Publications - Publications 2016

Dubovoy T, Housey M, Devine S, Kheterpal S

Observational study on patterns of neuromuscular blockade reversal, BMC anesthesiology. 2016 Oct 23

Yu G, Phillips S, Gail MH, Goedert JJ, Humphrys M, Ravel J, Ren Y, Caporaso NE

Evaluation of buccal cell samples for studies of oral microbiota, Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology. 2016 Oct 22

Silva JC, Cornillot E, McCracken C, Usmani-Brown S, Dwivedi A, Ifeonu OO, Crabtree J, Gotia HT, Virji AZ, Reynes C, Colinge J, Kumar V, Lawres L, Pazzi JE, Pablo JV, Hung C, Brancato J, Kumari P, Orvis J, Tretina K, Chibucos M, Ott S, Sadzewicz L, Sengamalay N, Shetty AC, Su Q, Tallon L, Fraser CM, Frutos R, Molina DM, Krause PJ, Ben Mamoun C

Genome-wide diversity and gene expression profiling of Babesia microti isolates identify polymorphic genes that mediate host-pathogen interactions, Scientific reports. 2016 Oct 18

Fan X, Alekseyenko AV, Wu J, Peters BA, Jacobs EJ, Gapstur SM, Purdue MP, Abnet CC, Stolzenberg-Solomon R, Miller G, Ravel J, Hayes RB, Ahn J

Human oral microbiome and prospective risk for pancreatic cancer: a population-based nested case-control study, Gut. 2016 Oct 15

Pressler SJ, Harrison JM, Titler M, Koelling TM, Jung M, Dorsey SG, Bakoyannis G, Riley PL, Hoyland-Domenico L, Giordani B

APOE ε4 and Memory Among Patients With Heart Failure, Western journal of nursing research. 2016 Oct 13

Mathias RA, Taub MA, Gignoux CR, Fu W, Musharoff S, O'Connor TD, Vergara C, Torgerson DG, Pino-Yanes M, Shringarpure SS, Huang L, Rafaels N, Boorgula MP, Johnston HR, Ortega VE, Levin AM, Song W, Torres R, Padhukasahasram B, Eng C, Mejia-Mejia DA, Ferguson T, Qin ZS, Scott AF, Yazdanbakhsh M, Wilson JG, Marrugo J, Lange LA, Kumar R, Avila PC, Williams LK, Watson H, Ware LB, Olopade C, Olopade O, Oliveira R, Ober C, Nicolae DL, Meyers D, Mayorga A, Knight-Madden J, Hartert T, Hansel NN, Foreman MG, Ford JG, Faruque MU, Dunston GM, Caraballo L, Burchard EG, Bleecker E, Araujo MI, Herrera-Paz EF, Gietzen K, Grus WE, Bamshad M, Bustamante CD, Kenny EE, Hernandez RD, Beaty TH, Ruczinski I, Akey J, , Barnes KC

A continuum of admixture in the Western Hemisphere revealed by the African Diaspora genome, Nature communications. 2016 Oct 11

Kessler MD, Yerges-Armstrong L, Taub MA, Shetty AC, Maloney K, Jeng LJ, Ruczinski I, Levin AM, Williams LK, Beaty TH, Mathias RA, Barnes KC, , O'Connor TD

Challenges and disparities in the application of personalized genomic medicine to populations with African ancestry, Nature communications. 2016 Oct 11

Nathan M, Jacobs ML, Gaynor JW, Newburger JW, Dunbar Masterson C, Lambert LM, Hollenbeck-Pringle D, Trachtenberg FL, White O, Anderson BR, Bell MC, Burch PT, Graham EM, Kaltman JR, Kanter KR, Mery CM, Pizarro C, Schamberger MS, Taylor MD, Jacobs JP, Pasquali SK,

Completeness and Accuracy of Local Clinical Registry Data for Children Undergoing Heart Surgery, The Annals of thoracic surgery. 2016 Oct 11

Kumar N, Lin M, Zhao X, Ott S, Santana-Cruz I, Daugherty S, Rikihisa Y, Sadzewicz L, Tallon LJ, Fraser CM, Dunning Hotopp JC

Efficient Enrichment of Bacterial mRNA from Host-Bacteria Total RNA Samples, Scientific reports. 2016 Oct 07

