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https://www.readbyqxmd.com/read/28805617/molecular-cytogenetic-characterization-of-a-duplication-of-15q24-2-q26-2-associated-with-anencephaly-and-neural-tube-defect
#1
Chih-Ping Chen, Chen-Yu Chen, Schu-Rern Chern, Peih-Shan Wu, Shin-Wen Chen, Shih-Ting Lai, Chen-Chi Lee, Chien-Wen Yang, Wayseen Wang
OBJECTIVE: We present molecular cytogenetic characterization of a duplication of 15q24.2-q26.2 associated with anencephaly and neural tube defect (NTD). CASE REPORT: A 35-year-old pregnant woman was found to have a fetus with anencephaly by prenatal ultrasound at 12 weeks of gestation. The pregnancy was subsequently terminated, and a malformed fetus was delivered with anencephaly. Cytogenetic analysis of the cultured placental tissues revealed a karyotype of 46,XX,dup(15) (q24...
August 2017: Taiwanese Journal of Obstetrics & Gynecology
https://www.readbyqxmd.com/read/28707684/conformer-specific-nonadiabatic-reaction-dynamics-in-the-photodissociation-of-partially-deuterated-thioanisoles-c6h5s-ch2d-and-c6h5s-chd2
#2
So-Yeon Kim, Jeongmook Lee, Sang Kyu Kim
In this work, we have investigated nonadiabatic dynamics in the vicinity of conical intersections for predissociation reactions of partially deuterated thioanisole molecules: C6H5S-CH2D and C6H5S-CHD2. Each isotopomer has two distinct rotational conformers according to the geometrical position of D or H of the methyl moiety with respect to the molecular plane for C6H5S-CH2D or C6H5S-CHD2, respectively, as spectroscopically characterized in our earlier report [J. Lee, S.-Y. Kim and S. K. Kim, J. Phys. Chem. A, 2014, 118, 1850]...
July 26, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28647789/probing-slow-timescale-dynamics-in-proteins-using-methyl-1-h-cest
#3
Tairan Yuwen, Rui Huang, Lewis E Kay
Although (15)N- and (13)C-based chemical exchange saturation transfer (CEST) experiments have assumed an important role in studies of biomolecular conformational exchange, (1)H CEST experiments are only beginning to emerge. We present a methyl-TROSY (1)H CEST experiment that eliminates deleterious (1)H-(1)H NOE dips so that CEST profiles can be analyzed robustly to extract methyl proton chemical shifts of rare protein conformers. The utility of the experiment, along with a version that is optimized for (13)CHD2 labeled proteins, is established through studies of exchanging protein systems...
July 2017: Journal of Biomolecular NMR
https://www.readbyqxmd.com/read/28595412/non-adiabatic-effects-in-f-chd3-reactive-scattering
#4
Juliana Palma, Uwe Manthe
The effect of non-adiabatic transitions on the F((2)P) + CHD3(ν1) → DF + CHD2 and F((2)P) + CHD3(ν1) → HF + CD3 reactions is investigated. The dynamics of the nuclei was simulated using trajectory surface hopping and a vibronically and spin-orbit coupled diabatic potential energy matrix. To facilitate the calculations, the fewest switching algorithm of Tully was adapted to the use of a complex diabatic potential energy matrix. For reactions of CHD3 with ground state fluorine atoms, F((2)P3/2), the ratio between the previously computed adiabatic cross sections and the non-adiabatic ones was found to range from 1...
June 7, 2017: Journal of Chemical Physics
https://www.readbyqxmd.com/read/28582417/genome-wide-alteration-in-dna-hydroxymethylation-in-the-sperm-from-bisphenol-a-exposed-men
#5
Huajun Zheng, Xiaoyu Zhou, De-Kun Li, Fen Yang, Hongjie Pan, Tianqi Li, Maohua Miao, Runsheng Li, Wei Yuan
Environmental BPA exposure has been shown to impact human sperm concentration and motility, as well as rodent spermatogenesis. However, it is unclear whether BPA exposure is associated with alteration in DNA hydroxymethylation, a marker for epigenetic modification, in human sperm. A genome-wide DNA hydroxymethylation study was performed using sperm samples of men who were occupationally exposed to BPA. Compared with controls who had no occupational BPA exposure, the total levels of 5-hydroxymethylcytosine (5hmc) increased significantly (19...
