August 2004

Selected Bibliography and Abstracts



Burgos M, DeRiemer K, Small PM, Hopewell PC, Daley CL.
J Infect Dis. 2004 Aug 1;190(3):650-1. No abstract available.

Goguet de la Salmoniere YO, Kim CC, Tsolaki AG, Pym AS, Siegrist MS, Small PM.
High-throughput method for detecting genomic-deletion polymorphisms.
J Clin Microbiol. 2004 Jul;42(7):2913-8.

Ponce-De-Leon A, Garcia-Garcia Md Mde L, Garcia-Sancho MC, Gomez-Perez FJ, Valdespino-Gomez JL, Olaiz-Fernandez G, Rojas R, Ferreyra-Reyes L, Cano-Arellano B, Bobadilla M, Small PM, Sifuentes-Osornio J.
Tuberculosis and diabetes in southern Mexico.
Diabetes Care. 2004 Jul;27(7):1584-90.

Hirsh AE, Tsolaki AG, DeRiemer K, Feldman MW, Small PM.
Stable association between strains of Mycobacterium tuberculosis and their human host populations.
Proc Natl Acad Sci U S A. 2004 Apr 6;101(14):4871-6. Epub 2004 Mar 23.

Tsolaki AG, Hirsh AE, DeRiemer K, Enciso JA, Wong MZ, Hannan M, Goguet de la Salmoniere YO, Aman K, Kato-Maeda M, Small PM.
Functional and evolutionary genomics of Mycobacterium tuberculosis: insights from genomic deletions in 100 strains.
Proc Natl Acad Sci U S A. 2004 Apr 6;101(14):4865-70. Epub 2004 Mar 15.

de Jong BC, Israelski DM, Corbett EL, Small PM.
Clinical management of tuberculosis in the context of HIV infection.
Annu Rev Med. 2004;55:283-301. Review.


 Burgos M, DeRiemer K, Small PM, Hopewell PC, Daley CL.

Effect of drug resistance on the generation of secondary cases of tuberculosis.
J Infect Dis. 2003 Dec 15; 188(12): 1878-84. Epub 2003 Dec 09.

 Mostowy S, Tsolaki AG, Small PM, Behr MA.

The in vitro evolution of BCG vaccines.
Vaccine. 2003 Oct 1; 21(27-30): 4270-4.

 Banaiee N, Bobadilla-del-Valle M, Riska PF, Bardarov S Jr, Small PM, Ponce-de-Leon A, Jacobs WR Jr, Hatfull GF, Sifuentes-Osornio J.

Rapid identification and susceptibility testing of Mycobacterium tuberculosis from MGIT cultures with luciferase reporter mycobacteriophages.
J Med Microbiol. 2003 Jul; 52(Pt 7): 557-61.

 Vyas RM, Small PM, DeRiemer K.

The private-public divide: impact of conflicting perceptions between the private and public health care sectors in India.
Int J Tuberc Lung Dis. 2003 Jun; 7(6): 543-9.


 Kivi M, Liu X, Raychaudhuri S, Altman RB, Small PM.

Determining the Genomic Locations of Repetitive DNA Sequences with a Whole-Genome Microarray: IS6110 in Mycobacterium tuberculosis.
J Clin Microbiol. 2002 Jun;40(6):2192-8


 Bobadilla-del-Valle M, Ponce-de-Leon A, Arenas-Huertero C, Vargas-Alarcon G, Kato-Maeda M, Small PM, Couary P, Ruiz-Palacios GM, Sifuentes-Osornio J.

rpoB Gene mutations in rifampin-resistant Mycobacterium tuberculosis identified by polymerase chain reaction single-stranded conformational polymorphism. Emerg Infect Dis. 2001 Nov-Dec;7(6):1010-3.

Porco TC, Small PM, Blower SM.

Amplification dynamics: predicting the effect of HIV on tuberculosis outbreaks.
J Acquir Immune Defic Syndr. 2001 Dec 15;28(5):437-44.

