Research Topics
| STEPHEN KRAWETZSummaryAffiliation: Wayne State University Country: USA Publications
Research Grants
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Detail Information
Publications
A survey of small RNAs in human spermStephen A Krawetz
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, MI, USA
Hum Reprod 26:3401-12. 2011..While the cadre of spermatozoal mRNAs has been characterized, comparatively little is known about the distribution or function of the estimated 24,000 sncRNAs within each normal human spermatozoon...
K-SPMM: a database of murine spermatogenic promoters modules & motifsYi Lu
Department of Computer Science, Wayne State University, Detroit, MI 48202, USA
BMC Bioinformatics 7:238. 2006..Research has been hindered in part by an incomplete picture of the regulatory elements that are both characteristic of and distinctive to the broad population of spermatogenically expressed genes...
Reprogramming the male gamete genome: a window to successful gene therapyS A Krawetz
Department of Obstetrics and Gynecology, Wayne State University School of Medicine, Detroit, MI 48201, USA
Gene 234:1-9. 1999..It is likely that gene therapeutics capable of selectively potentiating individual genic domains in populations of differentiating and/or replicating cells that modify cellular phenotype will be developed in the next millennium...- Paternal contribution: new insights and future challengesStephen A Krawetz
Department of Obstetrics and Gynecology, Center for Molecular Medicine and Genetics, Institute for Scientific Computing, Wayne State University School of Medicine, Detroit, Michigan 48201, USA
Nat Rev Genet 6:633-42. 2005..They are also beginning to appear in the forensic sciences and, within the next decade, might appear in the environmental sciences... - [On the significance of RNA in human sperm]Stephen A Krawetz
Department of Obstetrics and Gynecology, Center for Molecular Medicine and Genetics, Institute for Scientific Computing, Wayne State University School of Medicine, 275 E Hancock, Detroit, MI 48201, USA
Zhonghua Nan Ke Xue 11:170-4. 2005..It is fully expected that a genetic fingerprint characteristic of the normal fertile spermatozoon can be identified and that deviations from this profile can be detected... - Establishing a biologic specimens repository for reproductive clinical trials: technical aspectsStephen A Krawetz
Department of Obstetrics and Gynecology, Wayne State University, Detroit, MI, USA
Syst Biol Reprod Med 57:222-7. 2011..To facilitate such interoperability, the reagents and protocols that have been adopted by the RMN Biorepository for the collection and storage of serum, blood, saliva and sperm are described... - Design and implementation of an introductory course for computer applications in molecular genetics. A case studyS A Krawetz
Department of Obstetrics and Gynecology, Wayne State University School of Medicine, 253 C S Mott Center, 275 E Hancock, Detroit, MI 48201, USA
Mol Biotechnol 17:27-41. 2001..In this review we present our experience with delivering a multidisciplinary campus-wide computational biology course to a new and widely diverse student body... - Success and failure in human spermatogenesis as revealed by teratozoospermic RNAsAdrian E Platts
Department of Obstetrics and Gynecology, Wayne State University School of Medicine, Detroit, Michigan, USA
Hum Mol Genet 16:763-73. 2007..The origin of the perturbation could be traced as far back as the pachytene stage of spermatogenesis. It is anticipated that this diagnostic strategy will prove valuable for understanding male factor infertility... - Onto-Tools, the toolkit of the modern biologist: Onto-Express, Onto-Compare, Onto-Design and Onto-TranslateSorin Draghici
Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202, USA
Nucleic Acids Res 31:3775-81. 2003..All tools above are seamlessly integrated. The Onto-Tools are available online at http://vortex.cs.wayne.edu/Projects.html... 