2017: PloS One
https://www.readbyqxmd.com/read/28549158/chd2-regulates-chromatin-for-proper-gene-expression-toward-differentiation-in-mouse-embryonic-stem-cells
#6
Yuichiro Semba, Akihito Harada, Kazumitsu Maehara, Shinya Oki, Chikara Meno, Jun Ueda, Kazuo Yamagata, Atsushi Suzuki, Mitsuho Onimaru, Jumpei Nogami, Seiji Okada, Koichi Akashi, Yasuyuki Ohkawa
Chromatin reorganization is necessary for pluripotent stem cells, including embryonic stem cells (ESCs), to acquire lineage potential. However, it remains unclear how ESCs maintain their characteristic chromatin state for appropriate gene expression upon differentiation. Here, we demonstrate that chromodomain helicase DNA-binding domain 2 (Chd2) is required to maintain the differentiation potential of mouse ESCs. Chd2-depleted ESCs showed suppressed expression of developmentally regulated genes upon differentiation and subsequent differentiation defects without affecting gene expression in the undifferentiated state...
May 26, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28489374/theoretical-study-of-the-pair-correlated-f-chd3-v-0-%C3%AE-1-1-reaction-effect-of-ch-stretching-vibrational-excitation
#7
Joaquin Espinosa-Garcia, Laurent Bonnet, Jose C Corchado
The F + CHD3(v) reaction is a benchmark system in polyatomic reactions. Theoretical/experimental comparisons have been reported in recent years that present some controversies, specifically the role of the reactant CH stretching vibrational excitation, CHD3(ν1 = 1), on the reactivity of both isotope channels, DF(v) + CHD2(v') and HF(v) + CD3(v'). However, in many cases, these comparisons are not made on an equal footing. Previous theoretical studies were concerned with overall reactivity of each isotope channel, while fine velocity map imaging experiments provided results in a product pair-correlated manner...
May 19, 2017: Journal of Physical Chemistry. A
https://www.readbyqxmd.com/read/28346953/lennox-gastaut-syndrome-a-state-of-the-art-review
#8
Mario Mastrangelo
Lennox-Gastaut syndrome (LGS) is a severe age-dependent epileptic encephalopathy usually with onset between 1 and 8 years of age. Functional neuroimaging studies recently introduced the concept of Lennox-Gastaut as "secondary network epilepsy" resulting from dysfunctions of a complex system involving both cortical and subcortical structures (default-mode network, corticoreticular connections, and thalamus). These dysfunctions are produced by different disorders including hypoxic-ischemic encephalopathies, meningoencephalitis, cortical malformations, neurocutaneous disorders, or tumors...
June 2017: Neuropediatrics
https://www.readbyqxmd.com/read/28074849/genetic-variants-identified-from-epilepsy-of-unknown-etiology-in-chinese-children-by-targeted-exome-sequencing
#9
Yimin Wang, Xiaonan Du, Rao Bin, Shanshan Yu, Zhezhi Xia, Guo Zheng, Jianmin Zhong, Yunjian Zhang, Yong-Hui Jiang, Yi Wang
Genetic factors play a major role in the etiology of epilepsy disorders. Recent genomics studies using next generation sequencing (NGS) technique have identified a large number of genetic variants including copy number (CNV) and single nucleotide variant (SNV) in a small set of genes from individuals with epilepsy. These discoveries have contributed significantly to evaluate the etiology of epilepsy in clinic and lay the foundation to develop molecular specific treatment. However, the molecular basis for a majority of epilepsy patients remains elusive, and furthermore, most of these studies have been conducted in Caucasian children...
January 11, 2017: Scientific Reports
https://www.readbyqxmd.com/read/27959900/genomic-profile-of-chronic-lymphocytic-leukemia-in-korea-identified-by-targeted-sequencing
#10
Jung-Ah Kim, Byungjin Hwang, Si Nae Park, Sunghoon Huh, Kyongok Im, Sungbin Choi, Hye Yoon Chung, JooRyung Huh, Eul-Ju Seo, Je-Hwan Lee, Duhee Bang, Dong Soon Lee
Chronic lymphocytic leukemia (CLL) is extremely rare in Asian countries and there has been one report on genetic changes for 5 genes (TP53, SF3B1, NOTCH1, MYD88, and BIRC3) by Sanger sequencing in Chinese CLL. Yet studies of CLL in Asian countries using Next generation sequencing have not been reported. We aimed to characterize the genomic profiles of Korean CLL and to find out ethnic differences in somatic mutations with prognostic implications. We performed targeted sequencing for 87 gene panel using next-generation sequencing along with G-banding and fluorescent in situ hybridization (FISH) for chromosome 12, 13q14...
