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2018

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Articles 9661 - 9690 of 15442

Full-Text Articles in Medicine and Health Sciences

Triple Pancreatic Walled-Off Fluid Collections Treated Simultaneously With Endoscopic Transmural Drainage., Sameen Khalid, Aamer Abbass, Eric Nellis Md, Shashin Shah Md, Hiral N. Shah Md Jan 2018

Triple Pancreatic Walled-Off Fluid Collections Treated Simultaneously With Endoscopic Transmural Drainage., Sameen Khalid, Aamer Abbass, Eric Nellis Md, Shashin Shah Md, Hiral N. Shah Md

Department of Medicine

Pancreatic pseudocysts and walled-off pancreatic necrosis arise as a complication of pancreatitis. Multiple fluid collections are seen in 5-20% of the patients who have walled-off peripancreatic fluid collections. There is a paucity of data regarding the role of endoscopic transmural drainage in the management of multiple pancreatic fluid collections. In this case report, we present the case of a 72-year-old male with three walled-off pancreatic fluid collections in the setting of acute necrotizing pancreatitis. The patient underwent simultaneous endoscopic ultrasound-assisted cyst gastrostomy and cyst duodenostomy and aggressive irrigation without index endoscopic necrosectomy of the three peripancreatic fluid collections. Significant improvement …


Achieving Pregnancy Using Primary Care Interventions To Identify The Fertile Window, Thomas Bouchard, Richard J. Fehring, Mary Schneider Jan 2018

Achieving Pregnancy Using Primary Care Interventions To Identify The Fertile Window, Thomas Bouchard, Richard J. Fehring, Mary Schneider

College of Nursing Faculty Research and Publications

Objective: To determine the effectiveness of achieving pregnancy with focused intercourse in the fertile window identified using natural fertility indicators. Methods: 24-cycle prospective effectiveness study. Setting: A North American web-based fertility monitoring service. Participants: 256 North American women aged 20–43 (mean age 29.2 years) seeking to achieve pregnancy. Intervention: Participants identified their fertile window with either electronic hormonal fertility monitoring or cervical mucus monitoring, or both, and recorded their observations on an online fertility tracking system. Main outcome measures: Pregnancies were validated by nurses with an online self-assessed pregnancy evaluation form. Survival analysis was used to determine pregnancy rates. Results: …


Genomic Analysis Of Demographic History And Ecological Niche Modeling In The Endangered Sumatran Rhinoceros Dicerorhinus Sumatrensis, Herman L. Mays Jr., Chih-Ming Hung, Pei-Jen Shaner, James Denvir, Megan Justice, Shang-Fang Yang, Terri L. Roth, David A. Oheler, Jun Fan, Swanthana Rekulapally, Donald A. Primerano Jan 2018

Genomic Analysis Of Demographic History And Ecological Niche Modeling In The Endangered Sumatran Rhinoceros Dicerorhinus Sumatrensis, Herman L. Mays Jr., Chih-Ming Hung, Pei-Jen Shaner, James Denvir, Megan Justice, Shang-Fang Yang, Terri L. Roth, David A. Oheler, Jun Fan, Swanthana Rekulapally, Donald A. Primerano

Clinical and Translational Science Institute

The vertebrate extinction rate over the past century is approximately 22 – 100 times greater than background extinction rates [1] and large mammals are particularly at risk [2, 3]. Quaternary megafaunal extinctions have been attributed to climate change [4], overexploitation [5] or a combination of the two [6]. Rhinoceroses (Family: Rhinocerotidae) have a rich fossil history replete with iconic examples of climate-induced extinctions [7], but current pressures threaten to eliminate this group entirely. The Sumatran Rhinoceros (Dicerorhinus sumatrensis) is among the most imperiled mammals on earth. The 2011 population was estimated at ≤ 216 wild individuals [8] and currently the …


Redesigning The Door To Doctor (D2d) Process In Emergency Department: The Key To A Successful Patient-Centered Story, Layal Hneiny, Maryah Damlaj Jan 2018