Ye K, Wang S, Wang J, Han H, Ma B, Yang Y

Zebularine enhances apoptosis of human osteosarcoma cells by suppressing methylation of ARHI, Cancer science. 2016 Sep 29

Kim HJ, Yang GS, Greenspan JD, Downton KD, Griffith KA, Renn CL, Johantgen M, Dorsey SG

Racial and ethnic differences in experimental pain sensitivity: Systematic review and meta-analysis, Pain. 2016 Sep 24

Clegg BW, O'Connor TG

Harvesting and chewing as constraints to forage consumption by the African savanna elephant (Loxodonta africana), PeerJ. 2016 Sep 22

Faherty CS, Wu T, Morris CR, Grassel CL, Rasko DA, Harper JM, Shea-Donohue T, Fasano A, Barry EM

The Synthesis of OspD3 (ShET2) in Shigella flexneri is Independent of OspC1, Gut microbes. 2016 Sep 22

Bradford LL, Ravel J

The vaginal mycobiome: a poorly understood contributor to women's health and diseases, Virulence. 2016 Sep 22

Ma B, Guan PY, Li QY, Zhang M, Zang SQ

MOF-derived Flower-like MoS2@TiO2 Nanohybrids with Enhanced Activity for Hydrogen Evolution, ACS applied materials & interfaces. 2016 Sep 21

Cannon MV, Pilarowski G, Liu X, Serre D

Extensive Epigenetic Changes Accompany Terminal Differentiation of Mouse Hepatocytes After Birth, G3 (Bethesda, Md.). 2016 Sep 21

Kenyon CR, Buyze J, Klebanoff M, Brotman RM

Association between bacterial vaginosis and partner concurrency: a longitudinal study, Sexually transmitted infections. 2016 Sep 19

Lee CM, He CH, Nour AM, Zhou Y, Ma B, Park JW, Kim KH, Cruz CD, Sharma L, Nasr ML, Modis Y, Lee CG, Elias JA

IL-13Rα2 uses TMEM219 in chitinase 3-like-1-induced signalling and effector responses, Nature communications. 2016 Sep 15

Van Lent S, De Vos WH, Huot Creasy H, Marques PX, Ravel J, Vanrompay D, Bavoil P, Hsia RC

Analysis of Polymorphic Membrane Protein Expression in Cultured Cells Identifies PmpA and PmpH of Chlamydia psittaci as Candidate Factors in Pathogenesis and Immunity to Infection, PloS one. 2016 Sep 15

Wu G, Xiao Y, Wang C, Hong X, Sun Y, Ma B, Wang G, Xia Z

Risk Factors for Acute Kidney Injury in Patients With Burn Injury: A Meta-Analysis and Systematic Review, Journal of burn care & research : official publication of the American Burn Association. 2016 Sep 09

Fan X, Gao Y, Ma B, Xia Z

Chinese academic contribution to burns: A comprehensive bibliometrics analysis from 1985 to 2014, Burns : journal of the International Society for Burn Injuries. 2016 Sep 05

Lozano GL, Holt J, Ravel J, Rasko DA, Thomas MG, Handelsman J

Draft Genome Sequence of Biocontrol Agent Bacillus cereus UW85, Genome announcements. 2016 Sep 01

Resnick B, Galik E, Wells CL, Boltz M, Renn CL, Dorsey SG

The Impact of Pain Management with Opioids among Older Adults Post Orthopedic Trauma, Pain management nursing : official journal of the American Society of Pain Management Nurses. 2016 Aug 23

Dennison NJ, Saraiva RG, Cirimotich CM, Mlambo G, Mongodin EF, Dimopoulos G

Functional genomic analyses of Enterobacter, Anopheles and Plasmodium reciprocal interactions that impact vector competence, Malaria journal. 2016 Aug 22

Ifeonu OO, Chibucos M, Orvis J, Su Q, Elwin K, Guo F, Zhang H, Xiao L, Sun M, Chalmers RM, Fraser CM, Zhu G, Kissinger JC, Widmer G, Silva JC

Annotated draft genome sequences of three species of Cryptosporidium: C. meleagridis isolate UKMEL1, C. baileyi isolate TAMU-09Q1, and C. hominis isolates TU502_2012 and UKH1, Pathogens and disease. 2016 Aug 12

