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https://www.readbyqxmd.com/read/27835623/gonorrhea-control-united-states-1972-2015-a-narrative-review
#1
Thomas A Peterman, Kevin O'Connor, Heather M Bradley, Elizabeth A Torrone, Kyle T Bernstein
Gonorrhea is the second most commonly reported infection. It can lead to pelvic inflammatory disease, ectopic pregnancy, and infertility. Rates of gonorrhea decreased after the National Gonorrhea Control Program began in 1972, but stabilized in the mid 1990s. The emergence of antimicrobial resistant strains increases the urgency for enhanced gonorrhea control efforts. To identify possible approaches for improving gonorrhea control, we reviewed historic protocols, reports, and other documents related to the activities of the National Gonorrhea Control Program using Centers for Disease Control and Prevention records and the published literature...
December 2016: Sexually Transmitted Diseases
https://www.readbyqxmd.com/read/27806376/single-cell-rna-seq-supports-a-developmental-hierarchy-in-human-oligodendroglioma
#2
Itay Tirosh, Andrew S Venteicher, Christine Hebert, Leah E Escalante, Anoop P Patel, Keren Yizhak, Jonathan M Fisher, Christopher Rodman, Christopher Mount, Mariella G Filbin, Cyril Neftel, Niyati Desai, Jackson Nyman, Benjamin Izar, Christina C Luo, Joshua M Francis, Aanand A Patel, Maristela L Onozato, Nicolo Riggi, Kenneth J Livak, Dave Gennert, Rahul Satija, Brian V Nahed, William T Curry, Robert L Martuza, Ravindra Mylvaganam, A John Iafrate, Matthew P Frosch, Todd R Golub, Miguel N Rivera, Gad Getz, Orit Rozenblatt-Rosen, Daniel P Cahill, Michelle Monje, Bradley E Bernstein, David N Louis, Aviv Regev, Mario L Suvà
Although human tumours are shaped by the genetic evolution of cancer cells, evidence also suggests that they display hierarchies related to developmental pathways and epigenetic programs in which cancer stem cells (CSCs) can drive tumour growth and give rise to differentiated progeny. Yet, unbiased evidence for CSCs in solid human malignancies remains elusive. Here we profile 4,347 single cells from six IDH1 or IDH2 mutant human oligodendrogliomas by RNA sequencing (RNA-seq) and reconstruct their developmental programs from genome-wide expression signatures...
November 2, 2016: Nature
https://www.readbyqxmd.com/read/27565640/the-treatment-of-chronic-coccydynia-and-postcoccygectomy-pain-with-pelvic-floor-physical-therapy
#3
Kelly M Scott, Lauren W Fisher, Ira H Bernstein, Michelle H Bradley
BACKGROUND: Coccydynia is a challenging disorder that often is refractory to treatments such as medications and injections. Physical therapy for coccydynia rarely has been studied. OBJECTIVE: To evaluate the efficacy of pelvic floor physical therapy for reducing pain levels in patients with coccydynia. DESIGN: Retrospective chart review. SETTING: The pelvic floor rehabilitation clinic of a major university hospital. PATIENTS: A total of 124 consecutive patients over age 18 with a chief complaint of coccydynia between 2009 and 2012...
August 24, 2016: PM & R: the Journal of Injury, Function, and Rehabilitation
https://www.readbyqxmd.com/read/27422298/appropriateness-criteria-for-active-surveillance-of-prostate-cancer
#4
Michael L Cher, Apoorv Dhir, Gregory B Auffenberg, Susan Linsell, Yuqing Gao, Bradley Rosenberg, S Mohammad Jafri, Laurence Klotz, David C Miller, Khurshid R Ghani, Steven J Bernstein, James E Montie, Brian R Lane
PURPOSE: The adoption of active surveillance varies widely across urological communities, which suggests a need for more consistency in the counseling of patients. To address this need we used the RAND/UCLA Appropriateness Method to develop appropriateness criteria and counseling statements for active surveillance. MATERIALS AND METHODS: Panelists were recruited from MUSIC urology practices. Combinations of parameters thought to influence decision making were used to create and score 160 theoretical clinical scenarios for appropriateness of active surveillance...