Redesigning The Door To Doctor (D2d) Process In Emergency Department: The Key To A Successful Patient-Centered Story, Layal Hneiny, Maryah Damlaj

Faculty Publications

Lean management, when adopted in health care settings, will influence clinicians to find better ways for providing health care services to patients. In ED’s everyday processes, lean focuses on improving the ED process flow through facilitating communication among ED staff and eliminating any unnecessary steps (wastes) along the process. An observational cross-sectional study has been conducted at the Emergency Department (ED) of the American University of Beirut- Medical Center (AUBMC), to assess the extent upon which AUBMC-ED is lean. The time it takes the patient to be examined by an attending doctor, from the moment s/he hits the ED door, …


Ada News - 01/08/2018, American Dental Association, Publishing Division Jan 2018

Ada News - 01/08/2018, American Dental Association, Publishing Division

ADA News

Established in 1970 as the official newspaper of the American Dental Association, the ADA News serves practicing dentists and others allied to the dental profession in the U.S. and internationally. It is the No. 1 source of news and information about the many benefits and services the ADA delivers to members daily as well as timely information on scientific, social, political and economic developments affecting dentistry and health care.


What's Happening: January 8, 2018, Maine Medical Center Jan 2018

What's Happening: January 8, 2018, Maine Medical Center

What's Happening

No abstract provided.


Genomic Analysis Of Demographic History And Ecological Niche Modeling In The Endangered Sumatran Rhinoceros Dicerorhinus Sumatrensis, Herman L. Mays, Chih-Ming Hung, Pei-Jen Shaner, James Denvir, Megan Justice, Shang-Fang Yang, Terri L. Roth, David A. Oehler, Jun Fan, Swanthana Rekulapally, Donald A. Primerano Jan 2018

Genomic Analysis Of Demographic History And Ecological Niche Modeling In The Endangered Sumatran Rhinoceros Dicerorhinus Sumatrensis, Herman L. Mays, Chih-Ming Hung, Pei-Jen Shaner, James Denvir, Megan Justice, Shang-Fang Yang, Terri L. Roth, David A. Oehler, Jun Fan, Swanthana Rekulapally, Donald A. Primerano

Biochemistry and Microbiology

The vertebrate extinction rate over the past century is approximately 22–100 times greater than background extinction rates [1], and large mammals are particularly at risk [2, 3]. Quaternary megafaunal extinctions have been attributed to climate change [4], overexploitation [5], or a combination of the two [6]. Rhinoceroses (Family: Rhinocerotidae) have a rich fossil history replete with iconic examples of climate-induced extinctions [7], but current pressures threaten to eliminate this group entirely. The Sumatran rhinoceros(Dicerorhinus sumatrensis) is among the most imperiled mammals on earth. The 2011 …


A Supramodal Role Of The Basal Ganglia In Memory And Motor Inhibition: Meta-Analytic Evidence, Yuhua Guo, Taylor W. Schmitz, Marieke Mur, Catarina S. Ferreira, Michael C. Anderson Jan 2018

A Supramodal Role Of The Basal Ganglia In Memory And Motor Inhibition: Meta-Analytic Evidence, Yuhua Guo, Taylor W. Schmitz, Marieke Mur, Catarina S. Ferreira, Michael C. Anderson

Brain and Mind Institute Researchers' Publications

© 2017 The Authors The ability to stop actions and thoughts is essential for goal-directed behaviour. Neuroimaging research has revealed that stopping actions and thoughts engage similar cortical mechanisms, including the ventro- and dorso-lateral prefrontal cortex. However, whether and how these abilities require similar subcortical mechanisms remains unexplored. Specifically of interest are the basal ganglia, subcortical structures long-known for their motor functions, but less so for their role in cognition. To investigate the potential common mechanisms in the basal ganglia underlying action and thought stopping, we conducted meta-analyses using fMRI data from the Go/No-Go, Stop-signal, and Think/No-Think tasks. All three …