2016: PloS One
https://www.readbyqxmd.com/read/27782517/differential-steric-effects-in-cl-reactions-with-aligned-chd3-v1-1-by-the-r-0-and-q-1-transitions-ii-abstracting-the-unexcited-d-atoms
#11
Fengyan Wang, Kopin Liu
A complete set of four polarization-dependent differential cross sections in the reactions of Cl + aligned-CHD3(v1=1,jK)→DCl(v=0)+CHD2(v1=1) is reported here for two different, rotationally polarized states with j = 1: specifically the jK=10 state prepared via the R(0) excitation and the 1±1 state via Q(1). In stark contrast to the complicated situation of the HCl(v) + CD3(v = 0) channel reported in Paper-I, the stereo-requirement of this isotopic channel for both polarized reactants appears quite straightforward and consistent with a direct rebound mechanism...
October 14, 2016: Journal of Chemical Physics
https://www.readbyqxmd.com/read/27782511/differential-steric-effects-in-cl-reactions-with-aligned-chd3-v1-1-by-the-r-0-and-q-1-transitions-i-attacking-the-excited-c-h-bond
#12
Fengyan Wang, Kopin Liu
When a CHD3 molecule is pumped to the C-H stretching-excited state by absorbing a linearly polarized infrared (IR) photon via the R(0) branch of the v1 = 1←0 transition, the rotational angular momentum j of the prepared state jK=10 preferentially lies in a plane perpendicular to the IR polarization axis εIR. By way of contrast, when the Q(1) branch is used, the state of jK=1±1 is prepared with j aligned along the direction of εIR. Reported here is a detailed study of the title reaction by actively controlling the collision geometries under these two IR-excitation schemes at collision energy Ec = 8...
October 14, 2016: Journal of Chemical Physics
https://www.readbyqxmd.com/read/27781027/understanding-genotypes-and-phenotypes-in-epileptic-encephalopathies
#13
REVIEW
Ingo Helbig, Abou Ahmad N Tayoun
Epileptic encephalopathies are severe often intractable seizure disorders where epileptiform abnormalities contribute to a progressive disturbance in brain function. Often, epileptic encephalopathies start in childhood and are accompanied by developmental delay and various neurological and non-neurological comorbidities. In recent years, this concept has become virtually synonymous with a group of severe childhood epilepsies including West syndrome, Lennox-Gastaut syndrome, Dravet syndrome, and several other severe childhood epilepsies for which genetic factors are increasingly recognized...
September 2016: Molecular Syndromology
https://www.readbyqxmd.com/read/27615324/application-of-whole-exome-sequencing-to-unravel-the-molecular-basis-of-undiagnosed-syndromic-congenital-neutropenia-with-intellectual-disability
#14
Alexandra Gauthier-Vasserot, Christel Thauvin-Robinet, Ange-Line Bruel, Yannis Duffourd, Judith St-Onge, Thibaud Jouan, Jean-Baptiste Rivière, Delphine Heron, Jean Donadieu, Christine Bellanné-Chantelot, Claire Briandet, Frédéric Huet, Paul Kuentz, Daphné Lehalle, Laurence Duplomb-Jego, Elodie Gautier, Isabelle Maystadt, Lucile Pinson, Daniel Amram, Salima El Chehadeh, Judith Melki, Sophia Julia, Laurence Faivre, Julien Thevenon
Neutropenia can be qualified as congenital when of neonatal onset or when associated with extra-hematopoietic manifestations. Overall, 30% of patients with congenital neutropenia (CN) remain without a molecular diagnosis after a multidisciplinary consultation and tedious diagnostic strategy. In the rare situations when neutropenia is identified and associated with intellectual disability (ID), there are few diagnostic hypotheses to test. This retrospective multicenter study reports on a clinically heterogeneous cohort of 10 unrelated patients with CN associated with ID and no molecular diagnosis prior to whole-exome sequencing (WES)...
January 2017: American Journal of Medical Genetics. Part A
https://www.readbyqxmd.com/read/27486789/state-to-state-mode-specificity-in-f-chd3-%C3%A2-hf-df-cd3-chd2-reaction
#15
Changjian Xie, Bin Jiang, Minghui Yang, Hua Guo
The F + CHD3 → HF/DF + CD3/CHD2 reaction is studied using a state-to-state quasi-classical trajectory method on a recently developed ab initio based full-dimensional potential energy surface. Consistent with sudden vector projection model predictions, the HF/DF products are highly excited in both vibrational and rotational modes, while the CD3/CHD2 product internal excitation is mostly in the umbrella/out-of-plane mode. Furthermore, the C-H stretching vibration in the CHD3 reactant is found to behave as an active mode for the HF + CD3 channel, leading to additional excitation in the HF product but having almost no impact on CD3 vibrational state distributions...