July 14, 2016: Journal of Urology
https://www.readbyqxmd.com/read/27399421/142%C3%A2-genetic-and-nongenetic-determinants-of-cellular-architecture-in-idh1-mutant-oligodendrogliomas-and-astrocytomas-using-single-cell-transcriptome-analysis
#5
Andrew Sean Venteicher, Itay Tirosh, Christine Hebert, Leah Escalante, Robert L Martuza, Brian V Nahed, William T Curry, Daniel P Cahill, Bradley Bernstein, David N Louis, Aviv Regev, Mario Suva
INTRODUCTION: Gliomas are among the most lethal malignancies and their histogenesis in humans remains unresolved. IDH1 mutational status and co-occurring genetic alterations define major clinical and prognostic classes of gliomas that closely mirror their histologic classification into astrocytic or oligodendroglial tumors. This suggests that distinct progenitor cells give rise to different glioma types, or conversely, that genetic mutations influence cellular lineages, generating tumors of different cellular composition...
August 2016: Neurosurgery
https://www.readbyqxmd.com/read/27322055/rbpj-maintains-brain-tumor-initiating-cells-through-cdk9-mediated-transcriptional-elongation
#6
Qi Xie, Qiulian Wu, Leo Kim, Tyler E Miller, Brian B Liau, Stephen C Mack, Kailin Yang, Daniel C Factor, Xiaoguang Fang, Zhi Huang, Wenchao Zhou, Kareem Alazem, Xiuxing Wang, Bradley E Bernstein, Shideng Bao, Jeremy N Rich
Glioblastomas co-opt stem cell regulatory pathways to maintain brain tumor-initiating cells (BTICs), also known as cancer stem cells. NOTCH signaling has been a molecular target in BTICs, but NOTCH antagonists have demonstrated limited efficacy in clinical trials. Recombining binding protein suppressor of hairless (RBPJ) is considered a central transcriptional mediator of NOTCH activity. Here, we report that pharmacologic NOTCH inhibitors were less effective than targeting RBPJ in suppressing tumor growth. While NOTCH inhibitors decreased canonical NOTCH gene expression, RBPJ regulated a distinct profile of genes critical to BTIC stemness and cell cycle progression...
July 1, 2016: Journal of Clinical Investigation
https://www.readbyqxmd.com/read/27152786/results-on-the-spin-dependent-scattering-of-weakly-interacting-massive-particles-on-nucleons-from-the-run-3-data-of-the-lux-experiment
#7
D S Akerib, H M Araújo, X Bai, A J Bailey, J Balajthy, P Beltrame, E P Bernard, A Bernstein, T P Biesiadzinski, E M Boulton, A Bradley, R Bramante, S B Cahn, M C Carmona-Benitez, C Chan, J J Chapman, A A Chiller, C Chiller, A Currie, J E Cutter, T J R Davison, L de Viveiros, A Dobi, J E Y Dobson, E Druszkiewicz, B N Edwards, C H Faham, S Fiorucci, R J Gaitskell, V M Gehman, C Ghag, K R Gibson, M G D Gilchriese, C R Hall, M Hanhardt, S J Haselschwardt, S A Hertel, D P Hogan, M Horn, D Q Huang, C M Ignarra, M Ihm, R G Jacobsen, W Ji, K Kazkaz, D Khaitan, R Knoche, N A Larsen, C Lee, B G Lenardo, K T Lesko, A Lindote, M I Lopes, D C Malling, A Manalaysay, R L Mannino, M F Marzioni, D N McKinsey, D-M Mei, J Mock, M Moongweluwan, J A Morad, A St J Murphy, C Nehrkorn, H N Nelson, F Neves, K O'Sullivan, K C Oliver-Mallory, R A Ott, K J Palladino, M Pangilinan, E K Pease, P Phelps, L Reichhart, C Rhyne, S Shaw, T A Shutt, C Silva, V N Solovov, P Sorensen, S Stephenson, T J Sumner, M Szydagis, D J Taylor, W Taylor, B P Tennyson, P A Terman, D R Tiedt, W H To, M Tripathi, L Tvrznikova, S Uvarov, J R Verbus, R C Webb, J T White, T J Whitis, M S Witherell, F L H Wolfs, K Yazdani, S K Young, C Zhang