Pattern And Determinants Of Contraceptive Usage Among Women Of Reproductive Age From The Digo Community Residing In Kwale, Kenya: Results From A Cross-Sectional Household Survey, Vernon Mochache, Amyn Lakhani, Hajara El-Busaidy, Marleen Temmerman, Peter Gichangi Jan 2018

Pattern And Determinants Of Contraceptive Usage Among Women Of Reproductive Age From The Digo Community Residing In Kwale, Kenya: Results From A Cross-Sectional Household Survey, Vernon Mochache, Amyn Lakhani, Hajara El-Busaidy, Marleen Temmerman, Peter Gichangi

Family Medicine, East Africa

Background: Contraceptive usage has been associated with improved maternal and child health (MCH) outcomes. Despite significant resources being allocated to programs, there has been sub-optimal uptake of contraception, especially in the developing world. It is important therefore, to granulate factors that determine uptake and utilization of contraceptive services so as to inform effective programming.

Methods: Between March and December 2015, we conducted a cross-sectional survey among women of reproductive age (WRA) from the Digo community residing in Kwale County, Kenya. The study aimed to describe the pattern and determinants of contraceptive usage in this population. Respondents were selected using stratified, …


Notice Of 02-06-2018 Hsc Committee Meeting, Patrice Martin Jan 2018

Notice Of 02-06-2018 Hsc Committee Meeting, Patrice Martin

HSC Committee (A subcommittee of the UNM Board of Regents)

No abstract provided.


Research News. Grants, 2018. Volume 2, University Of Mississippi. School Of Pharmacy, Soumyajit Majumdar Jan 2018

Research News. Grants, 2018. Volume 2, University Of Mississippi. School Of Pharmacy, Soumyajit Majumdar

Grants (2015-)

Grants and contracts awarded during July-December 2018


Medical School Watercooler Newsletter - January 7, 2018, Lindsey Lyle Jan 2018

Medical School Watercooler Newsletter - January 7, 2018, Lindsey Lyle

Watercooler Newsletter

This is the January 7, 2018 edition of the Frederick P. Whiddon College of Medicine's newsletter - Watercooler.

Contents Include:

  • USA Researchers Develop Experimental Model to Further Understand Antibiotic-Resistant Bacteria
  • Art Gallery on Display in Mast in Building
  • Pediatrics Hosting Grand Rounds Jan. 19


Long-Term Exposure Of Fine Particulate Matter Causes Hypertension By Impaired Renal D1 Receptor-Mediated Sodium Excretion Via Upregulation Of G-Protein-Coupled Receptor Kinase Type 4 Expression In Sprague-Dawley Rats., Xi Lu, Zhengmeng Ye, Shuo Zheng, Hongmei Ren, Jing Zeng, Xinquan Wang, Pedro A Jose, Ken Chen, Chunyu Zeng Jan 2018

Long-Term Exposure Of Fine Particulate Matter Causes Hypertension By Impaired Renal D1 Receptor-Mediated Sodium Excretion Via Upregulation Of G-Protein-Coupled Receptor Kinase Type 4 Expression In Sprague-Dawley Rats., Xi Lu, Zhengmeng Ye, Shuo Zheng, Hongmei Ren, Jing Zeng, Xinquan Wang, Pedro A Jose, Ken Chen, Chunyu Zeng

Medicine Faculty Publications

BACKGROUND: Epidemiological evidence supports an important association between air pollution exposure and hypertension. However, the mechanisms are not clear.

METHODS AND RESULTS: Our present study found that long-term exposure to fine particulate matter (PM2.5) causes hypertension and impairs renal sodium excretion, which might be ascribed to lower D1 receptor expression and higher D1 receptor phosphorylation, accompanied with a higher G-protein-coupled receptor kinase type 4 (GRK4) expression. The in vivo results were confirmed in in vitro studies (ie, PM2.5 increased basal and decreased D1 receptor mediated inhibitory effect on Na+-K+ ATPase activity, decreased D1 receptor expression, and increased D1 receptor phosphorylation …


Approach To Unresponsive Patient With Lvad, Maya Guglin Jan 2018

Approach To Unresponsive Patient With Lvad, Maya Guglin

The VAD Journal

No abstract provided.


