Structure and Junctional Complexes of Endothelial, Epithelial and Glial Brain Barriers
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PARSANA-DISSERTATION-2020.Pdf
DECIPHERING TRANSCRIPTIONAL PATTERNS OF GENE REGULATION: A COMPUTATIONAL APPROACH by Princy Parsana A dissertation submitted to The Johns Hopkins University in conformity with the requirements for the degree of Doctor of Philosophy Baltimore, Maryland July, 2020 © 2020 Princy Parsana All rights reserved Abstract With rapid advancements in sequencing technology, we now have the ability to sequence the entire human genome, and to quantify expression of tens of thousands of genes from hundreds of individuals. This provides an extraordinary opportunity to learn phenotype relevant genomic patterns that can improve our understanding of molecular and cellular processes underlying a trait. The high dimensional nature of genomic data presents a range of computational and statistical challenges. This dissertation presents a compilation of projects that were driven by the motivation to efficiently capture gene regulatory patterns in the human transcriptome, while addressing statistical and computational challenges that accompany this data. We attempt to address two major difficulties in this domain: a) artifacts and noise in transcriptomic data, andb) limited statistical power. First, we present our work on investigating the effect of artifactual variation in gene expression data and its impact on trans-eQTL discovery. Here we performed an in-depth analysis of diverse pre-recorded covariates and latent confounders to understand their contribution to heterogeneity in gene expression measurements. Next, we discovered 673 trans-eQTLs across 16 human tissues using v6 data from the Genotype Tissue Expression (GTEx) project. Finally, we characterized two trait-associated trans-eQTLs; one in Skeletal Muscle and another in Thyroid. Second, we present a principal component based residualization method to correct gene expression measurements prior to reconstruction of co-expression networks. -
The Strain Rates in the Brain, Brainstem, Dura, and Skull Under Dynamic Loadings
Mathematical and Computational Applications Article The Strain Rates in the Brain, Brainstem, Dura, and Skull under Dynamic Loadings Mohammad Hosseini-Farid 1,2,* , MaryamSadat Amiri-Tehrani-Zadeh 3, Mohammadreza Ramzanpour 1, Mariusz Ziejewski 1 and Ghodrat Karami 1 1 Department of Mechanical Engineering, North Dakota State University, Fargo, ND 58104, USA; [email protected] (M.R.); [email protected] (M.Z.); [email protected] (G.K.) 2 Department of Orthopedic Surgery, Mayo Clinic, Rochester, MN 55905, USA 3 Department of Computer Science, North Dakota State University, Fargo, ND 58104, USA; [email protected] * Correspondence: [email protected]; Tel.: +1-7012315859 Received: 7 March 2020; Accepted: 5 April 2020; Published: 7 April 2020 Abstract: Knowing the precise material properties of intracranial head organs is crucial for studying the biomechanics of head injury. It has been shown that these biological tissues are significantly rate-dependent; hence, their material properties should be determined with respect to the range of deformation rate they experience. In this paper, a validated finite element human head model is used to investigate the biomechanics of the head in impact and blast, leading to traumatic brain injuries (TBI). We simulate the head under various directions and velocities of impacts, as well as helmeted and unhelmeted head under blast shock waves. It is demonstrated that the strain rates for the brain 1 are in the range of 36 to 241 s− , approximately 1.9 and 0.86 times the resulting head acceleration under impacts and blast scenarios, respectively. The skull was found to experience a rate in the range 1 of 14 to 182 s− , approximately 0.7 and 0.43 times the head acceleration corresponding to impact and blast cases. -
What to Expect After Having a Subarachnoid Hemorrhage (SAH) Information for Patients and Families Table of Contents