Computational identification of transcription frameworks of early committed spermatogenic cellsClaudia Lalancette
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, 275 East Hancock, Detroit, MI 48201, USA
Mol Genet Genomics 280:263-74. 2008..These modules were biologically assessed in the context that they represent the key transcriptional mediators in the developmental transition from the spermatogonia to spermatocyte...- A bioinformatic strategy to rapidly characterize cDNA librariesG Charles Ostermeier
Department of Obstetrics and Gynecology, Center for Molecular Medicine and Genetics, and Institute for Scientific Computing, Wayne State University, USA
Bioinformatics 18:949-52. 2002..Interestingly, a total of 2416 novel testes-expressed genes were identified. This clearly demonstrates that microarrays can be used to rapidly discover a large number of new transcripts... - Chromatin loops are selectively anchored using scaffold/matrix-attachment regionsHenry H Q Heng
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, MI 48202, USA
J Cell Sci 117:999-1008. 2004..Consequently, S/MAR anchors were necessary but not sufficient for chromatin loops to form. These observations reconcile many seemingly contradictory attributes previously associated with S/MARs... - Global functional profiling of gene expressionSorin Draghici
Department of Computer Science, Wayne State University, 5143 Cass Avenue, Detroit, MI 48202, USA
Genomics 81:98-104. 2003..OE was able to identify correctly all biological processes postulated by the original authors, as well as discover novel relevant mechanisms... - Nuclear matrix interactions at the human protamine domain: a working model of potentiationRui Pires Martins
Center for Molecular Medicine and Genetics, Wayne State University, School of Medicine, Detroit, Michigan 4820, USA
J Biol Chem 279:51862-8. 2004..Thus, the MARs bounding the PRM1 --> PRM2 --> TNP2 protamine domain have many and varied functions... - In-silico prediction and observations of nuclear matrix attachmentAdrian E Platts
Department of Obstetrics and Gynecology, University School of Medicine, Detroit, MI 48201, USA
Cell Mol Biol Lett 11:191-213. 2006..Nuclear matrix binding may well be more complex than the widely accepted simple loop model... - Decondensing the protamine domain for transcriptionRui Pires Martins
Center for Molecular Medicine and Genetics, School of Medicine and Institute for Scientific Computing, Wayne State University, Detroit, MI 48201, USA
Proc Natl Acad Sci U S A 104:8340-5. 2007..This has provided a likely model of the events initiating potentiation, i.e., the opening of a chromatin domain... - Reproductive biology: delivering spermatozoan RNA to the oocyteG Charles Ostermeier
Department of Obstetrics and Gynecology, Wayne State University, Detroit, Michigan 48201, USA
Nature 429:154. 2004.... - Comparative evaluation of microarray analysis softwareDaniel K Liu
WSU-MCBI Bioinformatics Node, Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, MI 48201, USA
Mol Biotechnol 26:225-32. 2004..We then conclude with a discussion of the subset of tools that are most commonly used and describe the features that would constitute the "ideal microarray analysis software suite.".. - The structural organization of sperm chromatinSusan M Wykes
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, Michigan 48201, USA
J Biol Chem 278:29471-7. 2003..A discussion of these results and their functional significance is presented... - Spermatozoal RNA profiles of normal fertile menG Charles Ostermeier
Department of Obstetrics and Gynecology, Center for Molecular Medicine and Genetics, and Institute for Scientific Computing, Wayne State University, Detroit, MI, USA
Lancet 360:772-7. 2002..Ejaculate spermatozoa can now be used as a non-invasive proxy for investigations of testis-specific infertility... - Tracking chromatin states using controlled DNase I treatment and real-time PCRRui Pires Martins
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, Michigan, USA
Cell Mol Biol Lett 12:545-55. 2007..The utility of this assay and analytical paradigm as applied to nuclease-sensitivity mapping is presented... - Silencing by nuclear matrix attachment distinguishes cell-type specificity: association with increased proliferation capacityAmelia K Linnemann
Department of Obstetrics and Gynecology, The Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, MI 48201, USA
Nucleic Acids Res 37:2779-88. 2009.... - The KLAB Toolbox: a suite of in-house software applications for epigenetic analysisLaura Naismith
Department of Obstetrics and Gynecology, Wayne State University School of Medicine, Detroit, Michigan, USA