A Comprehensive Review Of Medical Imaging Equipment Used In Cadaveric Studies., Emily Simonds, Charlotte Wilson, Joe Iwanaga, Tyler Laws, Gary Holley, Rod J Oskouian, R Shane Tubbs Jan 2018

A Comprehensive Review Of Medical Imaging Equipment Used In Cadaveric Studies., Emily Simonds, Charlotte Wilson, Joe Iwanaga, Tyler Laws, Gary Holley, Rod J Oskouian, R Shane Tubbs

Articles, Abstracts, and Reports

Medical imaging techniques have led to great advances in clinical anatomy and forensic pathology. New and emerging technologies allow healthcare professionals to view and understand the human body from different perspectives. This gives way to new and improved interventions, treatment plans, and an overall understanding of the human body. Herein, we present a comprehensive review of the various medical imaging equipment used in cadaveric studies along with their individual strengths and limitations.


Fluid Balance Concepts In Medicine: Principles And Practice., Maria-Eleni Roumelioti, Robert H Glew, Zeid J Khitan, Helbert Rondon-Berrios, Christos P Argyropoulos, Deepak Malhotra, Dominic S Raj, Emmanuel I Agaba, Mark Rohrscheib, Glen H Murata, Joseph I Shapiro, Antonios H Tzamaloukas Jan 2018

Fluid Balance Concepts In Medicine: Principles And Practice., Maria-Eleni Roumelioti, Robert H Glew, Zeid J Khitan, Helbert Rondon-Berrios, Christos P Argyropoulos, Deepak Malhotra, Dominic S Raj, Emmanuel I Agaba, Mark Rohrscheib, Glen H Murata, Joseph I Shapiro, Antonios H Tzamaloukas

Medicine Faculty Publications

The regulation of body fluid balance is a key concern in health and disease and comprises three concepts. The first concept pertains to the relationship between total body water (TBW) and total effective solute and is expressed in terms of the tonicity of the body fluids. Disturbances in tonicity are the main factor responsible for changes in cell volume, which can critically affect brain cell function and survival. Solutes distributed almost exclusively in the extracellular compartment (mainly sodium salts) and in the intracellular compartment (mainly potassium salts) contribute to tonicity, while solutes distributed in TBW have no effect on tonicity. …


Effects Of Ambient Particulate Matter On Aerobic Exercise Performance, Dale R. Wagner, Nicholas W. Clark Jan 2018

Effects Of Ambient Particulate Matter On Aerobic Exercise Performance, Dale R. Wagner, Nicholas W. Clark

Kinesiology and Health Science Faculty Publications

Background/Objective: Wintertime thermal inversions in narrow mountain valleys create a ceiling effect, increasing concentration of small particulate matter (PM2.5). Despite potential health risks, many people continue to exercise outdoors in thermal inversions. This study measured the effects of ambient PM2.5 exposure associated with a typical thermal inversion on exercise performance, pulmonary function, and biological markers of inflammation.

Methods: Healthy, active adults (5 males, 11 females) performed two cycle ergometer time trials outdoors in a counterbalanced design: 1) low ambient PM2.5 concentrations (/m3 ), and 2) an air quality index (AQI) ranking of “yellow.” Variables …


Fgf23 And Left Ventricular Hypertrophy In Children With Ckd., Mark M. Mitsnefes, Aisha Betoko, Michael F. Schneider, Isidro B. Salusky, Myles Selig Wolf, Harald Jüppner, Bradley A. Warady, Susan L. Furth, Anthony A. Portale Jan 2018

Fgf23 And Left Ventricular Hypertrophy In Children With Ckd., Mark M. Mitsnefes, Aisha Betoko, Michael F. Schneider, Isidro B. Salusky, Myles Selig Wolf, Harald Jüppner, Bradley A. Warady, Susan L. Furth, Anthony A. Portale

Manuscripts, Articles, Book Chapters and Other Papers

Background and objectives: High plasma concentration of fibroblast growth factor 23 (FGF23) is a risk factor for left ventricular hypertrophy (LVH) in adults with CKD, and induces myocardial hypertrophy in experimental CKD. We hypothesized that high FGF23 levels associate with a higher prevalence of LVH in children with CKD.