We present experimental constraints on the spin-dependent WIMP (weakly interacting massive particle)-nucleon elastic cross sections from LUX data acquired in 2013. LUX is a dual-phase xenon time projection chamber operating at the Sanford Underground Research Facility (Lead, South Dakota), which is designed to observe the recoil signature of galactic WIMPs scattering from xenon nuclei. A profile likelihood ratio analysis of 1.4×10^{4}  kg day of fiducial exposure allows 90% C.L. upper limits to be set on the WIMP-neutron (WIMP-proton) cross section of σ_{n}=9...
April 22, 2016: Physical Review Letters
https://www.readbyqxmd.com/read/27152785/improved-limits-on-scattering-of-weakly-interacting-massive-particles-from-reanalysis-of-2013-lux-data
#8
D S Akerib, H M Araújo, X Bai, A J Bailey, J Balajthy, P Beltrame, E P Bernard, A Bernstein, T P Biesiadzinski, E M Boulton, A Bradley, R Bramante, S B Cahn, M C Carmona-Benitez, C Chan, J J Chapman, A A Chiller, C Chiller, A Currie, J E Cutter, T J R Davison, L de Viveiros, A Dobi, J E Y Dobson, E Druszkiewicz, B N Edwards, C H Faham, S Fiorucci, R J Gaitskell, V M Gehman, C Ghag, K R Gibson, M G D Gilchriese, C R Hall, M Hanhardt, S J Haselschwardt, S A Hertel, D P Hogan, M Horn, D Q Huang, C M Ignarra, M Ihm, R G Jacobsen, W Ji, K Kazkaz, D Khaitan, R Knoche, N A Larsen, C Lee, B G Lenardo, K T Lesko, A Lindote, M I Lopes, D C Malling, A Manalaysay, R L Mannino, M F Marzioni, D N McKinsey, D-M Mei, J Mock, M Moongweluwan, J A Morad, A St J Murphy, C Nehrkorn, H N Nelson, F Neves, K O'Sullivan, K C Oliver-Mallory, R A Ott, K J Palladino, M Pangilinan, E K Pease, P Phelps, L Reichhart, C Rhyne, S Shaw, T A Shutt, C Silva, V N Solovov, P Sorensen, S Stephenson, T J Sumner, M Szydagis, D J Taylor, W Taylor, B P Tennyson, P A Terman, D R Tiedt, W H To, M Tripathi, L Tvrznikova, S Uvarov, J R Verbus, R C Webb, J T White, T J Whitis, M S Witherell, F L H Wolfs, K Yazdani, S K Young, C Zhang
We present constraints on weakly interacting massive particles (WIMP)-nucleus scattering from the 2013 data of the Large Underground Xenon dark matter experiment, including 1.4×10^{4}  kg day of search exposure. This new analysis incorporates several advances: single-photon calibration at the scintillation wavelength, improved event-reconstruction algorithms, a revised background model including events originating on the detector walls in an enlarged fiducial volume, and new calibrations from decays of an injected tritium β source and from kinematically constrained nuclear recoils down to 1...
