6 Works

TypeTE: a tool to genotype mobile element insertions from whole genome resequencing data

Clément Goubert, Jainy Thomas, Lindsay Payer, Jeffrey Kidd, Julie Feusier, W. Scott Watkins, Kathleen Burns, Lynn Jorde & Cédric Feschotte
Alu retrotransposons account for more than 10% of the human genome, and insertions of these elements create structural variants segregating in human populations. Such polymorphic Alu are powerful markers to understand population structure, and they represent variants that can greatly impact genome function, including gene expression. Accurate genotyping of Alu and other mobile elements has been challenging. Indeed, we found that Alu genotypes previously called for the 1000 Genomes Project are sometimes erroneous, which poses...

Data from: Stroke patients with psychiatric comorbidities have lower carotid revascularization rates

Diana M. Bongiorno, Gail L. Daumit, Rebecca F. Gottesman & Roland Faigle
Objective: We investigated whether mental illness is associated with lower rates of CEA/CAS after stroke due to carotid stenosis. Methods: In this retrospective cross-sectional study, ischemic stroke cases due to carotid stenosis were identified in the 2007-2014 Nationwide (National) Inpatient Sample. Psychiatric conditions were identified by secondary ICD9-CM diagnosis codes for schizophrenia/psychoses, bipolar disorder, depression, anxiety, or substance use disorders. Using logistic regression, we tested the association between psychiatric conditions and CEA/CAS, controlling for demographic,...

Data from: Assessment of lung function in successfully treated Tuberculosis reveals high burden of ventilatory defects and COPD

Akshay Gupte
Background: Burden, phenotype and risk-factors of lung function defects in successfully treated tuberculosis cases are unclear. Methods: We performed spirometry with bronchodilators in new drug-sensitive adult (>18 years) pulmonary tuberculosis cases during the 12 months following successful treatment in India. Airflow obstruction was defined as pre-bronchodilator FEV1/FVC<5th percentile of Global Lung Initiative mixed-ethnicity reference (lower limit of normal [LLN]). Chronic obstructive pulmonary disease (COPD) was defined as post-bronchodilator FEV1/FVC Methods: We performed spirometry with bronchodilators...

Data from: Long-lasting vocal plasticity in adult marmoset monkeys

Lingyun Zhao, Bahar Boroumand Rad & Xiaoqin Wang
Humans exhibit a high level of vocal plasticity in speech production which allows us to acquire both native and foreign languages, dialects and adapt to local accents in social communication. In comparison, non-human primates exhibit limited vocal plasticity, especially in adulthood, which would limit their ability to adapt to different social and environmental contexts in vocal communication. Here we quantitatively examined the ability of adult common marmosets (Callithrix jacchus), a highly vocal New World primate...

Data from: High-throughput synapse-resolving two-photon fluorescence microendoscopy for deep-brain volumetric imaging in vivo

Guanghan Meng, Yajie Liang, Sarah Sarsfield, Wan-Chen Jiang, Rongwen Lu, Joshua Tate Dudman, Yeka Aponte & Na Ji
Optical imaging has become a powerful tool for studying brains in vivo. The opacity of adult brains makes microendoscopy, with an optical probe such as a gradient index (GRIN) lens embedded into brain tissue to provide optical relay, the method of choice for imaging neurons and neural activity in deeply buried brain structures. Incorporating a Bessel focus scanning module into two-photon fluorescence microendoscopy, we extended the excitation focus axially and improved its lateral resolution. Scanning...

Data from: An enigmatic new ungulate-like mammal from the early Eocene of India

Shawn Zack, Kenneth Rose, Luke Holbrook, Kishor Kumar, Rajendra Rana & Thierry Smith
We report on a new genus and species of herbivorous mammal, Pahelia mysteriosa, from the early Eocene Cambay Shale Formation, Tadkeshwar Lignite Mine, Gujarat, India. The new taxon, approximately the size of a small phenacodontid (e.g., Ectocion parvus), is represented by three mandibular fragments, the most complete of which documents nearly the entire symphysis and mandibular body plus P3-M3. Pahelia has incipiently selenolophodont molars with strong exodaenodonty, absent paraconids, weak but distinct entolophids, and prominent...

Registration Year

  • 2019

Resource Types

  • Dataset


  • Johns Hopkins University School of Medicine
  • Howard Hughes Medical Institute
  • National Institute on Drug Abuse
  • University of Michigan–Ann Arbor
  • Hemwati Nandan Bahuguna Garhwal University
  • University of California, Berkeley
  • National Institutes of Health
  • Lawrence Berkeley National Laboratory
  • Royal Belgian Institute of Natural Sciences
  • University of Arizona