi.org/10.1101/2020.06.26.158600; this version posted June 27, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. Abstract Affective behaviors and mental health are profoundly affected by disturbances in circadian rhythms. Casein kinase 1 epsilon (CSNK1E) is an essential component of the core circadian clock. Mice with tau point mutation or null mutation of this gene have shortened and lengthened circadian period respectively. Here we examined anxiety-like, fear, and depressive-like behaviors in both male and female mice of these two different mutants. -
International School of Human Chronobiology and Working Life
International School of Human Chronobiology and Working Life August 8 - 12 2016 1.5 Bologna Credits Stockholm Stress Center International School of Human Chrono- biology and Working Life – August 8-12, 2016 Welcome to this years summer course in August 8-12th in Stockholm! We have put together a program that includes the most inspiring, competent and well-known teachers within the field of chronobiology and wor- king life. The lectures will span from molecular clockworks to study designs. The course is held at the campus of Stockholm University, School of Public Health and Stress Research Institute. The course will be based on semi- nars with rich opportunities to meet professors and PhD students close to or within the field of chronobiology, but also in an informal way enjoying the summers season. For social events we are dependent on the weather but there are plans for barbecues, swimming in the lake (50 metres from the Stress Research Institute), pubcrawl in Stockholm, Viking Chess (trad Swedish lawn game) or running around the lake Course leader will be Arne Lowden ([email protected]) and Claudia Moreno ([email protected]) and it is supported by the School of Public Health and the Stockholm Stress Center Graduate School. Teachers John Axelsson – Karolinska Institutet, Sweden Arne Lowden – Stockholm University, Sweden Claudia Moreno – University of São Paulo, Brazil/Stockholm University, Sweden. Malcolm von Schantz - University of Surrey, UK Debra J. Skene – University of Surrey, UK Kenneth Wright - University of Colorado, US Torbjörn Åkerstedt – Karolinska Institutet, Sweden Course plan Course aimed for PhD students International School of Human Chronobiology and Working Life Institution School of Public Health, Stress Research Institute, Stockholm University Area Public Health Registration deadline July 5th, send E-mail to course leader Arne Lowden ([email protected]), include full name, and address, moti- vation and if possible date for acceptance to PhD program. -
Introduction to Chronobiology Chronobiology Is a Multidisciplinary Branch of Science Dealing with Study of Biological Rhythms
Introduction to Chronobiology Chronobiology is a multidisciplinary branch of science dealing with study of biological rhythms. The free-running biological rhythms reflect the endogenous mechanisms of cyclic temporization whose expression is morphologically seen as an internal clock called body clock. All levels of biological integration ranging from ecosystem to subcellular structures exhibit rhythms with diverse frequencies. Periods of most of the documented biological rhythms match with that of any one of geophysical cycles present in the nature. Though circadian rhythms are the most prominent one, ultradian, infradian and circannual rhythms also play vital role in chronobiological homeostasis. Circadian rhythms are generated by an internal clock, or pacemaker. Therefore, even in the absence of cues indicating the time or length of day, circadian rhythms persist. Circadian rhythms exist even in single cells. In fact, studies have shown that a wide range of cell functions exhibit circadian rhythms. Specific genes called clock genes code for circadian rhythms. Genetic control of circadian rhythms has been examined most extensively in the fruit fly. In mammals, considerable experimental evidence indicates that a region of the brain called the suprachiasmatic nucleus (SCN) is the circadian pacemaker. The SCN, composed of a cluster of thousands of small nerve cells, is located within a region of the brain, called hypothalamus. Annual biological cycles are widespread in regions both at extreme latitudes as well as close to equator. Activities such as reproduction, growth, molt, migration, and hibernation are timed in an adaptive manner. The most widely used environmental cue for predicting favorable timing of breeding is photoperiod or day length.