April 22, 2016: Physical Review Letters
https://www.readbyqxmd.com/read/27151869/single-molecule-decoding-of-combinatorially-modified-nucleosomes
#9
Efrat Shema, Daniel Jones, Noam Shoresh, Laura Donohue, Oren Ram, Bradley E Bernstein
Different combinations of histone modifications have been proposed to signal distinct gene regulatory functions, but this area is poorly addressed by existing technologies. We applied high-throughput single-molecule imaging to decode combinatorial modifications on millions of individual nucleosomes from pluripotent stem cells and lineage-committed cells. We identified definitively bivalent nucleosomes with concomitant repressive and activating marks, as well as other combinatorial modification states whose prevalence varies with developmental potency...
May 6, 2016: Science
https://www.readbyqxmd.com/read/27068059/clinical-course-of-six-children-with-gnao1-mutations-causing-a%C3%A2-severe-and-distinctive-movement-disorder
#10
Amitha L Ananth, Amy Robichaux-Viehoever, Young-Min Kim, Andrea Hanson-Kahn, Rachel Cox, Gregory M Enns, Jonathan Strober, Marcia Willing, Bradley L Schlaggar, Yvonne W Wu, Jonathan A Bernstein
OBJECTIVES: Mutations in GNAO1 have been described in 11 patients to date. Although most of these individuals had epileptic encephalopathy, four patients had a severe movement disorder as the prominent feature. We describe the largest series of patients with de novoGNAO1 mutations who have severe chorea, developmental delay, and hypotonia in the absence of epilepsy. METHODS: Six patients with recurrent missense mutations in GNAO1 as detected by whole exome sequencing were identified at three institutions...
June 2016: Pediatric Neurology
https://www.readbyqxmd.com/read/26963248/in-vitro-and-in-vivo-characterization-of-the-alkaloid-nuciferine
#11
Martilias S Farrell, John D McCorvy, Xi-Ping Huang, Daniel J Urban, Kate L White, Patrick M Giguere, Allison K Doak, Alison I Bernstein, Kristen A Stout, Su Mi Park, Ramona M Rodriguiz, Bradley W Gray, William S Hyatt, Andrew P Norwood, Kevin A Webster, Brenda M Gannon, Gary W Miller, Joseph H Porter, Brian K Shoichet, William E Fantegrossi, William C Wetsel, Bryan L Roth
RATIONALE: The sacred lotus (Nelumbo nucifera) contains many phytochemicals and has a history of human use. To determine which compounds may be responsible for reported psychotropic effects, we used in silico predictions of the identified phytochemicals. Nuciferine, an alkaloid component of Nelumbo nucifera and Nymphaea caerulea, had a predicted molecular profile similar to antipsychotic compounds. Our study characterizes nuciferine using in vitro and in vivo pharmacological assays. METHODS: Nuciferine was first characterized in silico using the similarity ensemble approach, and was followed by further characterization and validation using the Psychoactive Drug Screening Program of the National Institute of Mental Health...
2016: PloS One
https://www.readbyqxmd.com/read/26883116/widespread-rna-binding-by-chromatin-associated-proteins
#12
David G Hendrickson, David R Kelley, Danielle Tenen, Bradley Bernstein, John L Rinn
BACKGROUND: Recent evidence suggests that RNA interaction can regulate the activity and localization of chromatin-associated proteins. However, it is unknown if these observations are specialized instances for a few key RNAs and chromatin factors in specific contexts, or a general mechanism underlying the establishment of chromatin state and regulation of gene expression. RESULTS: Here, we perform formaldehyde RNA immunoprecipitation (fRIP-Seq) to survey the RNA associated with a panel of 24 chromatin regulators and traditional RNA binding proteins...