 Kato-Maeda M, Gao Q, Small PM.Microarray analysis of pathogens and their interaction with hosts.
Cell Microbiol. 2001 Nov;3(11):713-9. Review.

 Banaiee N, Bobadilla-Del-Valle M, Bardarov S Jr, Riska PF, Small PM, Ponce-De-Leon A, Jacobs WR Jr, Hatfull GF, Sifuentes-Osornio J.

Luciferase reporter mycobacteriophages for detection, identification, and antibiotic susceptibility testing of Mycobacterium tuberculosis in Mexico.
J Clin Microbiol. 2001 Nov;39(11):3883-8.

 Garcia-Garcia ML, Sifuentes-Osornio J, Jimenez-Corona ME, Ponce-de-Leon A, Jimenez-Corona A, Bobadilla-del Valle M, Palacios-Martinez M, Canales G, Sangines A, Jaramillo Y, Martinez-Gamboa A, Balandrano S, Valdespino-Gomez JL, Small P.

[Drug resistance of Mycobacterium tuberculosis in Orizaba, Veracruz. Implications for the tuberculosis prevention and control program]
Rev Invest Clin. 2001 Jul-Aug;53(4):315-23. Spanish.

 Small PM, Fujiwara PI.

Management of tuberculosis in the United States.
N Engl J Med. 2001 Jul 19;345(3):189-200. Review. No abstract available.

Kato-Maeda M, Small PM.

User's guide to tuberculosis resources on the internet.
Clin Infect Dis. 2001 Jun 1;32(11):1580-8.

Kato-Maeda M, Rhee JT, Gingeras TR, Salamon H, Drenkow J, Smittipat N, Small PM.

Comparing genomes within the species Mycobacterium tuberculosis.
Genome Res. 2001 Apr;11(4):547-54.

Caminero JA, Pena MJ, Campos-Herrero MI, Rodriguez JC, Afonso O, Martin C, Pavon JM, Torres MJ, Burgos M, Cabrera P, Small PM, Enarson DA.

Exogenous reinfection with tuberculosis on a European island with a moderate incidence of disease.
Am J Respir Crit Care Med. 2001 Mar;163(3 Pt 1):717-20.

Kato-Maeda M, Bifani PJ, Kreiswirth BN, Small PM.

The nature and consequence of genetic variability within Mycobacterium tuberculosis.
J Clin Invest. 2001 Mar;107(5):533-7. Review. No abstract available.


Garcia-Garcia ML, Jimenez-Corona ME, Ponce-de-Leon A, Jimenez-Corona A, Palacios-Martinez M, Balandrano-Campos S, Ferreyra-Reyes L, Juarez-Sandino L, Sifuentes-Osornio J, Olivera-Diaz H, Valdespino-Gomez JL, Small PM.

Mycobacterium tuberculosis drug resistance in a suburban community in southern Mexico.
Int J Tuberc Lung Dis. 2000 Dec;4(12 Suppl 2):S168-70.

Rhee JT, Tanaka MM, Behr MA, Agasino CB, Paz EA, Hopewell PC, Small PM.Use of multiple markers in population-based molecular epidemiologic studies of tuberculosis.
Int J Tuberc Lung Dis. 2000 Dec;4(12):1111-9.

DeRiemer K, Garcia Garcia ML, Ponce de Leon Garduno A, Sifuentes Osornio J, Small PM.

Classification of drug-resistant tuberculosis.
Lancet. 2000 Dec 2;356(9245):1931-2. No abstract available.

Salamon H, Kato-Maeda M, Small PM, Drenkow J, Gingeras TR.

Detection of deleted genomic DNA using a semiautomated computational analysis of GeneChip data.
Genome Res. 2000 Dec;10(12):2044-54.

Liu YP, Behr MA, Small PM, Kurn N.