Reimers LL, Mehta SD, Massad LS, Burk RD, Xie X, Ravel J, Cohen MH, Palefsky JM, Weber K, Xue X, Anastos K, Minkoff H, Atrio J, D'Souza G, Ye Q, Colie C, Zolnik CP, Spear GT, Strickler HD

The Cervicovaginal Microbiota and Its Associations with Human Papillomavirus (HPV) Detection in HIV-Infected and HIV-Uninfected Women, The Journal of infectious diseases. 2016 Aug 11

Ravel J, Wommack E

Reviewer acknowledgement 2015, Microbiome. 2016 Aug 09

Moore SM, Schiffman R, Waldrop-Valverde D, Redeker NS, McCloskey DJ, Kim MT, Heitkemper MM, Guthrie BJ, Dorsey SG, Docherty SL, Barton D, Bailey DE, Austin JK, Grady P

Recommendations of Common Data Elements to Advance the Science of Self-Management of Chronic Conditions, Journal of nursing scholarship : an official publication of Sigma Theta Tau International Honor Society of Nursing / Sigma Theta Tau. 2016 Aug 03

Sistrunk JR, Nickerson KP, Chanin RB, Rasko DA, Faherty CS

Survival of the Fittest: How Bacterial Pathogens Utilize Bile To Enhance Infection, Clinical microbiology reviews. 2016 Jul 28

Yu G, Gail MH, Consonni D, Carugno M, Humphrys M, Pesatori AC, Caporaso NE, Goedert JJ, Ravel J, Landi MT

Characterizing human lung tissue microbiota and its relationship to epidemiological and clinical features, Genome biology. 2016 Jul 28

Wallace L, Daugherty SC, Nagaraj S, Johnson JK, Harris AD, Rasko DA

The use of comparative genomics to characterize the diversity of Acinetobacter baumannii surveillance isolates in a health care institution, Antimicrobial agents and chemotherapy. 2016 Jul 25

Auburn S, Serre D, Pearson R, Amato R, Sriprawat K, To S, Handayuni I, Suwanarusk R, Russell B, Drury E, Stalker J, Miotto O, Kwiatkowski D, Nosten F, Price R

Genomic analysis reveals a common breakpoint in amplifications of the Plasmodium vivax multidrug resistance 1 locus in Thailand, The Journal of infectious diseases. 2016 Jul 24

Chibucos MC, Soliman S, Gebremariam T, Lee H, Daugherty S, Orvis J, Shetty AC, Crabtree J, Hazen TH, Etienne KA, Kumari P, O'Connor TD, Rasko DA, Filler SG, Fraser CM, Lockhart SR, Skory CD, Ibrahim AS, Bruno VM

An integrated genomic and transcriptomic survey of mucormycosis-causing fungi, Nature communications. 2016 Jul 22

Bradley BJ, Snowdon CT, McGrew WC, Lawler RR, Guevara EE, McIntosh A, O'Connor T

Non-human primates avoid the detrimental effects of prenatal androgen exposure in mixed-sex litters: combined demographic, behavioral, and genetic analyses, American journal of primatology. 2016 Jul 19

Allison DL, Willems HM, Jayatilake JA, Bruno VM, Peters BM, Shirtliff ME

Candida-Bacteria Interactions: Their Impact on Human Disease, Microbiology spectrum. 2016 Jun 24

Yang GS, Kim HJ, Griffith KA, Zhu S, Dorsey SG, Renn CL

Interventions for the Treatment of Aromatase Inhibitor-Associated Arthralgia in Breast Cancer Survivors: A Systematic Review and Meta-analysis, Cancer nursing. 2016 Jun 21

Resnick B, Klinedinst NJ, Yerges-Armstrong L, Magaziner J, Orwig D, Hochberg MC, Gruber-Baldini AL, Hicks GE, Dorsey SG

Pain, Genes, and Function in the Post-Hip Fracture Period, Pain management nursing : official journal of the American Society of Pain Management Nurses. 2016 Jun 10

Salomonis N, Dexheimer PJ, Omberg L, Schroll R, Bush S, Huo J, Schriml L, Ho Sui S, Keddache M, Mayhew C, Shanmukhappa SK, Wells J, Daily K, Hubler S, Wang Y, Zambidis E, Margolin A, Hide W, Hatzopoulos AK, Malik P, Cancelas JA, Aronow BJ, Lutzko C