What to expect after having a subarachnoid hemorrhage (SAH) Information for patients and families Table of contents What is a subarachnoid hemorrhage (SAH)? .......................................... 3 What are the signs that I may have had an SAH? .................................. 4 How did I get this aneurysm? ..................................................................... 4 Why do aneurysms need to be treated?.................................................... 4 What is an angiogram? .................................................................................. 5 How are aneurysms repaired? ..................................................................... 6 What are common complications after having an SAH? ..................... 8 What is vasospasm? ...................................................................................... 8 What is hydrocephalus? ............................................................................... 10 What is hyponatremia? ................................................................................ 12 What happens as I begin to get better? .................................................... 13 What can I expect after I leave the hospital? .......................................... 13 How will the SAH change my health? ........................................................ 14 Will the SAH cause any long-term effects? ............................................. 14 How will my emotions be affected? .......................................................... 15 When should -
Meninges Ventricles And
Meninges ,ventricles & CSF Dr.Sanaa Al-Shaarawy Dr. Essam Eldin Salama OBJECTIVES • By the end of the lecture the student should be able to: • Describe the cerebral meninges & list the main dural folds. • Describe the spinal meninges & locate the level of the termination of each of them. • Describe the importance of the subarachnoid space. • List the Ventricular system of the CNS and locate the site of each of them. • Describe the formation, circulation, drainage, and functions of the CSF. • Know some clinical point about the CSF MENINGES • The brain and spinal cord are invested by three concentric membranes ; • The outermost layer is the dura matter. • The middle layer is the arachnoid matter. • The innermost layer is the pia matter. DURA MATER ▪The cranial dura is a two layered tough, fibrous thick membrane that surrounds the brain. ▪It is formed of two layers; periosteal and meningeal. ▪The periosteal layer is attached to the skull. ▪The meningeal layer is folded forming the dural folds : falx cerebri, and tentorium cerebelli. ▪Sensory innervation of the dura is mostly from : meningeal branches of the trigeminal and vagus nerves & C1 to C3(upper cervical Ns.). DURA MATER Folds Two large reflection of dura extend into the cranial cavity : 1.The falx cerebri, In the midline, ▪It is a vertical sickle-shaped sheet of dura, extends from the cranial roof into the great longitudinal fissure between the two cerebral hemispheres. ▪It has an attached border adherent to the skull. ▪And a free border lies above the corpus callosum. DURA MATER Folds 2. A horizontal shelf of dura, The tentorium cerebelli, ▪ It lies between the posterior part of the cerebral hemispheres and the cerebellum. -
Lecture 4: the Meninges And
1/1/2016 Introduction • Protection of the brain – Bone (skull) The Nervous System – Membranes (meninges) – Watery cushion (cerebrospinal fluid) – Blood-brain barrier (astrocytes) Meninges CSF The Meninges The Meninges • Series of membranes • Three layers • Cover and protect the CNS – Dura mater • Anchor and cushion the brain – Arachnoid mater – • Contain cerebrospinal fluid (CSF) Pia mater The Meninges • Dura mater – “Tough mother” Skin of scalp Periosteum – Strongest meninx Bone of skull Periosteal Dura – Fibrous connective tissue Meningeal mater Superior Arachnoid mater – sagittal sinus Pia mater Limit excessive movement of the brain Subdural Arachnoid villus – space Blood vessel Forms partitions in the skull Subarachnoid Falx cerebri space (in longitudinal fissure only) Figure 12.24 1 1/1/2016 Superior The Meninges sagittal sinus Falx cerebri • Arachnoid mater – “Spider mother” Straight sinus – Middle layer with weblike extensions Crista galli – Separated from the dura mater by the subdural space of the Tentorium ethmoid cerebelli – Subarachnoid space contains CSF and blood vessels bone Falx Pituitary cerebelli gland (a) Dural septa Figure 12.25a The Meninges • Pia mater – “Gentle mother” – Connected to the dura mater by projections from the arachnoid mater – Layer of delicate vascularized connective tissue – Clings tightly to the brain T Meningitis TT121212 Ligamentum flavumflavumflavum L • LL555 Lumbar puncture Inflammation of meninges needle entering subarachnoid • May be bacterial or viral spacespacespace LLL444 • Diagnosed by -