Design, setting, participants, & measurements: We performed echocardiograms and measured plasma C-terminal FGF23 concentrations in 587 children with mild-to-moderate CKD enrolled in the Chronic Kidney Disease in Children (CKiD) study. We used linear and logistic regression to analyze the association of plasma FGF23 with left ventricular mass index (LVMI) and LVH …


Intersex And The Pardoner’S Body, Kim Zarins Jan 2018

Intersex And The Pardoner’S Body, Kim Zarins

Accessus

Most scholars today have retreated from reading into the Pardoner's body in favor of more figurative readings that emphasize his lack of masculinity, and such lack is then linked to his dejection and despair. Other, more affirming readings center the Pardoner's performance, which allows him to model any sort of body desired through figuration. While such positions dominate and older theories like Beryl Rowland's proposal of an intersex Pardoner are dismissed, in fact, an intersex reading might be a more life-affirming interpretation, not only in terms of reframing the Pardoner's body as manifesting variation as opposed to lack, but also …


Physical Therapy Considerations For Chronic Kidney Disease And Secondary Sarcopenia, Michael O. Harris-Love, Haniel J. Hernandez, Gideon Obamwonyi Jan 2018

Physical Therapy Considerations For Chronic Kidney Disease And Secondary Sarcopenia, Michael O. Harris-Love, Haniel J. Hernandez, Gideon Obamwonyi

Exercise and Nutrition Sciences Faculty Publications

Chronic kidney disease (CKD) is a progressive condition that may negatively affect musculoskeletal health. These comorbidities may include malnutrition, osteoporosis, and decreased lean body mass. Secondary sarcopenia due to CKD may be associated with mobility limitations and elevated fall risk. Physical therapists are well-positioned among the health care team to screen for secondary sarcopenia in those with CKD and for the treatment of musculoskeletal comorbid conditions that may affect functional performance. Given the consequences of both low muscle mass and low bone mineral density, appropriate and timely physical therapy is important for fall risk assessment and intervention to minimize the …


Disordered: Conversations About Mental Health And Society, Rachel Brown Jan 2018

Disordered: Conversations About Mental Health And Society, Rachel Brown

Theses and Dissertations

Disordered is a collaborative, participatory street art project designed to destigmatize mental health challenges like depression and anxiety, and reframe health as a societal issue. Through social practice and guerrilla strategies, Disordered intervenes in public spaces, creating conversations, stickers and metal signs to inspire personal, social and political transformations.


Pituitary Stalk Interruption Syndrome Presenting In A Euthyroid Adult With Short Stature, Atif Nawaz, Muhammad Azeemuddin, Jehanzeb Shahid Jan 2018

Pituitary Stalk Interruption Syndrome Presenting In A Euthyroid Adult With Short Stature, Atif Nawaz, Muhammad Azeemuddin, Jehanzeb Shahid

Department of Radiology

Pituitary stalk interruption syndrome (PSIS) is a distinct and rare clinical entity responsible for congenital hypopituitarism resulting in deficiency of pituitary hormones with deficiency of the growth hormone (100%) and gonadotropins (97.2%) being its most common presentation at the time of hospital encounter (Wang et al., 2015). Isolated sparing of thyroid-stimulating hormone (TSH) with deficiency of the remaining anterior pituitary hormones may be present in PSIS, as is true in our case. Therefore, it should be kept in mind at the time of examination in suspected cases of PSIS.


