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Dere E, Huse S, Hwang K, Sigman M, Boekelheide K. Intra- and inter-individual differences in human sperm DNA methylation. Andrology 2016; 4:832-42. [PMID: 27089098 DOI: 10.1111/andr.12170] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2015] [Revised: 01/06/2016] [Accepted: 01/13/2016] [Indexed: 12/20/2022]
Abstract
There is growing evidence that sperm DNA methylation is important in maintaining proper sperm health and function. Previous studies have associated sperm DNA methylation levels with sperm quality and function, however, little is known regarding the intra- and inter-individual variability in sperm methylation levels. This study characterizes this variation. Sperm epigenetic differences between successive semen samples from 12 patients were examined to identify the intra- and inter-individual differences globally across the genome, and in specifically defined genomic regions using the Illumina Infinium HumanMethylation450 BeadChips. Methylation analysis identified a bimodal distribution in the methylation levels that were non-uniformly distributed across the different genomic regions. The methylation levels were highly correlated in both the intra- and inter-individual comparisons. The intra-individual methylation levels were more highly correlated than the inter-individual comparison both globally and across the defined genomic regions, demonstrating that sperm DNA methylation levels are relatively stable between semen sample collections.
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Rotker K, Vigneswaran H, Omil-Lima D, Baird G, Sigman M, Hwang K. Efficacy of standardized nursing fertility counseling on sperm banking rates in cancer patients. Fertil Steril 2015. [DOI: 10.1016/j.fertnstert.2015.07.276] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Bianchi E, Sigman M, Boekelheide K, Hall S, Hwang K. Ghrelin administration ameliorates adhesion formation in a mouse surgical model. Fertil Steril 2015. [DOI: 10.1016/j.fertnstert.2015.07.540] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Wang J, Yang J, Hwang K, Wen Z, Court L, Ibbott G. SU-E-J-227: Evaluation of Residual Geometric Distortion in MRI for Treatment Planning. Med Phys 2015. [DOI: 10.1118/1.4924313] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
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Wang J, Hwang K, Fuller C, Mohamed A, Ding Y, Frank S, Hazle J, Zhou J. SU-E-J-225: CEST Imaging in Head and Neck Cancer Patients. Med Phys 2015. [DOI: 10.1118/1.4924311] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
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Hwang K, Bianchi E, Sigman M, Lamb D, Boekelheide K. Special research presentation: defining the role of ghrelin in wound healing and the inflammatory response in the post-operative setting. Fertil Steril 2014. [DOI: 10.1016/j.fertnstert.2014.07.013] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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Kim M, Ham O, Lee S, Choi E, Lee C, Park J, Lee J, Seo H, Seung M, Choi E, Min P, Hwang K, Kwon H. Microrna-365 inhibits the proliferation of vascular smooth muscle cells by targeting cyclin d1. Atherosclerosis 2014. [DOI: 10.1016/j.atherosclerosis.2014.05.359] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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Stefan W, Hwang K, Hazle J, Stafford R. SU-E-I-32: Improving Vessel Delineation in Brain Using Susceptibility Weighted MRI and Group Sparse Reconstruction. Med Phys 2014. [DOI: 10.1118/1.4887980] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
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Hwang K, Illerstam F, Torfeh T, Maier J, Shave S, Hoang M. SU-E-J-146: Spatial Accuracy QA of An MR System. Med Phys 2014. [DOI: 10.1118/1.4888199] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
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Ai H, Hwang K, Pan T. MO-G-17A-03: MR-Based Cortical Bone Segmentation for PET Attenuation Correction with a Non-UTE 3D Fast GRE Sequence. Med Phys 2014. [DOI: 10.1118/1.4889205] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