Genotypic determination of Mycobacterium tuberculosis antibiotic resistance using a novel mutation detection method, the branch migration inhibition M. tuberculosis antibiotic resistance test.
J Clin Microbiol. 2000 Oct;38(10):3656-62.

Small PM, Perkins MD.

More rigour needed in trials of new diagnostic agents for tuberculosis.
Lancet. 2000 Sep 23;356(9235):1048-9. No abstract available.

Raychaudhuri S, Stuart JM, Liu X, Small PM, Altman RB.Pattern recognition of genomic features with microarrays: site typing of Mycobacterium tuberculosis strains.
Proc Int Conf Intell Syst Mol Biol. 2000;8:286-95.

Jasmer RM, Small PM.

A current approach to the management of tuberculosis infection.
Curr Clin Top Infect Dis. 2000;20:209-31. Review. No abstract available.

Moss AR, Hahn JA, Tulsky JP, Daley CL, Small PM, Hopewell PC.

Tuberculosis in the homeless. A prospective study.
Am J Respir Crit Care Med. 2000 Aug;162(2 Pt 1):460-4.

Kato-Maeda M, Small PM.

How molecular epidemiology has changed what we know about tuberculosis.
West J Med. 2000 Apr;172(4):256-9. Review. No abstract available.

Borgdorff MW, Behr MA, Nagelkerke NJ, Hopewell PC, Small PM.

Transmission of tuberculosis in San Francisco and its association with immigration and ethnicity.
Int J Tuberc Lung Dis. 2000 Apr;4(4):287-94.

Garcia-Garcia ML, Ponce de Leon A, Jimenez-Corona ME, Jimenez-Corona A, Palacios-Martinez M, Balandrano-Campos S, Ferreyra-Reyes L, Juarez-Sandino L, Sifuentes-Osornio J, Olivera-Diaz H, Valdespino-Gomez JL, Small PM.

Clinical consequences and transmissibility of drug-resistant tuberculosis in southern Mexico.
Arch Intern Med. 2000 Mar 13;160(5):630-6.

Tanaka MM, Small PM, Salamon H, Feldman MW.

The dynamics of repeated elements: applications to the epidemiology of tuberculosis.
Proc Natl Acad Sci U S A. 2000 Mar 28;97(7):3532-7.

Salamon H, Behr MA, Rhee JT, Small PM.Genetic distances for the study of infectious disease epidemiology.
Am J Epidemiol. 2000 Feb 1;151(3):324-34.

Martinez AN, Rhee JT, Small PM, Behr MA.

Sex differences in the epidemiology of tuberculosis in San Francisco.
Int J Tuberc Lung Dis. 2000 Jan;4(1):26-31.

Garcia-Garcia M, Palacios-Martinez M, Ponce-de-Leon A, Jimenez-Corona ME, Jimenez-Corona A, Balandrano-Campos S, Olivera-Diaz H, Valdespino-Gomez JL, Small PM.

The role of core groups in transmitting Mycobacterium tuberculosis in a high prevalence community in Southern Mexico.
Int J Tuberc Lung Dis. 2000 Jan;4(1):12-7.


Small PM.

Tuberculosis in the 21st century: DOTS and SPOTS. Plenary lecture given at the 29th World Conference of the International Union Against Tuberculosis and Lung Disease, Bangkok, Thailand, 23-26 November 1998. Directly observed therapy.
Int J Tuberc Lung Dis. 1999 Nov;3(11):949-55.

Fine PE, Small PM.

Exogenous reinfection in tuberculosis.
N Engl J Med. 1999 Oct 14;341(16):1226-7. No abstract available.

Chaparro SV, Montoya JG, Keeffe EB, Rhee JT, Small PM.

Risk of tuberculosis in tuberculin skin test-positive liver transplant patients.
Clin Infect Dis. 1999 Jul;29(1):207-8. No abstract available.

Jasmer RM, Hahn JA, Small PM, Daley CL, Behr MA, Moss AR, Creasman JM, Schecter GF, Paz EA, Hopewell PC.

