Shira Abeles

Title(s)Associate Clinical Professor, Medicine
SchoolVc-health Sciences-schools
Address9500 Gilman Drive #
La Jolla CA 92093
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Downstream - Water Pollution, Health, and Medicine's Duty to Engage. N Engl J Med. 2024 Jul 04; 391(1):3-5. Abeles SR. PMID: 38968134.
      View in: PubMed   Mentions:    Fields:    Translation:HumansPHPublic Health
    2. Climate change and resilience for antimicrobial stewardship and infection prevention. Curr Opin Infect Dis. 2024 Aug 01; 37(4):270-276. Abeles SR, Kline A, Lee P. PMID: 38843434.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    3. Integrated Genomic and Social Network Analyses of Severe Acute Respiratory Syndrome Coronavirus 2 Transmission in the Healthcare Setting. Clin Infect Dis. 2024 Jan 16. Keehner J, Abeles SR, Longhurst CA, Horton LE, Myers FE, Riggs-Rodriguez L, Ahmad M, Baxter S, Boussina A, Cantrell K, Cardenas P, De Hoff P, El-Kareh R, Holland J, Ikeda D, Kurashige K, Laurent LC, SEARCH Alliance , Lucas A, Pride D, Sathe S, Tran AR, Vasylyeva TI, Yeo G, Knight R, Wertheim JO, Torriani FJ. PMID: 38227643.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCellsPHPublic Health
    4. Correspondence to Hasegawa et al. "Diagnostic Accuracy of Hospital Antibiograms in Predicting the Risk of Antimicrobial Resistance in Enterobacteriaceae Isolates: A Nationwide Multicenter Evaluation at the Veterans Health Administration". Clin Infect Dis. 2023 Dec 06. Doud MB, Haste NM, Abeles SR. PMID: 38059520.
      View in: PubMed   Mentions:    Fields:    
    5. Risk factors for breakthrough COVID-19 infections in solid organ transplant recipients receiving tixagevimab/cilgavimab for pre-exposure prophylaxis. Transpl Infect Dis. 2023 12; 25(6):e14125. Abraham DL, Lichvar AB, Brubaker AL, Haste N, Chen V, Abeles S, Aslam S, Yam N, Horton L, Chen B, Binkin N, Law N. PMID: 37594213.
      View in: PubMed   Mentions:    Fields:    Translation:HumansPHPublic Health
    6. Common antibiotics, azithromycin and amoxicillin, affect gut metagenomics within a household. BMC Microbiol. 2023 08 02; 23(1):206. Chopyk J, Cobián Güemes AG, Ramirez-Sanchez C, Attai H, Ly M, Jones MB, Liu R, Liu C, Yang K, Tu XM, Abeles SR, Nelson K, Pride DT. PMID: 37528343; PMCID: PMC10394940.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    7. Real world effectiveness of tixagevimab/cilgavimab (Evusheld) in the Omicron era. PLoS One. 2023; 18(4):e0275356. Chen B, Haste N, Binkin N, Law N, Horton LE, Yam N, Chen V, Abeles S. PMID: 37104498; PMCID: PMC10138227.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCellsCTClinical Trials
    8. Secondary peritonitis in a patient with cirrhosis involving Hyphopichia burtonii, an emerging fungal pathogen. IDCases. 2023; 31:e01730. Feldman EB, Bellinghausen AL, Vodkin IE, Abeles SR, Kamdar BB. PMID: 36911872; PMCID: PMC9996382.
      View in: PubMed   Mentions: 1  
    9. The rapidly evolving monkeypox epidemic: A call to action to leave no one behind. PLoS Med. 2022 10; 19(10):e1004128. Strathdee SA, Smith DM, Halbrook M, Mbala-Kingebeni P, Abeles S, Torriani F, Rimoin A. PMID: 36315599; PMCID: PMC9662950.
      View in: PubMed   Mentions:    Fields:    Translation:HumansPHPublic Health
    10. A binational USA-Mexico COVID-19 vaccine clinic: A novel model for cross-border collaboration in health crisis. J Glob Health. 2022 05 30; 12:03012. Abeles S, Hill L, Machado Peña EM, Ikeda L. PMID: 35486587; PMCID: PMC9078149.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    11. Surgical wound classification in otolaryngology: A state-of-the-art review. World J Otorhinolaryngol Head Neck Surg. 2022 Jun; 8(2):139-144. Bernstein JD, Bracken DJ, Abeles SR, Orosco RK, Weissbrod PA. PMID: 35782398; PMCID: PMC9242420.
      View in: PubMed   Mentions:
    12. Examination of Medication Use Patterns by Age Group, Comorbidity, and Month in COVID-19 Positive Patients in a Large Statewide Health System During the Pandemic in 2020. J Pharm Technol. 2022 Apr; 38(2):75-87. Watanabe JH, Kwon J, Nan B, Abeles SR, Mehta SR. PMID: 35571345; PMCID: PMC9096847.