1A Multiple Sclerosis Treatment
The Pharmacogenomics Journal (2012) 12, 134–146 & 2012 Macmillan Publishers Limited. All rights reserved 1470-269X/12 www.nature.com/tpj ORIGINAL ARTICLE Network analysis of transcriptional regulation in response to intramuscular interferon-b-1a multiple sclerosis treatment M Hecker1,2, RH Goertsches2,3, Interferon-b (IFN-b) is one of the major drugs for multiple sclerosis (MS) 3 2 treatment. The purpose of this study was to characterize the transcriptional C Fatum , D Koczan , effects induced by intramuscular IFN-b-1a therapy in patients with relapsing– 2 1 H-J Thiesen , R Guthke remitting form of MS. By using Affymetrix DNA microarrays, we obtained and UK Zettl3 genome-wide expression profiles of peripheral blood mononuclear cells of 24 MS patients within the first 4 weeks of IFN-b administration. We identified 1Leibniz Institute for Natural Product Research 121 genes that were significantly up- or downregulated compared with and Infection Biology—Hans-Knoell-Institute, baseline, with stronger changed expression at 1 week after start of therapy. Jena, Germany; 2University of Rostock, Institute of Immunology, Rostock, Germany and Eleven transcription factor-binding sites (TFBS) are overrepresented in the 3University of Rostock, Department of Neurology, regulatory regions of these genes, including those of IFN regulatory factors Rostock, Germany and NF-kB. We then applied TFBS-integrating least angle regression, a novel integrative algorithm for deriving gene regulatory networks from gene Correspondence: M Hecker, Leibniz Institute for Natural Product expression data and TFBS information, to reconstruct the underlying network Research and Infection Biology—Hans-Knoell- of molecular interactions. An NF-kB-centered sub-network of genes was Institute, Beutenbergstr. -
Meningioma ACKNOWLEDGEMENTS
AMERICAN BRAIN TUMOR ASSOCIATION Meningioma ACKNOWLEDGEMENTS ABOUT THE AMERICAN BRAIN TUMOR ASSOCIATION Meningioma Founded in 1973, the American Brain Tumor Association (ABTA) was the first national nonprofit advocacy organization dedicated solely to brain tumor research. For nearly 45 years, the ABTA has been providing comprehensive resources that support the complex needs of brain tumor patients and caregivers, as well as the critical funding of research in the pursuit of breakthroughs in brain tumor diagnosis, treatment and care. To learn more about the ABTA, visit www.abta.org. We gratefully acknowledge Santosh Kesari, MD, PhD, FANA, FAAN chair of department of translational neuro- oncology and neurotherapeutics, and Marlon Saria, MSN, RN, AOCNS®, FAAN clinical nurse specialist, John Wayne Cancer Institute at Providence Saint John’s Health Center, Santa Monica, CA; and Albert Lai, MD, PhD, assistant clinical professor, Adult Brain Tumors, UCLA Neuro-Oncology Program, for their review of this edition of this publication. This publication is not intended as a substitute for professional medical advice and does not provide advice on treatments or conditions for individual patients. All health and treatment decisions must be made in consultation with your physician(s), utilizing your specific medical information. Inclusion in this publication is not a recommendation of any product, treatment, physician or hospital. COPYRIGHT © 2017 ABTA REPRODUCTION WITHOUT PRIOR WRITTEN PERMISSION IS PROHIBITED AMERICAN BRAIN TUMOR ASSOCIATION Meningioma INTRODUCTION Although meningiomas are considered a type of primary brain tumor, they do not grow from brain tissue itself, but instead arise from the meninges, three thin layers of tissue covering the brain and spinal cord. -
Subarachnoid Trabeculae: a Comprehensive Review of Their Embryology, Histology, Morphology, and Surgical Significance Martin M
Literature Review Subarachnoid Trabeculae: A Comprehensive Review of Their Embryology, Histology, Morphology, and Surgical Significance Martin M. Mortazavi1,2, Syed A. Quadri1,2, Muhammad A. Khan1,2, Aaron Gustin3, Sajid S. Suriya1,2, Tania Hassanzadeh4, Kian M. Fahimdanesh5, Farzad H. Adl1,2, Salman A. Fard1,2, M. Asif Taqi1,2, Ian Armstrong1,2, Bryn A. Martin1,6, R. Shane Tubbs1,7 Key words - INTRODUCTION: Brain is suspended in cerebrospinal fluid (CSF)-filled sub- - Arachnoid matter arachnoid space by subarachnoid trabeculae (SAT), which are collagen- - Liliequist membrane - Microsurgical procedures reinforced columns stretching between the arachnoid and pia maters. Much - Subarachnoid trabeculae neuroanatomic research has been focused on the subarachnoid cisterns and - Subarachnoid trabecular membrane arachnoid matter but reported data on the SAT are limited. This study provides a - Trabecular cisterns comprehensive review of subarachnoid trabeculae, including their embryology, Abbreviations and Acronyms histology, morphologic variations, and surgical significance. CSDH: Chronic subdural hematoma - CSF: Cerebrospinal fluid METHODS: A literature search was conducted with no date restrictions in DBC: Dural border cell PubMed, Medline, EMBASE, Wiley Online Library, Cochrane, and Research Gate. DL: Diencephalic leaf Terms for the search included but were not limited to subarachnoid trabeculae, GAG: Glycosaminoglycan subarachnoid trabecular membrane, arachnoid mater, subarachnoid trabeculae LM: Liliequist membrane ML: Mesencephalic leaf embryology, subarachnoid trabeculae histology, and morphology. Articles with a PAC: Pia-arachnoid complex high likelihood of bias, any study published in nonpopular journals (not indexed PPAS: Potential pia-arachnoid space in PubMed or MEDLINE), and studies with conflicting data were excluded. SAH: Subarachnoid hemorrhage SAS: Subarachnoid space - RESULTS: A total of 1113 articles were retrieved. -
Spinal Meninges Neuroscience Fundamentals > Regional Neuroscience > Regional Neuroscience
Spinal Meninges Neuroscience Fundamentals > Regional Neuroscience > Regional Neuroscience SPINAL MENINGES GENERAL ANATOMY Meningeal Layers From outside to inside • Dura mater • Arachnoid mater • Pia mater Meningeal spaces From outside to inside • Epidural (above the dura) - See: epidural hematoma and spinal cord compression from epidural abscess • Subdural (below the dura) - See: subdural hematoma • Subarachnoid (below the arachnoid mater) - See: subarachnoid hemorrhage Spinal canal Key Anatomy • Vertebral body (anteriorly) • Vertebral arch (posteriorly). • Vertebral foramen within the vertebral arch. MENINGEAL LAYERS 1 / 4 • Dura mater forms a thick ring within the spinal canal. • The dural root sheath (aka dural root sleeve) is the dural investment that follows nerve roots into the intervertebral foramen. • The arachnoid mater runs underneath the dura (we lose sight of it under the dural root sheath). • The pia mater directly adheres to the spinal cord and nerve roots, and so it takes the shape of those structures. MENINGEAL SPACES • The epidural space forms external to the dura mater, internal to the vertebral foramen. • The subdural space lies between the dura and arachnoid mater layers. • The subarachnoid space lies between the arachnoid and pia mater layers. CRANIAL VS SPINAL MENINGES  Cranial Meninges • Epidural is a potential space, so it's not a typical disease site unless in the setting of high pressure middle meningeal artery rupture or from traumatic defect. • Subdural is a potential space but bridging veins (those that pass from the subarachnoid space into the dural venous sinuses) can tear, so it is a common site of hematoma. • Subarachnoid space is an actual space and is a site of hemorrhage and infection, for example. -
The Choroid Plexus: a Comprehensive Review of Its History, Anatomy, Function, Histology, Embryology, and Surgical Considerations
Childs Nerv Syst (2014) 30:205–214 DOI 10.1007/s00381-013-2326-y REVIEW PAPER The choroid plexus: a comprehensive review of its history, anatomy, function, histology, embryology, and surgical considerations Martin M. Mortazavi & Christoph J. Griessenauer & Nimer Adeeb & Aman Deep & Reza Bavarsad Shahripour & Marios Loukas & Richard Isaiah Tubbs & R. Shane Tubbs Received: 30 September 2013 /Accepted: 11 November 2013 /Published online: 28 November 2013 # Springer-Verlag Berlin Heidelberg 2013 Abstract Keywords Choroid plexus . Anatomy . Neurosurgery . Introduction The role of the choroid plexus in cerebrospinal Hydrocephalus fluid production has been identified for more than a century. Over the years, more intensive studies of this structure has lead to a better understanding of the functions, including brain Introduction immunity, protection, absorption, and many others. Here, we review the macro- and microanatomical structure of the Around the walls of the ventricles, folds of pia mater form choroid plexus in addition to its function and embryology. vascularized layers named choroid plexus. This vasculature Method The literature was searched for articles and textbooks along with the overlying ependymal lining of the ventricles for data related to the history, anatomy, physiology, histology, forms the tela choroidea. Sometimes, however, the term embryology, potential functions, and surgical implications of choroid plexus is used to describe the entire structure [1]. The the choroid plexus. All were gathered and summarized narrow cleft, to which the choroids plexus is attached in the comprehensively. ventricles, is defined as the choroidal fissure. [2] The discovery Conclusion We summarize the literature regarding the choroid of the choroid plexus is attributed to Herophilus, who named it plexus and its surgical implications. -