A molecular epidemiologic analysis of tuberculosis trends in San Francisco, 1991-1997.
Ann Intern Med. 1999 Jun 15;130(12):971-8.

Behr MA, Wilson MA, Gill WP, Salamon H, Schoolnik GK, Rane S, Small PM.

Comparative genomics of BCG vaccines by whole-genome DNA microarray.
Science. 1999 May 28;284(5419):1520-3.

Singh SP, Salamon H, Lahti CJ, Farid-Moyer M, Small PM.

Use of pulsed-field gel electrophoresis for molecular epidemiologic and population genetic studies of Mycobacterium tuberculosis.
J Clin Microbiol. 1999 Jun;37(6):1927-31.

Rhee JT, Piatek AS, Small PM, Harris LM, Chaparro SV, Kramer FR, Alland D.

Molecular epidemiologic evaluation of transmissibility and virulence of Mycobacterium tuberculosis.
J Clin Microbiol. 1999 Jun;37(6):1764-70.

Garcia-Garcia ML, Small PM, Garcia-Sancho C, Mayar-Maya ME, Ferreyra-Reyes L, Palacios-Martinez M, Jimenez S, Canales G, Quiroz G, Yanez L, Valdespino-Gomez JL.

Tuberculosis epidemiology and control in Veracruz, Mexico.
Int J Epidemiol. 1999 Feb;28(1):135-40.

Behr MA, Small PM.

A historical and molecular phylogeny of BCG strains.
Vaccine. 1999 Feb 26;17(7-8):915-22.

Behr MA, Warren SA, Salamon H, Hopewell PC, Ponce de Leon A, Daley CL, Small PM.

Transmission of Mycobacterium tuberculosis from patients smear-negative for acid-fast bacilli.
Lancet. 1999 Feb 6;353(9151):444-9


Chin DP, DeRiemer K, Small PM, de Leon AP, Steinhart R, Schecter GF, Daley CL, Moss AR, Paz EA, Jasmer RM, Agasino CB, Hopewell PC.

Differences in contributing factors to tuberculosis incidence in U.S. -born and foreign-born persons.
Am J Respir Crit Care Med. 1998 Dec;158(6):1797-803.

Behr MA, Hopewell PC, Paz EA, Kawamura LM, Schecter GF, Small PM.

Predictive value of contact investigation for identifying recent transmission of Mycobacterium tuberculosis.
Am J Respir Crit Care Med. 1998 Aug;158(2):465-9.

Harrow EM, Rangel JM, Arriega JM, Cohen I, Regil Ruiz MI, DeRiemer K, Small PM.

Epidemiology and clinical consequences of drug-resistant tuberculosis in a Guatemalan hospital.
Chest. 1998 Jun;113(6):1452-8.
PMID: 9631777 [PubMed - indexed for MEDLINE]

Agasino CB, Ponce de Leon A, Jasmer RM, Small PM.

Epidemiology of Mycobacterium tuberculosis strains in San Francisco that do not contain IS6110.
Int J Tuberc Lung Dis. 1998 Jun;2(6):518-20.

Salamon H, Segal MR, Ponce de Leon A, Small PM.

Accommodating error analysis in comparison and clustering of molecular fingerprints.
Emerg Infect Dis. 1998 Apr-Jun;4(2):159-68.

Salamon H, Segal MR, Ponce de Leon A, Small PM.

Accomodating Error Analysis in Comparison and Clustering of Molecular Fingerprints: Erratum.

Emerg Infect Dis 1998 Jul;4(3):515. Abstract

Gingeras TR, Ghandour G, Wang E, Berno A, Small PM, Drobniewski F, Alland D, Desmond E, Holodniy M, Drenkow J.

Simultaneous genotyping and species identification using hybridization pattern recognition analysis of generic Mycobacterium DNA arrays.
Genome Res. 1998 May;8(5):435-48.

