Article
Genetics & Heredity
Margaret A. A. Hojlo, Merhawi Ghebrelul, Casie A. A. Genetti, Richard Smith, Shira Rockowitz, Emma Deaso, Alan H. H. Beggs, Pankaj B. B. Agrawal, David C. C. Glahn, Joseph Gonzalez-Heydrich, Catherine A. A. Brownstein
Summary: Children and adolescents with early-onset psychosis have more rare genetic variants, and this study found an increased burden of rare variants in the GRIN2A gene in individuals with early-onset psychosis compared to controls. GRIN2A variants have been associated with various neuropsychiatric disorders, highlighting its role in early-onset psychosis.
Article
Biochemistry & Molecular Biology
Till F. M. Andlauer, Jose Guzman-Parra, Fabian Streit, Jana Strohmaier, Maria Jose Gonzalez, Susana Gil Flores, Francisco J. Cabaleiro Fabeiro, Francisco del Rio Noriega, Fermin Perez Perez, Jesus Haro Gonzalez, Guillermo Orozco Diaz, Yolanda de Diego-Otero, Berta Moreno-Kustner, Georg Auburger, Franziska Degenhardt, Stefanie Heilmann-Heimbach, Stefan Herms, Per Hoffmann, Josef Frank, Jerome C. Foo, Jens Treutlein, Stephanie H. Witt, Sven Cichon, Manolis Kogevinas, Fabio Rivas, Fermin Mayoral, Bertram Mueller-Myhsok, Andreas J. Forstner, Markus M. Nothen, Marcella Rietschel
Summary: This study analyzed whether the risk for bipolar disorder in BD multiplex families is influenced by common genetic variants. The results showed that familial BD cases and unaffected family members had higher PRS for all three psychiatric disorders, indicating a high baseline risk in the families; familial BD cases had significantly higher BD PRS than unaffected family members and unrelated BD cases, suggesting that development of BD in these families is attributable to common variants with specific risk for BD.
MOLECULAR PSYCHIATRY
(2021)
Article
Endocrinology & Metabolism
Angela Delaney, Adam B. Burkholder, Christopher A. Lavender, Lacey Plummer, Veronica Mericq, Paulina M. Merino, Richard Quinton, Katie L. Lewis, Brooke N. Meader, Alessandro Albano, Natalie D. Shaw, Corrine K. Welt, Kathryn A. Martin, Stephanie B. Seminara, Leslie G. Biesecker, Joan E. Bailey-Wilson, Janet E. Hall
Summary: The study showed that women with HA have a greater burden of RSVs in IHH-related genes, suggesting that genetic variations associated with gonadotropin-releasing hormone neuronal ontogeny and function may be a major determinant of individual susceptibility to developing HA.
JOURNAL OF CLINICAL ENDOCRINOLOGY & METABOLISM
(2021)
Article
Biochemistry & Molecular Biology
Elmo Christian Saarentaus, Aki Samuli Havulinna, Nina Mars, Ari Ahola-Olli, Tuomo Tapio Johannes Kiiskinen, Juulia Partanen, Sanni Ruotsalainen, Mitja Kurki, Lea Martta Urpa, Lei Chen, Markus Perola, Veikko Salomaa, Juha Veijola, Minna Mannikko, Ira M. Hall, Olli Pietilainen, Jaakko Kaprio, Samuli Ripatti, Mark Daly, Aarno Palotie
Summary: The study compared the impact of CNVs carriers and non-carriers on health, cognition, and socioeconomic factors, finding that high-risk CNVs carriers have lower educational attainment and household income. PRS for intelligence and schizophrenia affect these traits, while CNVs have a smaller impact.
MOLECULAR PSYCHIATRY
(2021)
Article
Psychiatry
Martilias Farrell, Tyler E. Dietterich, Matthew K. Harner, Lisa M. Bruno, Dawn M. Filmyer, Rita A. Shaughnessy, Maya L. Lichtenstein, Allison M. Britt, Tamara F. Biondi, James J. Crowley, Gabriel Lazaro-Munoz, Annika E. Forsingdal, Jacob Nielsen, Michael Didriksen, Jonathan S. Berg, Jia Wen, Jin Szatkiewicz, Rose Mary Xavier, Patrick F. Sullivan, Richard C. Josiassen
Summary: This study investigates the relationship between copy number variants (CNVs) and treatment-resistant psychosis in patients with psychotic disorders. It suggests that CNVs, especially those associated with neurodevelopmental risk, may impact treatment resistance and serve as biological markers for studying this condition.