The Role of the Pia Mater in Controlling Brain and Spinal Cord Intraparenchymal Pressure Daniel Harwell MD; Justin Louis Gibson; Richard D
The Role of the Pia Mater in Controlling Brain and Spinal Cord Intraparenchymal Pressure Daniel Harwell MD; Justin Louis Gibson; Richard D. Fessler MD; Jeffrey R. Holtz P.A.-C.; David B. Pettigrew MS PhD; Charles Kuntz, IV MD Department of Neurosurgery, University of Cincinnati and The Mayfield Clinic Introduction Conclusions Figure 2 Several multicenter randomized control trials have shown that decompression with The simulated edema model has durotomy/duroplasty significantly differential effects on brain and decreases intracranial pressure (ICP), spinal cord IPP. Brain IPP increased improving mortality. Currently, only slightly, consistent with the decompressive craniectomy combined with Figure 1 augmentative duraplasty is widely model that increased intracranial performed and is recommended by most pressure is primarily due to authors. However, there is a paucity of evidence regarding the effectiveness of constraints imposed by the cranium decompression of the spinal cord by and dura mater. In contrast, spinal Peak IPP, Final IPP after 5 days, Post- meningoplasty. cord IPP increased substantially. piotomy IPP. Key: left frontal (FL), right Piotomy immediately and frontal (FR), left parietal (PL), right parietal Methods (PR) lobes. Cervical (C) and thoracic (T) dramatically reduced spinal cord The supratentorial brain and spinal cord spinal cord. Bars: mean + standard were carefully removed from four fresh IPP. These data are consistent with deviation. * indicates statistical significance cadavers. The dura and arachnoid mater the hypothesis that intramedullary compared with FL, FR, PL, and PR peak investments were removed. ICP monitors IPP. were placed bilaterally in the frontal and pressure is primarily due to An example of one representative parietal lobes, as well as the cervical and constraints imposed by the pia preparation at baseline (A) and after (B) 5 Figure 3 thoracic spinal cord. -
Molecular Regulation of Forebrain Development and Neural Stem/Progenitor Cells
Molecular regulation of forebrain development and neural stem/progenitor cells Janne Hakanen Department of Veterinary Biosciences Faculty of Veterinary Medicine University of Helsinki and Developmental Biology Program Institute of Biotechnology and Integrative life science doctoral program (ILS) University of Helsinki Academic dissertation To be presented for public examination with the permission of the Faculty of Veterinary Medicine of the University of Helsinki in the Lecture Hall 7 (Latokartanonkaari 7- B-Building) on 24th of October, 2014, at 12 noon. Supervisor Marjo Salminen, Docent Department of Veterinary Biosciences University of Helsinki Pre-reviewers Juha Partanen, Professor Department of Biosciences University of Helsinki Claudio Rivera, PhD, Research director Neuroscience Center University of Helsinki Opponent Dan Lindholm, Professor Institute of Biomedicine and Minerva Foundation Institute for Medical Research University of Helsinki Custodian Jyrki Kukkonen, Professor Department of Veterinary Biosciences University of Helsinki ISBN 978-951-51-0135-8 (paperback) ISBN 978-951-51-0136-5 (pdf) ISSN 2342-3161 (print) ISSN 2342-317X (online) Table of contents List of original publications Abstract Abbreviations 1. Review of the literature....................................................................................................................1 1. 1 Development of mouse forebrain................................................................................................1 1.1.1 Forebrain germinal zones.......................................................................................................1