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Jun JH, Hwang K, Kim SK, Oh HB, Cho MC, Lee KJ. Estimation of the 6-digit level allele and haplotype frequencies of HLA-A, -B, and -C in Koreans using ambiguity-solving DNA typing. ACTA ACUST UNITED AC 2014; 84:277-84. [PMID: 24851935 DOI: 10.1111/tan.12368] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2013] [Revised: 03/31/2014] [Accepted: 04/15/2014] [Indexed: 01/20/2023]
Abstract
Because Korean society is fast becoming multi-ethnic, the determination of ambiguous human leukocyte antigen (HLA) types using HLA allele frequencies is becoming less applicable. In this study, we focused on the development of new technical methods to directly resolve the ambiguities arising from HLA genotyping. One hundred and fifty unrelated healthy Korean adults were included in this study. All alleles from each HLA locus were first divided into 2-4 groups, with each group amplified in a single PCR tube (multi-group-specific amplification, MGSA). To resolve phase ambiguities, some allele groups were also amplified separately in small group-specific amplification (SGSA) tubes. In order to then resolve incomplete sequence ambiguities, primers for MGSA and SGSA were initially designed to cover additional exons. If needed, a heterozygous ambiguity resolving primer (HARP) or sequence specific primer (SSP) was also used. When MGSA and SGSA methods were applied, the rate of phase ambiguity was greatly reduced to an average of 6% (1.3% in HLA-A, 15.7% in -B, and 2.0% in -C). Additional HARP and SSP methods could resolve all the phase ambiguities. Using our proposed method, we also detected three alleles that have not been previously reported in Korea, C*04:82, C*07:18, and C*08:22, and report 6-digit level HLA allele and haplotype frequencies among Koreans. In conclusion, the use of MGSA/SGSA for the initial amplification step is a cost-effective method facilitating timely and accurate reporting, given the continuing increase in the ethnic diversity of the Korean population. The MGSA described here can be applicable to various populations and thus could be shared by the majority of HLA typing laboratories. However, efforts to solve HLA ambiguity should continue, because SGSA, HARPs and SSPs would be specific to a particular population.
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Oh J, Choi J, Suh J, Liu H, Hwang K, Chung I, Lee S, Kang J, Park H, Jung W, Jo S, Gweon H, Lee Y, Lee W, Kim J, Han S, Hong G, Lee J, Lee B, Yeo C, Kim H, Seo E, Reynaud P, Goff J, Tan H, Tao J. Preliminary design of the ITER AC/DC converters supplied by the Korean Domestic Agency. FUSION ENGINEERING AND DESIGN 2013. [DOI: 10.1016/j.fusengdes.2013.01.099] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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Novak G, Osztroluczki A, Hwang K, Shave S, Chandler A, Fidrich M. Development of a Semiautomated Contouring Toolkit for Pelvic Organs on an MR Image Series. Int J Radiat Oncol Biol Phys 2013. [DOI: 10.1016/j.ijrobp.2013.06.1888] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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Hwang K, Stefan W, Stafford R. SU-E-J-60: In Vivo Management of Suspectibility-Induced Distortions for Intracranial MRI Guided Therapies at 3 Tesla. Med Phys 2013. [DOI: 10.1118/1.4814272] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
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Pinnaduwage D, Sudhyadhom A, Descovich M, Hwang K, Novak G, Chen J, Pouliot J. SU-D-WAB-02: MRI-Based Treatment Planning in Brain Radiation Therapy: Validation of An Atlas-Based Pseudo-CT Generation Method. Med Phys 2013. [DOI: 10.1118/1.4814026] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
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McLellan JS, Gorman J, Bonsignori M, Hwang K, Liao H, Rerks-Ngarm S, Nitayaphan S, Michael NL, Kim JH, Haynes BF, Kwong PD. V1/V2-directed antibodies elicited in RV144 vaccinees bind to a structurally polymorphic site. Retrovirology 2012. [PMCID: PMC3441966 DOI: 10.1186/1742-4690-9-s2-p107] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