SCHIZOPHRENIA BULLETIN
(2023)
Article
Genetics & Heredity
Amy B. Wilfert, Tychele N. Turner, Shwetha C. Murali, PingHsun Hsieh, Arvis Sulovari, Tianyun Wang, Bradley P. Coe, Hui Guo, Kendra Hoekzema, Trygve E. Bakken, Lara H. Winterkorn, Uday S. Evani, Marta Byrska-Bishop, Rachel K. Earl, Raphael A. Bernier, Michael C. Zody, Evan E. Eichler
Summary: Whole-genome sequencing data from 3,474 families revealed an excess of private, likely gene-disrupting variants in individuals with autism, which are under purifying selection. The study identified candidate genes not previously associated with autism and highlighted the importance of ultra-rare variants in autism risk. Private LGD variants were found to be significantly younger and act on a distinct set of genes, supporting a multi-hit model for autism.
Article
Biochemical Research Methods
Hao Wu, Pengyu Zhang, Zhaoheng Ai, Leyi Wei, Hongming Zhang, Fan Yang, Lizhen Cui
Summary: This study proposes a novel ensemble learning framework called StackTADB for predicting the boundaries of TADs. Through data analysis and performance comparison, StackTADB is shown to have superior performance in predicting TAD boundaries. Additionally, Kmers-based features play an important role in predicting TAD boundaries in fruit flies.
BRIEFINGS IN BIOINFORMATICS
(2022)
Article
Psychiatry
Shangzhong Li, Lynn E. DeLisi, Stefan McDonough
Summary: An extensive study analyzed whole genome sequences of 61 affected individuals from 15 families, revealing that most schizophrenia polygenic risk scores fell within the control range, while very rare damaging variants in certain candidate disease-related genes were found in six families, indicating their potential contributions to the heritability of schizophrenia.
PSYCHIATRY RESEARCH
(2021)
Article
Genetics & Heredity
Chiara Fallerini, Nicola Picchiotti, Margherita Baldassarri, Kristina Zguro, Sergio Daga, Francesca Fava, Elisa Benetti, Sara Amitrano, Mirella Bruttini, Maria Palmieril, Susanna Croci, Mirjam Lista, Giada Beligni, Floriana Valentino, Ilaria Meloni, Marco Tanfoni, Francesca Minnai, Francesca Colombo, Enrico Cabri, Maddalena Fratelli, Chiara Gabbi, Stefania Mantovani, Elisa Frullanti, Marco Gori, Francis P. Crawley, Guillaume Butler-Laporte, Brent Richards, Hugo Zeberg, Miklos Lipcsey, Michael Hultstrom, Kerstin U. Ludwig, Eva C. Schulte, Erola Pairo-Castineira, John Kenneth Baillie, Axel Schmidt, Robert Frithiof, Francesca Mari, Alessandra Renieri, Simone Furini
Summary: The study developed a machine-learning model using common and rare exonic variants to predict COVID-19 severity. By selecting key Boolean features and combining them into an Integrated PolyGenic Score, the model offers insights into the genetic contribution to disease severity. A quarter of the selected genes are sex-specific, and pathway analysis highlighted the multi-organ nature of COVID-19 severity. This model could potentially aid in diagnostics, therapeutics, and disease management at the bedside.
Article
Geriatrics & Gerontology
Yun Joong Kim, Jinwoo Lee, Nan Young Kim, SangKyoon Hong, Yoon Shin Cho, Jeehee Yoon
Summary: Rare damaging variants in genes related to hereditary atypical parkinsonian disorders showed significant association with Parkinson's disease, while no association was found in genes with a locus symbol prefix for familial Parkinson's disease. These results suggest the importance of rare damaging variants in causative genes for hereditary atypical parkinsonism.
NEUROBIOLOGY OF AGING
(2021)
Article
Multidisciplinary Sciences
Elif Everest, Mohammad Ahangari, Ugur Uygunoglu, Melih Tutuncu, Alper Bulbul, Sabahattin Saip, Taskin Duman, Ugur Sezerman, Daniel S. Reich, Brien P. Riley, Aksel Siva, Eda Tahir Turanli
Summary: Through studying multiplex multiple sclerosis (MS) families, it was found that familial MS cases have a higher burden of common risk variants compared to the general population, while sporadic MS cases tend to have a higher polygenic risk score, indicating a higher burden of rare risk variants in families.