      View in: PubMed   Mentions: 1  
    13. SARS-CoV-2 Infection in Vaccinated Health Care Workers. Reply. N Engl J Med. 2022 01 13; 386(2):200. Horton LE, Abeles SR, Torriani FJ. PMID: 34910862.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCellsPHPublic Health
    14. A Risk-Based Clinical Decision Support System for Patient-Specific Antimicrobial Therapy (iBiogram): Design and Retrospective Analysis. J Med Internet Res. 2021 12 03; 23(12):e23571. Müller L, Srinivasan A, Abeles SR, Rajagopal A, Torriani FJ, Aronoff-Spencer E. PMID: 34870601; PMCID: PMC8686485.
      View in: PubMed   Mentions: 2     Fields:    Translation:Humans
    15. Resurgence of SARS-CoV-2 Infection in a Highly Vaccinated Health System Workforce. N Engl J Med. 2021 09 30; 385(14):1330-1332. Keehner J, Horton LE, Binkin NJ, Laurent LC, SEARCH Alliance, Pride D, Longhurst CA, Abeles SR, Torriani FJ. PMID: 34469645; PMCID: PMC8451183.
      View in: PubMed   Mentions: 91     Fields:    Translation:HumansCellsPHPublic Health
    16. Finding a needle in a haystack: The hidden costs of asymptomatic testing in a low incidence setting. Infect Control Hosp Epidemiol. 2022 10; 43(10):1525-1526. Srinivasan V, Gohil SK, Abeles SR, Yokoe DS, Cohen SH, Ramirez-Avila L, Prabaker KK, de St Maurice AM. PMID: 34162461; PMCID: PMC8280392.
      View in: PubMed   Mentions: 3     Fields:    Translation:Humans
    17. More on SARS-CoV-2 Infection after Vaccination in Health Care Workers. Reply. N Engl J Med. 2021 07 08; 385(2):e8. Keehner J, Abeles SR, Torriani FJ. PMID: 33979508.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCellsPHPublic Health
    18. Medication Use Patterns in Hospitalized Patients With COVID-19 in California During the Pandemic. JAMA Netw Open. 2021 05 03; 4(5):e2110775. Watanabe JH, Kwon J, Nan B, Abeles SR, Jia S, Mehta SR. PMID: 34019090; PMCID: PMC8140369.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCellsPHPublic Health
    19. SARS-CoV-2 Infection after Vaccination in Health Care Workers in California. N Engl J Med. 2021 05 06; 384(18):1774-1775. Keehner J, Horton LE, Pfeffer MA, Longhurst CA, Schooley RT, Currier JS, Abeles SR, Torriani FJ. PMID: 33755376; PMCID: PMC8008750.
      View in: PubMed   Mentions: 127     Fields:    Translation:HumansCellsPHPublic Health
    20. The Impact of an Inpatient Nurse-Triggered Sepsis Alert on Antimicrobial Utilization. Jt Comm J Qual Patient Saf. 2021 03; 47(3):157-164. Kang M, Torriani FJ, Sell RE, Wardi G, Abeles SR. PMID: 33454234.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    21. Public Health Role of Academic Medical Center in Community Outbreak of Hepatitis A, San Diego County, California, USA, 2016-2018. Emerg Infect Dis. 2020 07; 26(7):1374-1381. Kang M, Horman SF, Taplitz RA, Clay B, Millen M, Sitapati A, Myers FE, McDonald EC, Abeles SR, Wallace DR, Stous S, Torriani FJ. PMID: 32568038; PMCID: PMC7323565.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansPHPublic Health
    22. Rapid response to COVID-19: health informatics support for outbreak management in an academic health system. J Am Med Inform Assoc. 2020 06 01; 27(6):853-859. Reeves JJ, Hollandsworth HM, Torriani FJ, Taplitz R, Abeles S, Tai-Seale M, Millen M, Clay BJ, Longhurst CA. PMID: 32208481; PMCID: PMC7184393.