Integrated Genomic Analysis of Diverse Induced Pluripotent Stem Cells from the Progenitor Cell Biology Consortium, Stem cell reports. 2016 Jun 09

Hazen TH, Leonard SR, Lampel KA, Lacher DW, Maurelli AT, Rasko DA

Investigating the relatedness of enteroinvasive Escherichia coli to other E. coli and Shigella using comparative genomics, Infection and immunity. 2016 Jun 06

Ma B, Herzog EL, Moore M, Lee CM, Na SH, Lee CG, Elias JA

RIG-like Helicase Regulation of Chitinase 3-like 1 Axis and Pulmonary Metastasis, Scientific reports. 2016 May 20

Han Z, Hao X, Ma B, Zhu C

A series of pyrido[2,3-b]pyrazin-3(4H)-one derivatives as aldose reductase inhibitors with antioxidant activity, European journal of medicinal chemistry. 2016 May 20

Neuwald AF, Altschul SF

Bayesian Top-Down Protein Sequence Alignment with Inferred Position-Specific Gap Penalties, PLoS computational biology. 2016 May 18

Neuwald AF

Gleaning structural and functional information from correlations in protein multiple sequence alignments, Current opinion in structural biology. 2016 May 11

Scott EC, Gardner EJ, Masood A, Chuang NT, Vertino PM, Devine SE

A hot L1 retrotransposon evades somatic repression and initiates human colorectal cancer, Genome research. 2016 May 10

Chih-Hui Tien M, Ramachandran P, White OB, Lee AG

Not all Headaches are Migraines, Survey of ophthalmology. 2016 May 09

Zhu S, Zhang S, Hao X, Qin X, Parveen S, Yang S, Ma B, Zhu C

Pyridothiadiazine derivatives as aldose reductase inhibitors having antioxidant activity, Journal of enzyme inhibition and medicinal chemistry. 2016 May 06

Leonard SR, Mammel MK, Rasko DA, Lacher DW

Hybrid Shiga Toxin-producing and Enterotoxigenic Escherichia species Cryptic Lineage 1 Strain 7v Harbors a Hybrid Plasmid, Applied and environmental microbiology. 2016 May 06

Hertz DL, Owzar K, Lessans S, Wing C, Jiang C, Kelly WK, Patel JN, Halabi S, Furukawa Y, Wheeler HE, Sibley A, Lassiter C, Weisman LS, Watson D, Krens SD, Mulkey F, Renn CL, Small EJ, Febbo PG, Shterev I, Kroetz D, Friedman PN, Mahoney JF, Carducci MA, Kelley MJ, Nakamura Y, Kubo M, Dorsey SG, Dolan ME, Morris MJ, Ratain MJ, McLeod HL

Pharmacogenetic Discovery in CALGB (Alliance) 90401 and Mechanistic Validation of a VAC14 Polymorphism That Increases Risk of Docetaxel-Induced Neuropathy, Clinical cancer research : an official journal of the American Association for Cancer Research. 2016 May 03

Bandrowski A, Brinkman R, Brochhausen M, Brush MH, Bug B, Chibucos MC, Clancy K, Courtot M, Derom D, Dumontier M, Fan L, Fostel J, Fragoso G, Gibson F, Gonzalez-Beltran A, Haendel MA, He Y, Heiskanen M, Hernandez-Boussard T, Jensen M, Lin Y, Lister AL, Lord P, Malone J, Manduchi E, McGee M, Morrison N, Overton JA, Parkinson H, Peters B, Rocca-Serra P, Ruttenberg A, Sansone SA, Scheuermann RH, Schober D, Smith B, Soldatova LN, Stoeckert CJ, Taylor CF, Torniai C, Turner JA, Vita R, Whetzel PL, Zheng J

The Ontology for Biomedical Investigations, PloS one. 2016 Apr 29

Kılıç S, Sagitova DM, Wolfish S, Bely B, Courtot M, Ciufo S, Tatusova T, O'Donovan C, Chibucos MC, Martin MJ, Erill I

From data repositories to submission portals: rethinking the role of domain-specific databases in CollecTF, Database : the journal of biological databases and curation. 2016 Apr 25