Yeh RW, Ponce de Leon A, Agasino CB, Hahn JA, Daley CL, Hopewell PC, Small PM.

Stability of Mycobacterium tuberculosis DNA genotypes.
J Infect Dis. 1998 Apr;177(4):1107-11.

Bradford WZ, Koehler J, El-Hajj H, Hopewell PC, Reingold AL, Agasino CB, Cave MD, Rane S, Yang Z, Crane CM, Small PM.

Dissemination of Mycobacterium tuberculosis across the San Francisco Bay Area.
J Infect Dis. 1998 Apr;177(4):1104-7.

Bloom BR, Small PM.

The evolving relation between humans and Mycobacterium tuberculosis.
N Engl J Med. 1998 Mar 5;338(10):677-8. No abstract available.


Jasmer RM, Ponce de Leon A, Hopewell PC, Alarcon RG, Moss AR, Paz EA, Schecter GF, Small PM.

Tuberculosis in Mexican-born persons in San Francisco: reactivation, acquired infection and transmission.
Int J Tuberc Lung Dis. 1997 Dec;1(6):536-41.

Behr MA, Small PM.

Molecular fingerprinting of Mycobacterium tuberculosis: how can it help the clinician?
Clin Infect Dis. 1997 Oct;25(4):806-10. Review.
PMID: 9356792 [PubMed - indexed for MEDLINE]

Behr MA, Small PM.

Has BCG attenuated to impotence?
Nature. 1997 Sep 11;389(6647):133-4. No abstract available.

Ponce de Leon A, Small PM, Sifuentes-Osornio J.

Highly drug-resistant tuberculosis.
JAMA. 1997 Feb 26;277(8):628-9. No abstract available.


Small PM.

Tuberculosis research. Balancing the portfolio.
JAMA. 1996 Nov 13;276(18):1512-3. No abstract available.

Bradford WZ, Martin JN, Reingold AL, Schecter GF, Hopewell PC, Small PM.

The changing epidemiology of acquired drug-resistant tuberculosis in San Francisco, USA.
Lancet. 1996 Oct 5;348(9032):928-31.

Blower SM, Small PM, Hopewell PC.

Control strategies for tuberculosis epidemics: new models for old problems.
Science. 1996 Jul 26;273(5274):497-500.

Daley CL, Mugusi F, Chen LL, Schmidt DM, Small PM, Bearer E, Aris E, Mtoni IM, Cegielski JP, Lallinger G, Mbaga I, Murray JF.

Pulmonary complications of HIV infection in Dar es Salaam, Tanzania. Role of bronchoscopy and bronchoalveolar lavage.
Am J Respir Crit Care Med. 1996 Jul;154(1):105-10.

Casper C, Singh SP, Rave S, Daley CL, Schecter GS, Riley LW, Kreiswirth BN, Small PM.

The transcontinental transmission of tuberculosis: A molecular epidemiological assessment.
Am J Public Health. 1996 Apr;86(4):551-3.

Woelffer GB, Bradford WZ, Paz A, Small PM.

A computer-assisted molecular epidemiologic approach to confronting the reemergence of tuberculosis.
Am J Med Sci. 1996 Jan;311(1):17-22.


Shafer RW, Singh SP, Larkin C, Small PM.

Exogenous reinfection with multidrug-resistant Mycobacterium tuberculosis in an immunocompetent patient.
Tuber Lung Dis. 1995 Dec;76(6):575-7.

Blower SM, McLean AR, Porco TC, Small PM, Hopewell PC, Sanchez MA, Moss AR.

The intrinsic transmission dynamics of tuberculosis epidemics.
Nat Med. 1995 Aug;1(8):815-21.

Small PM.

Towards an understanding of the global migration of Mycobacterium tuberculosis.
J Infect Dis. 1995 Jun;171(6):1593-4. No abstract available.

Shafer RW, Small PM, Larkin C, Singh SP, Kelly P, Sierra MF, Schoolnik G, Chirgwin KD.