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Pollara J, Bonsignori M, Moody M, Alam M, Liao H, Hwang K, Pickeral J, Kappes J, Ochsenbauer C, Soderberg K, Gurley TC, Kozink DM, Marshall DJ, Whitesides JF, Montefiori D, Robinson JE, Kaewkungwal J, Nitayaphan S, Pitisuttithum P, Rerks-Ngarm S, Kim J, Michael N, Tomaras G, Haynes BF, Ferrari G. Vaccine-induced ADCC-mediating antibodies target unique and overlapping envelope epitopes. Retrovirology 2012. [PMCID: PMC3441773 DOI: 10.1186/1742-4690-9-s2-o39] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022] Open
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Liao L, Bonsignori M, Hwang K, Moody AM, Park R, Crawford S, Chen H, Jeffries TL, Cooper M, Lu X, De R, Karasavvas N, Rerks-Ngarm S, Nitayaphan S, Kaewkungwal J, Tovanabutra S, Pitisuttithum P, Tartaglia J, Sinangil F, Kim J, Michael NL, Tomaras GD, Yang Z, Dai K, Pancera M, Nabel GJ, Mascola JR, Kwong PD, Pinter A, Zolla-Pazner S, Alam MS, Haynes BF. Design of an HIV Env antigen that binds with high affinity to antibodies against linear, conformational and broadly neutralizing epitopes within V1/V2. Retrovirology 2012. [PMCID: PMC3441578 DOI: 10.1186/1742-4690-9-s2-o31] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
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Morris P, Hwang K, Hara R, Rapelje C, Mitchell L. Cell cycle kinetics, nuclear receptor and gene expression in human endometrial cells: differential regulation by progestin and selective progesterone receptor modulator. Fertil Steril 2012. [DOI: 10.1016/j.fertnstert.2012.07.024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
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Thomas A, Mancino A, Elnathan H, Fesi J, Hwang K, Gilmore R. Children's cortical responses to optic flow patterns show differential tuning by pattern type, speed, scalp location and age group. J Vis 2012. [DOI: 10.1167/12.9.243] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022] Open
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Hwang K, McKinnon G, Lorbiecki J, Maier J. WE-G-217A-06: Spatial Accuracy Quantification of an MR System. Med Phys 2012; 39:3976. [PMID: 28519637 DOI: 10.1118/1.4736225] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
Abstract
PURPOSE To develop a phantom and measurement protocol for quantifying spatial accuracy of an MR imaging system over its entire imaging volume. METHODS The measurement protocol is comprised of a phantom, a set of MR sequence parameters for imaging the phantom, and analysis software for calculating spatial errors in the acquired phantom images. The phantom covers the entire imaging volume of the scanner above the patient table. It consists of layers of tooling foam which does not produce any detectable signal on conventional MR images, embedded with a matrix of oil capsules to serve as markers. To account for possible spatial errors in the construction of the phantom, the phantom was imaged with CT to create a gold standard data set. On MR scanners, the phantom is acquired with a 3D FGRE sequence that covers an extended FOV of 61.44 mm and with bandwidth = ±62.5 kHz. Error measurements are performed by detecting markers in the image sets and identifying them based on their known locations on the phantom. The spatial error of a marker is defined as the difference between its locations on the MR and CT image sets. RESULTS The phantom was constructed and the measurement protocol was executed on two different MR scanners. Some markers were located in areas of severe field inhomogeneity or gradient nonlinearity, and could not be adequately detected for analysis. Maximum errors over concentric spherical regions were observed by plotting the error of each marker as a function of their distance from isocenter. CONCLUSION The proposed phantom and protocol can be an effective tool for verifying the spatial accuracy of an MR system, which in turn can improve the accuracy and confidence of MR guided therapies. Data from this protocol may also be used in the development of advanced distortion correction algorithms. Employed by General Electric Healthcare.