SCIENTIFIC REPORTS
(2022)
Article
Psychiatry
Tzuyao Lo, Itaru Kushima, Branko Aleksic, Hidekazu Kato, Yoshihiro Nawa, Yu Hayashi, Gantsooj Otgonbayar, Hiroki Kimura, Yuko Arioka, Daisuke Mori, Norio Ozaki
Summary: Chromatin remodelling is an important process in neural development and is related to the genetic aetiology of autism spectrum disorder (ASD) and schizophrenia (SCZ) in the Japanese population. Our case-control study found significant enrichment of rare missense variants in BAF genes in ASD, but not in SCZ. These variants, located in disordered binding regions, may disrupt protein-protein interactions and increase the risk for ASD and SCZ.
INTERNATIONAL REVIEW OF PSYCHIATRY
(2022)
Article
Neurosciences
Mathew Halvorsen, Jack Samuels, Ying Wang, Benjamin D. Greenberg, Abby J. Fyer, James T. McCracken, Daniel A. Geller, James A. Knowles, Anthony W. Zoghbi, Tess D. Pottinger, Marco A. Grados, Mark A. Riddle, O. Joseph Bienvenu, Paul S. Nestadt, Janice Krasnow, Fernando S. Goes, Brion Maher, Gerald Nestadt, David B. Goldstein
Summary: An analysis of the largest exome sequencing dataset of individuals with obsessive-compulsive disorder reveals that rare damaging coding variants play a role in disease risk, as supported by both case-control and de novo variant studies. This study provides insights into the genetic factors contributing to OCD and highlights the significance of rare coding variants in its development.
NATURE NEUROSCIENCE
(2021)
Article
Neurosciences
Todd Lencz, Jin Yu, Raiyan Rashid Khan, Erin Flaherty, Shai Carmi, Max Lam, Danny Ben-Avraham, Nir Barzilai, Susan Bressman, Ariel Darvasi, Judy H. Cho, Lorraine N. Clark, Zeynep H. Gumus, Joseph Vijai, Robert J. Klein, Steven Lipkin, Kenneth Offit, Harry Ostrer, Laurie J. Ozelius, Inga Peter, Anil K. Malhotra, Tom Maniatis, Gil Atzmon, Itsik Pe'er
Summary: Identification of rare variants associated with schizophrenia is challenging due to genetic heterogeneity, but in the Ashkenazi Jewish population, cases were found to have a higher frequency of novel MisLoF URVs compared to controls. The burden of MisLoF URVs was inversely correlated with polygenic risk scores in cases. The cadherin gene set was associated with schizophrenia, with a recurrent case mutation in PCDHA3 being linked to cytoplasmic aggregation formation.
Article
Genetics & Heredity
Lorenzo Bomba, Klaudia Walter, Qi Guo, Praveen Surendran, Kousik Kundu, Suraj Nongmaithem, Mohd Anisul Karim, Isobel D. Stewart, Claudia Langenberg, John Danesh, Emanuele Di Angelantonio, David J. Roberts, Willem H. Ouwehand, Ian Dunham, Adam S. Butterworth, Nicole Soranzo
Summary: Metabolite levels measured in the human population were analyzed to identify associations with rare genetic variants. The study identified 40 novel associations, of which 28 were replicated, between rare coding variants and metabolite levels. Algorithms were developed to prioritize driver variants and statistical analyses were used to test the directionality of associations between metabolite and protein levels. The study found that 66% of reported associations involved gene targets of approved drugs or bioactive drug-like compounds, validating efforts in drug target research.
AMERICAN JOURNAL OF HUMAN GENETICS
(2022)
Article
Psychology, Clinical
Zeynep Yilmaz, Katherine Schaumberg, Matthew Halvorsen, Erica L. Goodman, Leigh C. Brosof, James J. Crowley, Carol A. Mathews, Manuel Mattheisen, Gerome Breen, Cynthia M. Bulik, Nadia Micali, Stephanie C. Zerwas
Summary: This study found a genetic overlap between anorexia nervosa (AN), obsessive-compulsive disorder (OCD), and anxiety symptoms, with a potential sex-specific contribution of genetic risk. AN and AN/OCD polygenic scores (PGS) played a more prominent role in predicting eating disorder and anxiety symptoms, while OCD PGS had a smaller effect. The results also suggest that compulsive exercise may have a transdiagnostic genetic etiology.