The Application Of An Implementation Science Framework To Comprehensive School Physical Activity Programs: Be A Champion!, Justin B. Moore, Russell L. Carson, Collin A. Webster, Camelia R. Singletary, Darla M. Castelli, Russell R. Pate, Michael W. Beets, Aaron Beighle Jan 2018

The Application Of An Implementation Science Framework To Comprehensive School Physical Activity Programs: Be A Champion!, Justin B. Moore, Russell L. Carson, Collin A. Webster, Camelia R. Singletary, Darla M. Castelli, Russell R. Pate, Michael W. Beets, Aaron Beighle

Kinesiology and Health Promotion Faculty Publications

Comprehensive school physical activity programs (CSPAPs) have been endorsed as a promising strategy to increase youth physical activity (PA) in school settings. A CSPAP is a five-component approach, which includes opportunities before, during, and after school for PA. Extensive resources are available to public health practitioners and school officials regarding what should be implemented, but little guidance and few resources are available regarding how to effectively implement a CSPAP. Implementation science provides a number of conceptual frameworks that can guide implementation of a CSPAP, but few published studies have employed an implementation science framework to a CSPAP. Therefore, we developed …


The Uae Healthy Future Study: A Pilot For A Prospective Cohort Study Of 20,000 United Arab Emirates Nationals, Abdishakur Abdulle, Abdullah Alnaeemi, Abdullah Aljunaibi, Abdulrahman Al Ali, Khaled Al Saedi, Eiman Al Zaabi, Naima Oumeziane, Marina Al Bastaki, Mohammed Al-Houqani, Fatma Al Maskari, Ayesha Al Dhaheri, Syed M. Shah, Tom Loney, Mohamed El-Sadig, Abderrahim Oulhaj, Leila Abdel Wareth, Wael Al Mahmeed, Habiba Alsafar, Benjamin Hirsch, Fatme Al Anouti, Jamila Yaaqoub, Claire K. Inman, Aisha Al Hamiz, Ayesha Al Hosani, Muna Haji, Teeb Alsharid, Thekra Al Zaabi, Fatima Al Maisary, Divya Galani, Tim Sprosen Jan 2018

The Uae Healthy Future Study: A Pilot For A Prospective Cohort Study Of 20,000 United Arab Emirates Nationals, Abdishakur Abdulle, Abdullah Alnaeemi, Abdullah Aljunaibi, Abdulrahman Al Ali, Khaled Al Saedi, Eiman Al Zaabi, Naima Oumeziane, Marina Al Bastaki, Mohammed Al-Houqani, Fatma Al Maskari, Ayesha Al Dhaheri, Syed M. Shah, Tom Loney, Mohamed El-Sadig, Abderrahim Oulhaj, Leila Abdel Wareth, Wael Al Mahmeed, Habiba Alsafar, Benjamin Hirsch, Fatme Al Anouti, Jamila Yaaqoub, Claire K. Inman, Aisha Al Hamiz, Ayesha Al Hosani, Muna Haji, Teeb Alsharid, Thekra Al Zaabi, Fatima Al Maisary, Divya Galani, Tim Sprosen

All Works

BACKGROUND: The United Arab Emirates (UAE) is faced with a rapidly increasing burden of non-communicable diseases including obesity, diabetes, and cardiovascular disease. The UAE Healthy Future study is a prospective cohort designed to identify associations between risk factors and these diseases amongst Emiratis. The study will enroll 20,000 UAE nationals aged ≥18 years. Environmental and genetic risk factors will be characterized and participants will be followed for future disease events. As this was the first time a prospective cohort study was being planned in the UAE, a pilot study was conducted in 2015 with the primary aim of establishing the …


Analgesic Effect Of Bilateral Subcostal Tap Block After Laparoscopic Cholecystectomy, Karima Karam Khan, Robyna Irshad Khan Jan 2018

Analgesic Effect Of Bilateral Subcostal Tap Block After Laparoscopic Cholecystectomy, Karima Karam Khan, Robyna Irshad Khan