Temporal trends and transmission patterns during the emergence of multidrug-resistant tuberculosis in New York City: a molecular epidemiologic assessment.
J Infect Dis. 1995 Jan;171(1):170-6.


Small PM, Hopewell PC, Singh SP, Paz A, Parsonnet J, Ruston DC, Schecter GF, Daley CL, Schoolnik GK.

The epidemiology of tuberculosis in San Francisco. A population-based study using conventional and molecular methods.
N Engl J Med. 1994 Jun 16;330(24):1703-9.

Small PM, Hopewell PC, Schecter GF, Chaisson RE, Goodman PC.

Evolution of chest radiographs in treated patients with pulmonary tuberculosis and HIV infection.
J Thorac Imaging. 1994 Spring;9(2):74-7.


Small PM, McClenny NB, Singh SP, Schoolnik GK, Tompkins LS, Mickelsen PA.

Molecular strain typing of Mycobacterium tuberculosis to confirm cross-contamination in the mycobacteriology laboratory and modification of procedures to minimize occurrence of false-positive cultures.
J Clin Microbiol. 1993 Jul;31(7):1677-82.

Small PM, Moss A.

Molecular epidemiology and the new tuberculosis.
Infect Agents Dis. 1993 Jun;2(3):132-8. Review.

Small PM, Shafer RW, Hopewell PC, Singh SP, Murphy MJ, Desmond E, Sierra MF, Schoolnik GK.

Exogenous reinfection with multidrug-resistant Mycobacterium tuberculosis in patients with advanced HIV infection.
N Engl J Med. 1993 Apr 22;328(16):1137-44.


van Embden JD, van Soolingen D, Small PM, Hermans PW.

Genetic markers for the epidemiology of tuberculosis.
Res Microbiol. 1992 May;143(4):385-91. Review. No abstract available.

Daley CL, Small PM, Schecter GF, Schoolnik GK, McAdam RA, Jacobs WR Jr, Hopewell PC.

An outbreak of tuberculosis with accelerated progression among persons infected with the human immunodeficiency virus. An analysis using restriction-fragment-length polymorphisms.
N Engl J Med. 1992 Jan 23;326(4):231-5.


Small PM, Schecter GF, Goodman PC, Sande MA, Chaisson RE, Hopewell PC.

[HIV infection and tuberculosis]
Dtsch Med Wochenschr. 1991 Jun 7;116(23):919. German. No abstract available.

Small PM, Schecter GF, Goodman PC, Sande MA, Chaisson RE, Hopewell PC.

Treatment of tuberculosis in patients with advanced human immunodeficiency virus infection.
N Engl J Med. 1991 Jan 31;324(5):289-94.


Small PM, Chambers HF.

Vancomycin for Staphylococcus aureus endocarditis in intravenous drug users.
Antimicrob Agents Chemother. 1990 Jun;34(6):1227-31.


Small PM, McPhaul LW, Sooy CD, Wofsy CB, Jacobson MA.

Cytomegalovirus infection of the laryngeal nerve presenting as hoarseness in patients with acquired immunodeficiency syndrome.
Am J Med. 1989 Jan;86(1):108-10. No abstract available.

Small PM, Goodman PC, Montgomery BA.

Case 9-1989: AIDS and a Cavitary Pulmonary Lesion.

N Engl J Med, 1989; 321: 395.


Sande MA, Sande ER, Woolwine JD, Hackbarth CJ, Small PM.

The influence of fever on the development of experimental Streptococcus pneumoniae meningitis.
J Infect Dis. 1987 Nov;156(5):849-50. No abstract available.


Small PM, Tauber MG, Hackbarth CJ, Sande MA.

Influence of body temperature on bacterial growth rates in experimental pneumococcal meningitis in rabbits.
Infect Immun. 1986 May;52(2):484-7.
PMID: 3699893 [PubMed - indexed for MEDLINE]

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Last updated June, 2002