PSYCHOLOGICAL MEDICINE
(2023)
Article
Oncology
Holger Weishaupt, Matko Cancer, Gabriela Rosen, Karl O. Holmberg, Susana Haggqvist, Ignas Bunikis, Yiwen Jiang, Smitha Sreedharan, Ulf Gyllensten, Oren J. Becher, Lene Uhrbom, Adam Ameur, Fredrik J. Swartling
Summary: This study demonstrates a novel approach to tagging glioma genes using retroviral integration sites. By using a high-throughput pipeline coupled to a tumor model system, the researchers were able to detect retroviral integration sites in malignant stem cell lines from glioma biopsies. The results identified genes that have been dysregulated in glioma and also discovered novel potential cancer-causing genes.
Article
Clinical Neurology
Aniko Lovik, Juan Gonzalez-Hijon, Anna K. Kahler, Unnur A. Valdimarsdottr, Emma M. Frans, Patrik K. E. Magnusson, Nancy L. Pedersen, Per Hall, Kamila Czene, Patrick F. Sullivan, Fang Fang
Summary: The study aims to describe the mental health burden experienced in Sweden during the COVID-19 pandemic. The results show that a considerable proportion of the population had symptoms of depression, anxiety, and PTSD, with 43.4% having significant symptoms for at least one of the three outcomes. However, the prevalence of these symptoms in Sweden is lower than previously reported levels during the pandemic.
JOURNAL OF AFFECTIVE DISORDERS
(2023)
Article
Psychiatry
Laura W. Wesseldijk, Yi Lu, Robert Karlsson, Fredrik Ullen, Miriam A. Mosing
Summary: While music engagement is often seen as beneficial for mental health, some studies have found a higher risk of depression and anxiety among musicians. This study suggests that the association between music engagement and mental health may be influenced by shared genetic factors and the presence of certain psychiatric disorders. Importantly, the study found no evidence for gene-environment interaction, indicating that the relationship between music engagement and mental health outcomes is not dependent on an individual's genetic vulnerability for mental health problems.
TRANSLATIONAL PSYCHIATRY
(2023)
Article
Biochemistry & Molecular Biology
Josefin Johansson, Sarah Lideus, Carina Frykholm, Cecilia Gunnarsson, Filip Mihalic, Sanna Gudmundsson, Sara Ekvall, Anna-Maja Molin, Mai Pham, Mauno Vihinen, Kristina Lagerstedt-Robinson, Ann Nordgren, Per Jemth, Adam Ameur, Goeran Anneren, Maria Wilbe, Marie-Louise Bondeson
Summary: This study reveals the genetic and molecular factors underlying Gustavson syndrome, and identifies a novel in-frame deletion in the RBMX gene associated with this syndrome, leading to disrupted RNA polymerase II transcription and potentially reduced SH3 binding. These findings provide new insights into the pathogenesis of RBMX-related intellectual disabilities.
EUROPEAN JOURNAL OF HUMAN GENETICS
(2023)
Article
Cell Biology
Caroline Gelabert, Panagiotis Papoutsoglou, Irene Golan, Eric Ahlstrom, Adam Ameur, Carl-Henrik Heldin, Laia Caja, Aristidis Moustakas
Summary: This study demonstrates that LINC00707 interacts with Smad proteins, limiting the output of TGF beta signaling and suppressing cancer cell invasion.
CELL COMMUNICATION AND SIGNALING
(2023)
Article
Biochemistry & Molecular Biology
Emilio Marmol-Sanchez, Bastian Fromm, Nikolay Oskolkov, Zoe Pochon, Panagiotis Kalogeropoulos, Eli Eriksson, Inna Biryukova, Vaishnovi Sekar, Erik Ersmark, Bjorn Andersson, Love Dalen, Marc R. Friedlander
Summary: Using historical RNA from a preserved Tasmanian tiger, researchers successfully obtained transcriptional profiles and gained insights into gene expression dynamics of an extinct animal species. These findings have significant implications for studying RNA molecules in natural history museums' collections and well-preserved permafrost remains.
Article
Multidisciplinary Sciences
Kristine Bilgrav Saether, Daniel Nilsson, Hakan Thonberg, Emma Tham, Adam Ameur, Jesper Eisfeldt, Anna Lindstrand
Summary: The majority of rare diseases are genetic, and despite advances in genomics-based investigations, a large percentage of patients remain undiagnosed. A significant contributing factor to this is the limited understanding of transposable elements (TE), which make up a substantial portion of the human genome. This study aims to bridge this knowledge gap by characterizing TE insertions in different populations and highlights the potential clinical implications in rare disease diagnostics.