2016: Genome Biology
https://www.readbyqxmd.com/read/26829750/an-oncogenic-myb-feedback-loop-drives-alternate-cell-fates-in-adenoid-cystic-carcinoma
#13
Yotam Drier, Matthew J Cotton, Kaylyn E Williamson, Shawn M Gillespie, Russell J H Ryan, Michael J Kluk, Christopher D Carey, Scott J Rodig, Lynette M Sholl, Amir H Afrogheh, William C Faquin, Lurdes Queimado, Jun Qi, Michael J Wick, Adel K El-Naggar, James E Bradner, Christopher A Moskaluk, Jon C Aster, Birgit Knoechel, Bradley E Bernstein
Translocation events are frequent in cancer and may create chimeric fusions or 'regulatory rearrangements' that drive oncogene overexpression. Here we identify super-enhancer translocations that drive overexpression of the oncogenic transcription factor MYB as a recurrent theme in adenoid cystic carcinoma (ACC). Whole-genome sequencing data and chromatin maps highlight distinct chromosomal rearrangements that juxtapose super-enhancers to the MYB locus. Chromosome conformation capture confirms that the translocated enhancers interact with the MYB promoter...
March 2016: Nature Genetics
https://www.readbyqxmd.com/read/26700815/insulator-dysfunction-and-oncogene-activation-in-idh-mutant-gliomas
#14
William A Flavahan, Yotam Drier, Brian B Liau, Shawn M Gillespie, Andrew S Venteicher, Anat O Stemmer-Rachamimov, Mario L Suvà, Bradley E Bernstein
Gain-of-function IDH mutations are initiating events that define major clinical and prognostic classes of gliomas. Mutant IDH protein produces a new onco-metabolite, 2-hydroxyglutarate, which interferes with iron-dependent hydroxylases, including the TET family of 5'-methylcytosine hydroxylases. TET enzymes catalyse a key step in the removal of DNA methylation. IDH mutant gliomas thus manifest a CpG island methylator phenotype (G-CIMP), although the functional importance of this altered epigenetic state remains unclear...
January 7, 2016: Nature
https://www.readbyqxmd.com/read/26687680/a-multiplexed-system-for-quantitative-comparisons-of-chromatin-landscapes
#15
COMPARATIVE STUDY
Peter van Galen, Aaron D Viny, Oren Ram, Russell J H Ryan, Matthew J Cotton, Laura Donohue, Cem Sievers, Yotam Drier, Brian B Liau, Shawn M Gillespie, Kaitlin M Carroll, Michael B Cross, Ross L Levine, Bradley E Bernstein
Genome-wide profiling of histone modifications can provide systematic insight into the regulatory elements and programs engaged in a given cell type. However, conventional chromatin immunoprecipitation and sequencing (ChIP-seq) does not capture quantitative information on histone modification levels, requires large amounts of starting material, and involves tedious processing of each individual sample. Here, we address these limitations with a technology that leverages DNA barcoding to profile chromatin quantitatively and in multiplexed format...
January 7, 2016: Molecular Cell
https://www.readbyqxmd.com/read/26541886/lutein-zeaxanthin-and-meso-zeaxanthin-the-basic-and-clinical-science-underlying-carotenoid-based-nutritional-interventions-against-ocular-disease
#16
REVIEW
Paul S Bernstein, Binxing Li, Preejith P Vachali, Aruna Gorusupudi, Rajalekshmy Shyam, Bradley S Henriksen, John M Nolan
The human macula uniquely concentrates three carotenoids: lutein, zeaxanthin, and meso-zeaxanthin. Lutein and zeaxanthin must be obtained from dietary sources such as green leafy vegetables and orange and yellow fruits and vegetables, while meso-zeaxanthin is rarely found in diet and is believed to be formed at the macula by metabolic transformations of ingested carotenoids. Epidemiological studies and large-scale clinical trials such as AREDS2 have brought attention to the potential ocular health and functional benefits of these three xanthophyll carotenoids consumed through the diet or supplements, but the basic science and clinical research underlying recommendations for nutritional interventions against age-related macular degeneration and other eye diseases are underappreciated by clinicians and vision researchers alike...