Syst Biol Reprod Med 54:97-108. 2008..Using the protamine cluster as an example, we present a series of in-house applications that we have developed to integrate, contextualize and visualize datasets across multiple hierarchies... - Separation of spermatogenic cells from adult transgenic mouse testes using unit-gravity sedimentationSusan M Wykes
Department of Obstetrics and Gynecology, Center for Molecular Medicine and Genetics, and Institute for Scientific Computing, Wayne State University, C.S. Mott Center, 275 E. Hancock, Detroit, MI 48201, USA
Mol Biotechnol 25:131-8. 2003..A discussion of the CELSEP apparatus and the application of this methodology in our laboratory are presented... - Profiling gene expression using onto-expressPurvesh Khatri
Department of Computer Science, Wayne State University School of Medicine, Detroit, MI, 48201, USA
Genomics 79:266-70. 2002..The profiles created by Onto-Express fundamentally increase the value of gene expression analyses by facilitating the translation of quantitative value sets to records that contain biological implications... - Paternal contributions: new functional insights for spermatozoal RNAClaudia Lalancette
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, Michigan, USA
J Cell Biochem 104:1570-9. 2008..This review presents and discusses the functional significance of spermatozoal RNA in relation to some recent advances in the field... - The preparation of human spermatozoal RNA for clinical analysisRobert Goodrich
Wayne State University School of Medicine, Department of Obstetrics and Gynecology, Center for Molecular Medicine and Genetics, Institute for Scientific Computing, Detroit, MI 48201, USA
Arch Androl 53:161-7. 2007..The reliable and consistent isolation of high-quality RNA from mature spermatozoa will aid in the development of new tools for the clinical assessment of male-factor fertility... - Identification, molecular characterization, and tissue expression of OVCOV1Richard E Leach
Department of Obstetrics and Gynecology, Wayne State University School of Medicine, Detroit, Michigan, USA
Mamm Genome 13:619-24. 2002..This gene is expressed in many tissues including those found in the reproductive tract. Its expression is regulated by oxygen tension and is unaffected by estradiol or progesterone treatment... - Characterization of nucleohistone and nucleoprotamine components in the mature human sperm nucleusYan Li
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Wayne, MI 48201, USA
Asian J Androl 10:535-41. 2008..To simultaneously determine the localization of histones and protamines within human sperm nuclei... - Identification of human sperm transcripts as candidate markers of male fertilityClaudia Lalancette
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, MI, USA
J Mol Med (Berl) 87:735-48. 2009..The presence of pairs of stable transcripts suggests that among the heterogeneity observed in the sperm transcriptome, a distinct set is strictly regulated... - Disease progression and solid tumor survival: a transcriptome decoherence modelAdrian E Platts
The Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, MI 48201, USA
Mol Cell Probes 24:53-60. 2010.... - Hu/Mu ProtIn oligonucleotide microarray: dual-species array for profiling protease and protease inhibitor gene expression in tumors and their microenvironmentDonald R Schwartz
Barbara Ann Karmanos Cancer Institute, Wayne State University, Detroit, Michigan, USA
Mol Cancer Res 5:443-54. 2007.... - Nuclear matrix association of the human beta-globin locus utilizing a novel approach to quantitative real-time PCRG Charles Ostermeier
Department of Obstetrics and Gynecology, Center for Molecular Medicine and Genetics, Wayne State University, Detroit, MI, USA
Nucleic Acids Res 31:3257-66. 2003..These results provide the first evidence that nuclear matrix association dynamically mediates the looping of the beta-globin locus to achieve transcriptional control... - A suite of novel human spermatozoal RNAsG Charles Ostermeier
Charlotte B. Failing Professor of Fetal Therapy and Diagnosis, 253 C.S. Mott Center, 275 East Hancock, Detroit, MI 48201, USA
J Androl 26:70-4. 2005..The results and implications of this study are described in this communication... - Diagnosing male factor infertility using microarraysJulie S Moldenhauer
Department of Obstetrics and Gynecology, Center for Molecular Medicine, Institute for Scientific Computing, Wayne State University, Detroit, Michigan, USA
J Androl 24:783-9. 2003 - Differential nuclear scaffold/matrix attachment marks expressed genesAmelia K Linnemann
The Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, C S Mott Center, Detroit, MI48201, USA
Hum Mol Genet 18:645-54. 2009..The varied functions of the S/MARs as revealed by the different extraction methods highlights their unique functional contribution... - Toward using stable spermatozoal RNAs for prognostic assessment of male factor fertilityG Charles Ostermeier
Department of Obstetrics and Gynecology, Wayne State University, Detroit, Michigan, USA
Fertil Steril 83:1687-94. 2005..Because spermatozoal RNAs echo the gene expression of spermatogenesis, the latter is likely to prove useful as a clinical maker of fertility status... - LARaLink 2.0: a comprehensive aid to basic and clinical cytogenetic researchAdrian E Platts
Bioinformatics, Applied Genomics Technology Center, Wayne State University, Detroit, MI 48201, USA
Genet Test 9:334-41. 2005..Unlimited access for researchers exploring disease-gene relationships and for clinicians extending practice in patient care is available at LARaLink.bioinformatics.wayne.edu:8080/ unigene... - Multitasking with molecular dynamics Typhoon: quantifying nucleic acids and autoradiographsRobert J Goodrich
Department of Obstetrics and Gynecology, Wayne State University, Detroit, MI 48201, USA
Biotechnol Lett 25:1061-5. 2003..In addition, with a few simple modifications, autoradiographic film images can be scanned and quantified with the Typhoon series of scanners... - Conservation of the PRM1 --> PRM2 --> TNP2 domainSusan M Wykes
Department of Obstetrics and Gynecology, Center for Molecular Medicine and Genetics, Institute for Scientific Computing, Wayne State University, C.S. Mott Center, 275 E. Hancock, Detroit, MI 48201, USA
DNA Seq 14:359-67. 2003..This further establishes the synteny of this region. Global structural similarities and the functional relevance of the associated candidate regulatory elements are discussed... - In silico and wet-bench identification of nuclear matrix attachment regionsStephen A Krawetz
Department of Obstetrics and Gynecology, Center for Molecular Medicine and Genetics, Wayne State University, Detroit, MI, USA
Methods Mol Med 108:439-58. 2005..In this chapter we review some of the in silico strategies that are currently available and a new in vivo method based on the real-time polymerase chain reaction, to assess regions of matrix association... - RNA in human spermRui Pires Martins
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, 275 E. Hancock, Detroit, MI 48201, USA
Asian J Androl 7:115-20. 2005..It remains tempting to analogize them to maternally-derived transcripts active in early embryo patterning. Irrespective of their role in the embryo, their use as a means to assess male factor infertility is promising... - Real-time PCR quantification using a variable reaction efficiency modelAdrian E Platts
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, MI 48201, USA
Anal Biochem 380:315-22. 2008..Using a series of biological scenarios, we demonstrate that this approach can provide an accurate estimate of initial template concentration... - X-chromosome inactivation during spermatogenesis is regulated by an Xist/Tsix-independent mechanism in the mouseJohn R McCarrey
Department of Biology, University of Texas at San Antonio, San Antonio, Texas 78249, USA
Genesis 34:257-66. 2002.... - The controversy, potential and roles of spermatozoal RNADavid Miller
Reproduction and Early Development Group, University of Leeds, Department of Obstetrics and Gynaecology, Level D, Clarendon Wing, Leeds General Infirmary, Belmont Grove, Leeds, LS2 9NS, UK
Trends Mol Med 11:156-63. 2005.... - A pilot study associating urinary concentrations of phthalate metabolites and semen qualityJulia J Wirth
Department of Epidemiology, Michigan State University, East Lansing, Michigan, USA
Syst Biol Reprod Med 54:143-54. 2008..4, 95% CI: 0.9-13.8) were also found. A significant trend was observed for tertiles of MEP and low sperm concentration (p=0.05). Results suggest that ambient phthalate metabolite concentrations may adversely affect human semen quality...
Research Grants
- GENETIC MECHANISMS THAT POTENTIATE HUMAN SPERMATOGENESISSTEPHEN KRAWETZ; Fiscal Year: 2002..Successful completion will directly test the hypothesis that spermatogenesis is controlled by a non-repressive selective potentiative mechanism while providing the foundation to isolate these potentiative factors. ..
- GENETIC MECHANISMS THAT POTENTIATE HUMAN SPERMATOGENESISSTEPHEN KRAWETZ; Fiscal Year: 2009..This milestone provides the foundation to isolate and functionally characterize the associated agents that open chromatin domains. ..