Article
Multidisciplinary Sciences
Josefin Johansson, Sarah Lideus, Ida Hoijer, Adam Ameur, Sanna Gudmundsson, Goeran Anneren, Marie-Louise Bondeson, Maria Wilbe
Summary: Researchers developed a novel strategy called XCI-ONT, which combines amplification-free Cas9 enrichment and Oxford nanopore technologies sequencing, to investigate and accurately quantify X-chromosome inactivation (XCI). The XCI-ONT strategy was shown to be more useful and reliable than the PCR-based golden standard technique, and it provides a valuable tool for studying X-linked traits in clinical and research settings.
SCIENTIFIC REPORTS
(2023)
Article
Genetics & Heredity
Daniel Schmitz, Zhiwei Li, Valeria Lo Faro, Mathias Rask-Andersen, Adam Ameur, Nima Rafati, Asa Johansson
Summary: This study characterized CNVs in a Swedish cohort using whole-genome sequencing and identified CNVs associated with plasma proteins. Validations were done using long-read sequencing. The findings provide insights into the structure and effects of common CNVs on the plasma proteome.
Article
Psychiatry
Ying Xiong, Robert Karlsson, Jie Song, Kaarina Kowalec, Christian Rueck, Robert Sigstroem, Lina Jonsson, Caitlin C. Clements, Evelyn Andersson, Julia Boberg, Cathryn M. Lewis, Patrick F. Sullivan, Mikael Landen, Yi Lu
Summary: This study aims to investigate the genetic overlap between treatment response and resistance in individuals with major depressive disorder (MDD), and provides evidence for the heritability of treatment-related phenotypes. It highlights the overall genetic profile of lithium-sensitivity in treatment-resistant depression (TRD), offering a genetic explanation for the efficacy of lithium in treating TRD.
TRANSLATIONAL PSYCHIATRY
(2023)
Article
Genetics & Heredity
Kimberly Sturk-Andreaggi, Martin Bodner, Joseph D. Ring, Adam Ameur, Ulf Gyllensten, Walther Parson, Charla Marshall, Marie Allen
Summary: The study analyzed the mitochondrial DNA (mtDNA) reads from the SweGen whole genome sequencing dataset to characterize mitogenome variation in Sweden. A total of 934 forensic-quality mitogenome haplotypes were identified, with almost 45% belonging to haplogroup H. The majority (99.1%) of the mitogenome haplotypes were assigned to European haplogroups, as expected. The study also observed signature haplogroups from northern Sweden and Finland, consistent with previous nuclear DNA analyses. The complete mitogenome analysis showed high haplotype diversity and a low random match probability.
Article
Genetics & Heredity
Gregory Lazarian, Bernard Leroy, Floriane Theves, Myriam Hormi, Remi Letestu, Virginie Eclache, Giulia Tueur, Adam Ameur, Audrey Bidet, Pascale Cornillet-Lefebvre, Frederic Davi, Eric Delabesse, Marie-Helene Estienne, Pascaline Etancelin, Olivier Kosmider, Sophy Laibe, Marc Muller, Nathalie Nadal, Dina Naguib, Cedric Pastoret, Stephanie Poulain, Pierre Sujobert, Lauren Veronese, Samia Imache, Valerie Lefebvre, Florence Cymbalista, Fanny Baran-Marszak, Thierry Soussi
Summary: TP53 aberrations are a major predictive factor for resistance to chemoimmunotherapy in CLL. This study analyzed 1,056 TP53 variants from 683 patients in France and compared them to a dataset of 5,173 TP53 variants from published articles. The analysis identified CLL-specific hotspot mutations and a novel splice variant. The study also found frequent copy-neutral loss of heterozygosity in CLL and the presence of multiple TP53 variants in a high proportion of patients.
Meeting Abstract
Biochemistry & Molecular Biology
Josefin Johansson, Sarah Lideus, Filip Mihalic, Mauno Vihinen, Carina Frykholm, Sanna Gudmundsson, Adam Ameur, Per Jemth, Marie-Louise Bondeson, Maria Wilbe
EUROPEAN JOURNAL OF HUMAN GENETICS
(2023)
Meeting Abstract
Biochemistry & Molecular Biology
Jonas Mattisson, Moeen Riaz, Galina Polekhina, Andrew Bakshi, Jonatan Halvardson, Marcus Danielsson, Adam Ameur, John McNeil, Lars Forsberg, Paul Lacaze
EUROPEAN JOURNAL OF HUMAN GENETICS
(2023)