Department of Anaesthesia

Background: Pain after laparoscopic cholecystectomy is mild to moderate in intensity. Several modalities are employed for achieving safe and effective postoperative analgesia, the benefits of which adds to the early recovery of the patients. As a part of multimodal analgesia, various approaches of Transversus abdominis plane (TAP) block has been used for management of parietal and incisional components of pain after laparoscopic cholecystectomy. This study was designed to compare the analgesic efficacy of two different approaches of ultrasound guided TAP block, i.e., Subcostal-TAP block technique with ultrasound guided Posterior-TAP block for postoperative pain management in patients undergoing laparoscopic cholecystectomy under …


An Exploration Of The Perceived Usefulness Of The Introductory Statistics Course And Students’ Intentions To Further Engage In Statistics, Rossi A. Hassad Jan 2018

An Exploration Of The Perceived Usefulness Of The Introductory Statistics Course And Students’ Intentions To Further Engage In Statistics, Rossi A. Hassad

Numeracy

Students’ attitude, including perceived usefulness, is generally associated with academic success. The related research in statistics education has focused almost exclusively on the role of attitude in explaining and predicting academic learning outcomes, hence there is a paucity of research evidence on how attitude (particularly perceived usefulness) impacts students’ intentions to use and stay engaged in statistics beyond the introductory course. This study explored the relationship between college students’ perception of the usefulness of an introductory statistics course, their beliefs about where statistics will be most useful, and their intentions to take another statistics course. A cross-sectional study of 106 …


Mouse Phenome Database: An Integrative Database And Analysis Suite For Curated Empirical Phenotype Data From Laboratory Mice., Molly A. Bogue, Stephen C. Grubb, David O Walton, Vivek M. Philip, Georgi Kolishovski, Timothy M Stearns, Matthew H Dunn, Daniel A Skelly, Beena Kadakkuzha, Gregg Tehennepe, Govindarajan Kunde-Ramamoorthy, Elissa J Chesler Jan 2018

Mouse Phenome Database: An Integrative Database And Analysis Suite For Curated Empirical Phenotype Data From Laboratory Mice., Molly A. Bogue, Stephen C. Grubb, David O Walton, Vivek M. Philip, Georgi Kolishovski, Timothy M Stearns, Matthew H Dunn, Daniel A Skelly, Beena Kadakkuzha, Gregg Tehennepe, Govindarajan Kunde-Ramamoorthy, Elissa J Chesler

Faculty Research 2018

The Mouse Phenome Database (MPD; https://phenome.jax.org) is a widely used resource that provides access to primary experimental trait data, genotypic variation, protocols and analysis tools for mouse genetic studies. Data are contributed by investigators worldwide and represent a broad scope of phenotyping endpoints and disease-related traits in naïve mice and those exposed to drugs, environmental agents or other treatments. MPD houses individual animal data with detailed, searchable protocols, and makes these data available to other resources via API. MPD provides rigorous curation of experimental data and supporting documentation using relevant ontologies and controlled vocabularies. Most data in MPD are from …


Consensus Coding Sequence (Ccds) Database: A Standardized Set Of Human And Mouse Protein-Coding Regions Supported By Expert Curation., Shashikant Pujar, Nuala A O'Leary, Catherine M Farrell, Jane E Loveland, Jonathan M Mudge, Craig Wallin, Carlos G Girón, Mark Diekhans, If Barnes, Ruth Bennett, Andrew E Berry, Eric Cox, Claire Davidson, Tamara Goldfarb, Jose M Gonzalez, Toby Hunt, John Jackson, Vinita Joardar, Mike P Kay, Vamsi K Kodali, Fergal J Martin, Monica Mcandrews, Kelly M Mcgarvey, Michael Murphy, Bhanu Rajput, Sanjida H Rangwala, Lillian D Riddick, Ruth L Seal, Marie-Marthe Suner, David Webb, Sophia Zhu, Bronwen L Aken, Elspeth A Bruford, Carol J Bult, Adam Frankish, Terence Murphy, Kim D Pruitt Jan 2018