August 25, 2016: Journal of Physical Chemistry. A
https://www.readbyqxmd.com/read/27385633/sensitive-proton-detected-solid-state-nmr-spectroscopy-of-large-proteins-with-selective-ch3-labelling-application-to-the-50s-ribosome-subunit
#16
Vilius Kurauskas, Elodie Crublet, Pavel Macek, Rime Kerfah, Diego F Gauto, Jérôme Boisbouvier, Paul Schanda
Solid-state NMR spectroscopy allows the characterization of the structure, interactions and dynamics of insoluble and/or very large proteins. Sensitivity and resolution are often major challenges for obtaining atomic-resolution information, in particular for very large protein complexes. Here we show that the use of deuterated, specifically CH3-labelled proteins result in significant sensitivity gains compared to previously employed CHD2 labelling, while line widths increase only marginally. We apply this labelling strategy to a 468 kDa-large dodecameric aminopeptidase, TET2, and the 1...
July 21, 2016: Chemical Communications: Chem Comm
https://www.readbyqxmd.com/read/27274247/absence-epilepsy-and-the-chd2-gene-an-adolescent-male-with-moderate-intellectual-disability-short-lasting-psychoses-and-an-interstitial-deletion-in-15q26-1-q26-2
#17
Willem Ma Verhoeven, Jos Im Egger, Alida C Knegt, José Zuydam, Tjitske Kleefstra
Deletions of the 15q26 region encompassing the chromodomain helicase DNA binding domain 2 (CHD2) gene have been associated with intellectual disability, behavioral problems, and several types of epilepsy. Including the cases mentioned in ECARUCA (European cytogeneticists association register of unbalanced chromosome aberrations) and DECIPHER (database of genomic variation and phenotype in humans using ensembl resources), so far, a total of 13 intellectually disabled patients with a genetically proven deletion of the CHD2 gene are described, of whom eleven had a history of severe forms of epilepsy starting from a young age...
2016: Neuropsychiatric Disease and Treatment
https://www.readbyqxmd.com/read/27251650/quantitative-measurement-of-exchange-dynamics-in-proteins-via-13-c-relaxation-dispersion-of-13-chd2-labeled-samples
#18
Enrico Rennella, Anne K Schuetz, Lewis E Kay
Methyl groups have emerged as powerful probes of protein dynamics with timescales from picoseconds to seconds. Typically, studies involving high molecular weight complexes exploit (13)CH3- or (13)CHD2-labeling in otherwise highly deuterated proteins. The (13)CHD2 label offers the unique advantage of providing (13)C, (1)H and (2)H spin probes, however a disadvantage has been the lack of an experiment to record (13)C Carr-Purcell-Meiboom-Gill relaxation dispersion that monitors millisecond time-scale dynamics, implicated in a wide range of biological processes...
June 2016: Journal of Biomolecular NMR
https://www.readbyqxmd.com/read/27060156/a-quantitative-analysis-of-subclonal-and-clonal-gene-mutations-before-and-after-therapy-in-chronic-lymphocytic-leukemia
#19
Nisar A Amin, Erlene Seymour, Kamlai Saiya-Cork, Brian Parkin, Kerby Shedden, Sami N Malek
PURPOSE: Chronic lymphocytic leukemia (CLL)-associated gene mutations that influence CLL cell fitness and chemotherapy resistance should increase in clonal representation when measured before therapy and at relapse. EXPERIMENTAL DESIGN: To uncover mutations associated with CLL relapse, we have performed whole-exome sequencing in a discovery cohort of 61 relapsed CLL patients identifying 86 recurrently mutated genes. The variant allele fractions (VAF) of 19 genes with mutations in ≥3 of 61 cases were measured in 53 paired pre- and posttreatment CLL samples sorted to purity using panel-based deep resequencing or by droplet digital PCR...
September 1, 2016: Clinical Cancer Research: An Official Journal of the American Association for Cancer Research
https://www.readbyqxmd.com/read/26933602/photosensitivity-and-chd2-variants
#20
Rebecca García Sosa, Srishti Nangia
Investigators from multinational institutions hypothesized that disruption of CHD2, which encodes chromodomain helicase DNA-binding protein 2, would be associated with common forms of photosensitive epilepsy or photosensitivity manifesting as a photoparoxysmal response alone.
September 2015: Pediatric neurology briefs
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