Fleckenstein JM, Rasko DA

Overcoming Enterotoxigenic Escherichia coli Pathogen Diversity: Translational Molecular Approaches to Inform Vaccine Design, Methods in molecular biology (Clifton, N.J.). 2016 Apr 14

Robinson CK, Brotman RM, Ravel J

Intricacies of assessing the human microbiome in epidemiologic studies, Annals of epidemiology. 2016 Apr 12

Kania DA, Hazen TH, Hossain A, Nataro JP, Rasko DA

Genome diversity of Shigella boydii, Pathogens and disease. 2016 Apr 06

Ravel J, Brotman RM

Translating the vaginal microbiome: gaps and challenges, Genome medicine. 2016 Apr 01

Friedrich LR, Popovici J, Kim S, Dysoley L, Zimmerman PA, Menard D, Serre D

Complexity of Infection and Genetic Diversity in Cambodian Plasmodium vivax, PLoS neglected tropical diseases. 2016 Mar 28

Burgstaller-Muehlbacher S, Waagmeester A, Mitraka E, Turner J, Putman T, Leong J, Naik C, Pavlidis P, Schriml L, Good BM, Su AI

Wikidata as a semantic framework for the Gene Wiki initiative, Database : the journal of biological databases and curation. 2016 Mar 17

Choi SY, Rashed SM, Hasan NA, Alam M, Islam T, Sadique A, Johura FT, Eppinger M, Ravel J, Huq A, Cravioto A, Colwell RR

Phylogenetic Diversity of Vibrio cholerae Associated with Endemic Cholera in Mexico from 1991 to 2008, mBio. 2016 Mar 15

Small ST, Reimer LJ, Tisch DJ, King CL, Christensen BM, Siba PM, Kazura JW, Serre D, Zimmerman PA

Population genomics of the filarial nematode parasite Wuchereria bancrofti from mosquitoes, Molecular ecology. 2016 Mar 15

Beharry AA, Lacoste S, O'Connor TR, Kool ET

Fluorescence Monitoring of the Oxidative Repair of DNA Alkylation Damage by ALKBH3, a Prostate Cancer Marker, Journal of the American Chemical Society. 2016 Mar 11

Logue K, Keven JB, Cannon MV, Reimer L, Siba P, Walker ED, Zimmerman PA, Serre D

Unbiased Characterization of Anopheles Mosquito Blood Meals by Targeted High-Throughput Sequencing, PLoS neglected tropical diseases. 2016 Mar 10

Crits-Christoph A, Robinson CK, Ma B, Ravel J, Wierzchos J, Ascaso C, Artieda O, Souza-Egipsy V, Casero MC, DiRuggiero J

Phylogenetic and Functional Substrate Specificity for Endolithic Microbial Communities in Hyper-Arid Environments, Frontiers in microbiology. 2016 Mar 09

Smith SB, Ravel J

The vaginal microbiota, host defence and reproductive physiology, The Journal of physiology. 2016 Mar 08

You C, Wang P, Nay SL, Wang J, Dai X, O'Connor TR, Wang Y

Roles of Aag, Alkbh2, and Alkbh3 in the Repair of Carboxymethylated and Ethylated Thymidine Lesions, ACS chemical biology. 2016 Mar 04

Zhang Y, Ma B, Huang XT, Li YS, Wang Y, Liu ZL

Doublet Versus Single Agent as Second-Line Treatment for Advanced Gastric Cancer: A Meta-Analysis of 10 Randomized Controlled Trials, Medicine. 2016 Mar 04

Hertzano R, Teplitzky TB, Eisenman DJ

Clinical Evaluation of Tinnitus, Neuroimaging clinics of North America. 2016 Feb 28

Crits-Christoph A, Gelsinger DR, Ma B, Wierzchos J, Ravel J, Davila A, Casero MC, DiRuggiero J

Functional interactions of archaea, bacteria, and viruses in a hypersaline endolithic community, Environmental microbiology. 2016 Feb 23

Lei KE, Wang L, Ma B, Shi P, Li L, Che T, He X

Effect of an EDA-A1 gene mutant on the proliferation and cell cycle distribution of cultured human umbilical vein endothelial cells, Experimental and therapeutic medicine. 2016 Feb 19