      View in: PubMed   Mentions: 186     Fields:    Translation:HumansCellsPHPublic Health
    23. The Effect of Clostridioides difficile Diagnostic Stewardship Interventions on the Diagnosis of Hospital-Onset Clostridioides difficile Infections. Jt Comm J Qual Patient Saf. 2020 08; 46(8):457-463. Kang M, Abeles SR, El-Kareh R, Taplitz RA, Nyheim E, Reed SL, Jenkins IH, Seymann GB, Myers FE, Torriani FJ, UCSDH CDI task force. PMID: 32576438.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansCells
    24. Letter: Systemic Antimicrobial Prophylaxis and Antimicrobial-Coated External Ventricular Drain Catheters for Preventing Ventriculostomy-Related Infections: A Meta-Analysis of 5242 Cases. Neurosurgery. 2020 02 01; 86(2):E239. Abeles SR. PMID: 31690930.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    25. Case Report: A Common Source Outbreak of Anisakidosis in the United States and Postexposure Prophylaxis of Family Collaterals. Am J Trop Med Hyg. 2018 11; 99(5):1219-1221. Carlin AF, Abeles S, Chin NA, Lin GY, Young M, Vinetz JM. PMID: 30226150; PMCID: PMC6221231.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansAnimalsPHPublic Health
    26. Transmission of viruses via our microbiomes. Microbiome. 2016 Dec 02; 4(1):64. Ly M, Jones MB, Abeles SR, Santiago-Rodriguez TM, Gao J, Chan IC, Ghose C, Pride DT. PMID: 27912785; PMCID: PMC5134127.
      View in: PubMed   Mentions: 30     Fields:    Translation:HumansCells
    27. Microbial diversity in individuals and their household contacts following typical antibiotic courses. Microbiome. 2016 07 30; 4(1):39. Abeles SR, Jones MB, Santiago-Rodriguez TM, Ly M, Klitgord N, Yooseph S, Nelson KE, Pride DT. PMID: 27473422; PMCID: PMC4967329.
      View in: PubMed   Mentions: 77     Fields:    Translation:HumansCells
    28. Bacterial and viral co-infections complicating severe influenza: Incidence and impact among 507 U.S. patients, 2013-14. J Clin Virol. 2016 07; 80:12-9. Shah NS, Greenberg JA, McNulty MC, Gregg KS, Riddell J, Mangino JE, Weber DM, Hebert CL, Marzec NS, Barron MA, Chaparro-Rojas F, Restrepo A, Hemmige V, Prasidthrathsint K, Cobb S, Herwaldt L, Raabe V, Cannavino CR, Hines AG, Bares SH, Antiporta PB, Scardina T, Patel U, Reid G, Mohazabnia P, Kachhdiya S, Le BM, Park CJ, Ostrowsky B, Robicsek A, Smith BA, Schied J, Bhatti MM, Mayer S, Sikka M, Murphy-Aguilu I, Patwari P, Abeles SR, Torriani FJ, Abbas Z, Toya S, Doktor K, Chakrabarti A, Doblecki-Lewis S, Looney DJ, David MZ. PMID: 27130980; PMCID: PMC7185824.
      View in: PubMed   Mentions: 47     Fields:    Translation:Humans
    29. Effects of Long Term Antibiotic Therapy on Human Oral and Fecal Viromes. PLoS One. 2015; 10(8):e0134941. Abeles SR, Ly M, Santiago-Rodriguez TM, Pride DT. PMID: 26309137; PMCID: PMC4550281.
      View in: PubMed   Mentions: 58     Fields:    Translation:HumansCells
    30. Severe Influenza in 33 US Hospitals, 2013-2014: Complications and Risk Factors for Death in 507 Patients. Infect Control Hosp Epidemiol. 2015 Nov; 36(11):1251-60. Shah NS, Greenberg JA, McNulty MC, Gregg KS, Riddell J, Mangino JE, Weber DM, Hebert CL, Marzec NS, Barron MA, Chaparro-Rojas F, Restrepo A, Hemmige V, Prasidthrathsint K, Cobb S, Herwaldt L, Raabe V, Cannavino CR, Hines AG, Bares SH, Antiporta PB, Scardina T, Patel U, Reid G, Mohazabnia P, Kachhdiya S, Le BM, Park CJ, Ostrowsky B, Robicsek A, Smith BA, Schied J, Bhatti MM, Mayer S, Sikka M, Murphy-Aguilu I, Patwari P, Abeles SR, Torriani FJ, Abbas Z, Toya S, Doktor K, Chakrabarti A, Doblecki-Lewis S, Looney DJ, David MZ. PMID: 26224364.
      View in: PubMed   Mentions: 26     Fields:    Translation:HumansCells
    31. Transcriptome analysis of bacteriophage communities in periodontal health and disease. BMC Genomics. 2015 Jul 28; 16:549. Santiago-Rodriguez TM, Naidu M, Abeles SR, Boehm TK, Ly M, Pride DT. PMID: 26215258; PMCID: PMC4515923.
      View in: PubMed   Mentions: 30     Fields:    Translation:HumansCells
    32. Molecular bases and role of viruses in the human microbiome. J Mol Biol. 2014 Nov 25; 426(23):3892-906. Abeles SR, Pride DT. PMID: 25020228; PMCID: PMC7172398.