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Hwang K, Maier J, Slavens Z, McKinnon G. WE-G-217A-07: Increased MR Spatial Accuracy with Improved Gradient Nonlinearity and Magnet Inhomogeneity Correction. Med Phys 2012; 39:3976. [PMID: 28519623 DOI: 10.1118/1.4736226] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
Abstract
PURPOSE To develop improved distortion correction of MR images based on higher degree spherical harmonic models of the gradient system and the main magnetic field. METHODS The induced field gradient along all three axes can be modeled by first order spherical harmonics. These models provide a true encoding of the physical location of a spin to the frequency at which it is detected. Currently on many commercial systems, only the lower 5 degrees of the model are used for gradient nonlinearity correction. While this provides sufficient accuracy for diagnostic imaging, the gradient nonlinearity correction was extended to include all first order harmonics up to the 9th degree to improve the spatial accuracy of the images. Using zeroth degree spherical harmonics up to the 20th order, a model of the main magnetic field was also incorporated into the correction algorithm. Shifts caused by field inhomogeneity were calculated using knowledge of the receiver bandwidth, frequency encode direction, and the magnetic field at any given point. These corrections were applied to images of a 50 cm diameter phantom, acquired with an extended FOV 3D FGRE sequence. Any improvements in spatial accuracy were measured in the resulting images. RESULTS Visual improvements in spatial accuracy were observed with both corrections. With standard gradient nonlinearity correction, edges of the phantom were distorted in a wave-like fashion. With accurate models, almost all of the errors at the edges of the phantom were corrected when both gradient and field homogeneity corrections were applied. CONCLUSION With accurate models of the gradient and magnetic field, the two greatest system-induced spatial errors can be corrected. This improved spatial accuracy enables the use of widebore MR scanners for therapy planning on large FOV images and guidance of percutaneous devices. Further applications include extended FOV imaging for combined PET-MR systems. All authors are employed by General Electric Healthcare.
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Chow N, Green A, Hwang K, Jack C, Thompson P, Apostolova L. Comparison of Automated and Manual Hippocampal Segmentation (P03.101). Neurology 2012. [DOI: 10.1212/wnl.78.1_meetingabstracts.p03.101] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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Weber M, Schueler R, Momcilovic D, Sinning J, Ghanem A, Werner N, Nickenig G, Hammerstingl C, Sun B, Hwang K, Cho M, Lee W, Choi S, Kim YG, Kim DH, Song JM, Kang DH, Song JK, Capoulade R, Clavel M, Dumesnil J, Chan K, Tam J, Teo K, Cote N, Mathieu P, Despres J, Pibarot P, Macron L, Lim P, Bensaid A, Nahum J, Attias D, Messika Zeitoun D, Dubois Rande J, Gueret P, Monin J, Le Tourneau T, Lardeux A, Garcia A, Kyndt F, Merot J, Hagege A, Levine R, Schott J, La Marec H, Probst V, Niki K, Sugawara M, Takamisawa I, Watanabe H, Sumiyoshi T, Hosoda S, Takanashi S, Veronesi F, Caiani E, Fusini L, Tamborini G, Sugeng L, Alamanni F, Pepi M, Lang R, Gripari P, Muratori M, Fusini L, Ajmone Marsan N, Hooi Ewe S, Arnold C, Van Der Kley F, Tamborini G, Pepi M, Bax J, Adda J, Mielot C, Cransac F, Zirphile X, Reant P, Sportouch-Dukhan C, Lafitte S, Donal E, Lancellotti P, Habib G, Akbar Ali O, Chapman M, Nguyen T, Chirkov Y, Horowitz J. Moderated Poster Sessions 1: Valvular heart disease: from bench to bedside * Thursday 8 December 2011, 08:30-12:30 * Location: Moderated Poster Area. EUROPEAN JOURNAL OF ECHOCARDIOGRAPHY 2011. [DOI: 10.1093/ejechocard/jer205] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
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Fesi J, Thomas A, Hwang K, Gilmore R. Cortical responses to time_varying optic flow patterns show differential tuning by pattern type, speed, and scalp location. J Vis 2011. [DOI: 10.1167/11.11.712] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022] Open
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