Lee MJ, Drake TM, Malik TA, O'Connor T, Chebbout R, Daoub A, Wild JR

Has the Bachelor of Surgery Left Medical School?-A National Undergraduate Assessment, Journal of surgical education. 2016 Feb 18

Starkweather AR, Lyon DE, Kinser P, Heineman A, Sturgill JL, Deng X, Siangphoe U, Elswick RK, Greenspan J, Dorsey SG

Comparison of Low Back Pain Recovery and Persistence: A Descriptive Study of Characteristics at Pain Onset, Biological research for nursing. 2016 Feb 16

Gulia-Nuss M, Nuss AB, Meyer JM, Sonenshine DE, Roe RM, Waterhouse RM, Sattelle DB, de la Fuente J, Ribeiro JM, Megy K, Thimmapuram J, Miller JR, Walenz BP, Koren S, Hostetler JB, Thiagarajan M, Joardar VS, Hannick LI, Bidwell S, Hammond MP, Young S, Zeng Q, Abrudan JL, Almeida FC, AyllAn N, Bhide K, Bissinger BW, Bonzon-Kulichenko E, Buckingham SD, Caffrey DR, Caimano MJ, Croset V, Driscoll T, Gilbert D, Gillespie JJ, Giraldo-Calderon GI, Grabowski JM, Jiang D, Khalil SM, Kim D, Kocan KM, Koa i J, Kuhn RJ, Kurtti TJ, Lees K, Lang EG, Kennedy RC, Kwon H, Perera R, Qi Y, Radolf JD, Sakamoto JM, Sanchez-Gracia A, Severo MS, Silverman N, Šimo L, Tojo M, Tornador C, Van Zee JP, Vázquez J, Vieira FG, Villar M, Wespiser AR, Yang Y, Zhu J, Arensburger P, Pietrantonio PV, Barker SC, Shao R, Zdobnov EM, Hauser F, Grimmelikhuijzen CJ, Park Y, Rozas J, Benton R, Pedra JH, Nelson DR, Unger MF, Tubio JM, Tu Z, Robertson HM, Shumway M, Sutton G, Wortman JR, Lawson D, Wikel SK, Nene VM, Fraser CM, Collins FH, Birren B, Nelson KE, Caler E, Hill CA

Genomic insights into the Ixodes scapularis tick vector of Lyme disease, Nature communications. 2016 Feb 09

Starkweather AR, Heineman A, Storey S, Rubia G, Lyon DE, Greenspan J, Dorsey SG

Methods to measure peripheral and central sensitization using quantitative sensory testing: A focus on individuals with low back pain, Applied nursing research : ANR. 2016 Feb 09

Wu J, Zhao Z, Zhu X, Renn CL, Dorsey SG, Faden AI

Cell cycle inhibition limits development and maintenance of neuropathic pain following spinal cord injury, Pain. 2016 Jan 22

Hazen TH, Donnenberg MS, Panchalingam S, Antonio M, Hossain A, Mandomando I, Ochieng JB, Ramamurthy T, Tamboura B, Qureshi S, Quadri F, Zaidi A, Kotloff KL, Levine MM, Barry EM, Kaper JB, Rasko DA, Nataro JP

Genomic diversity of EPEC associated with clinical presentations of differing severity, Nature microbiology. 2016 Jan 18

Shin CH, Zaremba S, Devine S, Nikolov M, Kurth T, Eikermann M

Effects of obstructive sleep apnoea risk on postoperative respiratory complications: protocol for a hospital-based registry study, BMJ open. 2016 Jan 13

Oruganty K, Talevich EE, Neuwald AF, Kannan N

Identification and classification of small molecule kinases: insights into substrate recognition and specificity, BMC evolutionary biology. 2016 Jan 06

Starkweather AR, Ramesh D, Lyon DE, Siangphorn U, Deng X, Sturgill J, Heineman A, Elswick RK, Dorsey SG, Greenspan J

Acute Low Back Pain: Differential Somatosensory Function and Gene Expression Compared to Healthy No-pain Controls, The Clinical journal of pain. 2016 Jan 05

Fargen KM, O'Connor T, Rivera-Zengotita ML, Murad GJ

A radiographic analysis following the proximal irrigation of occluded external ventricular drains: a cautionary note, Acta neurochirurgica. 2016 Jan 04