      View in: PubMed   Mentions: 57     Fields:    Translation:HumansCells
    33. Characterization of bacteriophage communities and CRISPR profiles from dental plaque. BMC Microbiol. 2014 Jun 30; 14:175. Naidu M, Robles-Sikisaka R, Abeles SR, Boehm TK, Pride DT. PMID: 24981669; PMCID: PMC4104742.
      View in: PubMed   Mentions: 28     Fields:    Translation:HumansCells
    34. Conservation of streptococcal CRISPRs on human skin and saliva. BMC Microbiol. 2014 Jun 06; 14:146. Robles-Sikisaka R, Naidu M, Ly M, Salzman J, Abeles SR, Boehm TK, Pride DT. PMID: 24903519; PMCID: PMC4063239.
      View in: PubMed   Mentions: 11     Fields:    Translation:HumansCells
    35. Altered oral viral ecology in association with periodontal disease. mBio. 2014 May 20; 5(3):e01133-14. Ly M, Abeles SR, Boehm TK, Robles-Sikisaka R, Naidu M, Santiago-Rodriguez T, Pride DT. PMID: 24846382; PMCID: PMC4030452.
      View in: PubMed   Mentions: 89     Fields:    Translation:HumansCells
    36. Human oral viruses are personal, persistent and gender-consistent. ISME J. 2014 Sep; 8(9):1753-67. Abeles SR, Robles-Sikisaka R, Ly M, Lum AG, Salzman J, Boehm TK, Pride DT. PMID: 24646696; PMCID: PMC4139723.
      View in: PubMed   Mentions: 76     Fields:    Translation:HumansCells
    37. Human host-derived cytokines associated with Plasmodium vivax transmission from acute malaria patients to Anopheles darlingi mosquitoes in the Peruvian Amazon. Am J Trop Med Hyg. 2013 Jun; 88(6):1130-7. Abeles SR, Chuquiyauri R, Tong C, Vinetz JM. PMID: 23478585; PMCID: PMC3752813.
      View in: PubMed   Mentions: 11     Fields:    Translation:HumansAnimalsPHPublic Health
    38. Whole genome sequencing analysis of Plasmodium vivax using whole genome capture. BMC Genomics. 2012 Jun 21; 13:262. Bright AT, Tewhey R, Abeles S, Chuquiyauri R, Llanos-Cuentas A, Ferreira MU, Schork NJ, Vinetz JM, Winzeler EA. PMID: 22721170; PMCID: PMC3410760.
      View in: PubMed   Mentions: 34     Fields:    Translation:AnimalsCells
    39. Socio-demographics and the development of malaria elimination strategies in the low transmission setting. Acta Trop. 2012 Mar; 121(3):292-302. Chuquiyauri R, Paredes M, Peñataro P, Torres S, Marin S, Tenorio A, Brouwer KC, Abeles S, Llanos-Cuentas A, Gilman RH, Kosek M, Vinetz JM. PMID: 22100446; PMCID: PMC3294046.
      View in: PubMed   Mentions: 45     Fields:    Translation:HumansAnimalsPHPublic Health
    40. Amazonian malaria: asymptomatic human reservoirs, diagnostic challenges, environmentally driven changes in mosquito vector populations, and the mandate for sustainable control strategies. Acta Trop. 2012 Mar; 121(3):281-91. da Silva-Nunes M, Moreno M, Conn JE, Gamboa D, Abeles S, Vinetz JM, Ferreira MU. PMID: 22015425; PMCID: PMC3308722.
      View in: PubMed   Mentions: 80     Fields:    Translation:HumansAnimalsPHPublic Health
    41. Lack of molecular correlates of Plasmodium vivax ookinete development. Am J Trop Med Hyg. 2011 Aug; 85(2):207-13. Bounkeua V, Li F, Chuquiyauri R, Abeles SR, McClean CM, Neyra V, Llanos-Cuentas A, Yori PP, Vinetz JM. PMID: 21813836; PMCID: PMC3144814.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansAnimalsCells
    42. Persistent neutrophilic meningitis in an immunocompetent patient after basilar skull fracture: case report. BMC Infect Dis. 2011 May 19; 11:136. Green JS, Abeles SR, Uslan DZ, Mehta SR. PMID: 21595944; PMCID: PMC3115869.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansCells
    43. Fibromyalgia remains a controversial medical enigma. Am Fam Physician. 2008 May 01; 77(9):1220, 1222; author reply 1222, 1224. Abeles M, Abeles SR, Abeles AM. PMID: 18543429.
      View in: PubMed   Mentions: 1     Fields:    Translation:Humans
    44. Longitudinal distribution of ozone absorption in the lung: simulation with a single-path model. Toxicol Appl Pharmacol. 1996 Oct; 140(2):219-26. Bush ML, Raybold T, Abeles S, Hu SC, Ben-Jebria A, Ultman JS. PMID: 8887437.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
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