January 2016: Progress in Retinal and Eye Research
https://www.readbyqxmd.com/read/26458175/single-cell-chip-seq-reveals-cell-subpopulations-defined-by-chromatin-state
#17
Assaf Rotem, Oren Ram, Noam Shoresh, Ralph A Sperling, Alon Goren, David A Weitz, Bradley E Bernstein
Chromatin profiling provides a versatile means to investigate functional genomic elements and their regulation. However, current methods yield ensemble profiles that are insensitive to cell-to-cell variation. Here we combine microfluidics, DNA barcoding and sequencing to collect chromatin data at single-cell resolution. We demonstrate the utility of the technology by assaying thousands of individual cells and using the data to deconvolute a mixture of ES cells, fibroblasts and hematopoietic progenitors into high-quality chromatin state maps for each cell type...
November 2015: Nature Biotechnology
https://www.readbyqxmd.com/read/26368484/fluorescence-modeling-for-optimized-binary-compressive-detection-raman-spectroscopy
#18
Owen G Rehrauer, Bharat R Mankani, Gregery T Buzzard, Bradley J Lucier, Dor Ben-Amotz
The recently-developed optimized binary compressive detection (OB-CD) strategy has been shown to be capable of using Raman spectral signatures to rapidly classify and quantify liquid samples and to image solid samples. Here we demonstrate that OB-CD can also be used to quantitatively separate Raman and fluorescence features, and thus facilitate Raman-based chemical analyses in the presence of fluorescence background. More specifically, we describe a general strategy for fitting and suppressing fluorescence background using OB-CD filters trained on third-degree Bernstein polynomials...
September 7, 2015: Optics Express
https://www.readbyqxmd.com/read/26320100/ehmt1-and-ehmt2-inhibition-induces-fetal-hemoglobin-expression
#19
Aline Renneville, Peter Van Galen, Matthew C Canver, Marie McConkey, John M Krill-Burger, David M Dorfman, Edward B Holson, Bradley E Bernstein, Stuart H Orkin, Daniel E Bauer, Benjamin L Ebert
Fetal hemoglobin (HbF, α2γ2) induction is a well-validated strategy for sickle cell disease (SCD) treatment. Using a small-molecule screen, we found that UNC0638, a selective inhibitor of EHMT1 and EHMT2 histone methyltransferases, induces γ-globin expression. EHMT1/2 catalyze mono- and dimethylation of lysine 9 on histone 3 (H3K9), raising the possibility that H3K9Me2, a repressive chromatin mark, plays a role in silencing γ-globin expression. In primary human adult erythroid cells, UNC0638 and EHMT1 or EHMT2 short hairpin RNA-mediated knockdown significantly increased γ-globin expression, HbF synthesis, and the percentage of cells expressing HbF...
October 15, 2015: Blood
https://www.readbyqxmd.com/read/26229090/detection-of-enhancer-associated-rearrangements-reveals-mechanisms-of-oncogene-dysregulation-in-b-cell-lymphoma
#20
Russell J H Ryan, Yotam Drier, Holly Whitton, M Joel Cotton, Jasleen Kaur, Robbyn Issner, Shawn Gillespie, Charles B Epstein, Valentina Nardi, Aliyah R Sohani, Ephraim P Hochberg, Bradley E Bernstein
UNLABELLED: B-cell lymphomas frequently contain genomic rearrangements that lead to oncogene activation by heterologous distal regulatory elements. We used a novel approach called "pinpointing enhancer-associated rearrangements by chromatin immunoprecipitation," or PEAR-ChIP, to simultaneously map enhancer activity and proximal rearrangements in lymphoma cell lines and patient biopsies. This method detects rearrangements involving known cancer genes, including CCND1, BCL2, MYC, PDCD1LG2, NOTCH1, CIITA, and SGK1, as well as novel enhancer duplication events of likely oncogenic significance...
October 2015: Cancer Discovery
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