Consensus Coding Sequence (Ccds) Database: A Standardized Set Of Human And Mouse Protein-Coding Regions Supported By Expert Curation., Shashikant Pujar, Nuala A O'Leary, Catherine M Farrell, Jane E Loveland, Jonathan M Mudge, Craig Wallin, Carlos G Girón, Mark Diekhans, If Barnes, Ruth Bennett, Andrew E Berry, Eric Cox, Claire Davidson, Tamara Goldfarb, Jose M Gonzalez, Toby Hunt, John Jackson, Vinita Joardar, Mike P Kay, Vamsi K Kodali, Fergal J Martin, Monica Mcandrews, Kelly M Mcgarvey, Michael Murphy, Bhanu Rajput, Sanjida H Rangwala, Lillian D Riddick, Ruth L Seal, Marie-Marthe Suner, David Webb, Sophia Zhu, Bronwen L Aken, Elspeth A Bruford, Carol J Bult, Adam Frankish, Terence Murphy, Kim D Pruitt

Faculty Research 2018

The Consensus Coding Sequence (CCDS) project provides a dataset of protein-coding regions that are identically annotated on the human and mouse reference genome assembly in genome annotations produced independently by NCBI and the Ensembl group at EMBL-EBI. This dataset is the product of an international collaboration that includes NCBI, Ensembl, HUGO Gene Nomenclature Committee, Mouse Genome Informatics and University of California, Santa Cruz. Identically annotated coding regions, which are generated using an automated pipeline and pass multiple quality assurance checks, are assigned a stable and tracked identifier (CCDS ID). Additionally, coordinated manual review by expert curators from the CCDS collaboration …


Tumorfusions: An Integrative Resource For Cancer-Associated Transcript Fusions., Xin Hu, Qianghu Wang, Ming Tang, Floris P Barthel, Samirkumar B Amin, Kosuke Yoshihara, Frederick M Lang, Emmanuel Martinez-Ledesma, Soo Hyun Lee, Siyuan Zheng, Roel G W Verhaak Jan 2018

Tumorfusions: An Integrative Resource For Cancer-Associated Transcript Fusions., Xin Hu, Qianghu Wang, Ming Tang, Floris P Barthel, Samirkumar B Amin, Kosuke Yoshihara, Frederick M Lang, Emmanuel Martinez-Ledesma, Soo Hyun Lee, Siyuan Zheng, Roel G W Verhaak

Faculty Research 2018

Gene fusion represents a class of molecular aberrations in cancer and has been exploited for therapeutic purposes. In this paper we describe TumorFusions, a data portal that catalogues 20 731 gene fusions detected in 9966 well characterized cancer samples and 648 normal specimens from The Cancer Genome Atlas (TCGA). The portal spans 33 cancer types in TCGA. Fusion transcripts were identified via a uniform pipeline, including filtering against a list of 3838 transcript fusions detected in a panel of 648 non-neoplastic samples. Fusions were mapped to somatic DNA rearrangements identified using whole genome sequencing data from 561 cancer samples as …


Component Tree Analysis Of Cystovirus Φ6 Nucleocapsid Cryo-Em Single Particle Reconstructions, Lucas Oliveira, Ze Ye, Al Katz, Alexandra Alimova, Hui Wei, Gabor T. Herman, Paul Gottlieb Jan 2018

Component Tree Analysis Of Cystovirus Φ6 Nucleocapsid Cryo-Em Single Particle Reconstructions, Lucas Oliveira, Ze Ye, Al Katz, Alexandra Alimova, Hui Wei, Gabor T. Herman, Paul Gottlieb

Publications and Research

The 3-dimensional structure of the nucleocapsid (NC) of bacteriophage φ6 is described utilizing component tree analysis, a topological and geometric image descriptor. The component trees are derived from density maps of cryo-electron microscopy single particle reconstructions. Analysis determines position and occupancy of structure elements responsible for RNA packaging and transcription. Occupancy of the hexameric nucleotide triphosphorylase (P4) and RNA polymerase (P2) are found to be essentially complete in the NC. The P8 protein lattice likely fixes P4 and P2 in place during maturation. We propose that the viral procapsid (PC) is a dynamic structural intermediate where the P4 and P2 …