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Maintaining a robust pipeline of future physician-scientists

pipeline programs

Blish CA.
GSID: q1KBkNJul-sJ
CA Blish - The Journal of infectious diseases, 2018 - academic.oup.com

… can improve training programs to support the pipeline of physician … programs such as the NIH-funded Medical Scientist Training Program (MSTP), though I hope these perspectives resonate for faculty and trainees involved in physician-scientist training in all types...

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Blish, C. A. (2018). Maintaining a robust pipeline of future physician-scientists. The Journal of infectious diseases, 218(suppl_1), S40-S43.
Blish, Catherine A. "Maintaining a robust pipeline of future physician-scientists." The Journal of infectious diseases 218.suppl_1 (2018): S40-S43.
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Natural Killer Cell Diversity in Viral Infection: Why and How Much?.

Pathogens & immunity

Blish CA.
PMID: 27635417
Pathog Immun. 2016;1(1):165-192. doi: 10.20411/pai.v1i1.142.

Natural killer cells are a diverse group of innate lymphocytes that are specialized to rapidly respond to cancerous or virus-infected cells. NK cell function is controlled by the integration of signals from activating and inhibitory receptors expressed at the...

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Blish CA. Natural Killer Cell Diversity in Viral Infection: Why and How Much?. Pathog Immun. 2016;1(1):165-192doi: 10.20411/pai.v1i1.142.
Blish, C. A. (2016). Natural Killer Cell Diversity in Viral Infection: Why and How Much?. Pathogens & immunity, 1(1), 165-192. https://doi.org/10.20411/pai.v1i1.142
Blish, Catherine A. "Natural Killer Cell Diversity in Viral Infection: Why and How Much?." Pathogens & immunity vol. 1,1 (2016): 165-192. doi: https://doi.org/10.20411/pai.v1i1.142
Blish CA. Natural Killer Cell Diversity in Viral Infection: Why and How Much?. Pathog Immun. 2016;1(1):165-192. doi: 10.20411/pai.v1i1.142. PMID: 27635417; PMCID: PMC5021221.
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Human NK Cell Diversity in Viral Infection: Ramifications of Ramification.

Frontiers in immunology

Strauss-Albee DM, Blish CA.
PMID: 26973646
Front Immunol. 2016 Mar 03;7:66. doi: 10.3389/fimmu.2016.00066. eCollection 2016.

Natural killer (NK) cells are a unique lymphocyte lineage with remarkable agility in the rapid destruction of virus-infected cells. They are also the most poorly understood class of lymphocyte. A spectrum of activating and inhibitory receptors at the NK...

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Strauss-Albee DM, Blish CA. Human NK Cell Diversity in Viral Infection: Ramifications of Ramification. Front Immunol. 2016;7:66doi: 10.3389/fimmu.2016.00066.
Strauss-Albee, D. M., & Blish, C. A. (2016). Human NK Cell Diversity in Viral Infection: Ramifications of Ramification. Frontiers in immunology, 766. https://doi.org/10.3389/fimmu.2016.00066
Strauss-Albee, Dara M, and Blish, Catherine A. "Human NK Cell Diversity in Viral Infection: Ramifications of Ramification." Frontiers in immunology vol. 7 (2016): 66. doi: https://doi.org/10.3389/fimmu.2016.00066
Strauss-Albee DM, Blish CA. Human NK Cell Diversity in Viral Infection: Ramifications of Ramification. Front Immunol. 2016 Mar 03;7:66. doi: 10.3389/fimmu.2016.00066. eCollection 2016. PMID: 26973646; PMCID: PMC4776076.
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The dynamics of the human infant gut microbiome in development and in progression toward type 1 diabetes.

Cell host & microbe

Kostic AD, Gevers D, Siljander H, Vatanen T, Hyötyläinen T, Hämäläinen AM, Peet A, Tillmann V, Pöhö P, Mattila I, Lähdesmäki H, Franzosa EA, Vaarala O, de Goffau M, Harmsen H, Ilonen J, Virtanen SM, Clish CB, Orešič M, Huttenhower C, Knip M, Xavier RJ.
PMID: 25662751
Cell Host Microbe. 2015 Feb 11;17(2):260-73. doi: 10.1016/j.chom.2015.01.001. Epub 2015 Feb 05.

Colonization of the fetal and infant gut microbiome results in dynamic changes in diversity, which can impact disease susceptibility. To examine the relationship between human gut microbiome dynamics throughout infancy and type 1 diabetes (T1D), we examined a cohort...

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Kostic AD, Gevers D, Siljander H, et al. The dynamics of the human infant gut microbiome in development and in progression toward type 1 diabetes. Cell Host Microbe. 2015;17(2):260-73doi: 10.1016/j.chom.2015.01.001.
Kostic, A. D., Gevers, D., Siljander, H., Vatanen, T., Hyötyläinen, T., Hämäläinen, A. M., Peet, A., Tillmann, V., Pöhö, P., Mattila, I., Lähdesmäki, H., Franzosa, E. A., Vaarala, O., de Goffau, M., Harmsen, H., Ilonen, J., Virtanen, S. M., Clish, C. B., Orešič, M., Huttenhower, C., Knip, M., & Xavier, R. J. (2015). The dynamics of the human infant gut microbiome in development and in progression toward type 1 diabetes. Cell host & microbe, 17(2), 260-73. https://doi.org/10.1016/j.chom.2015.01.001
Kostic, Aleksandar D, et al. "The dynamics of the human infant gut microbiome in development and in progression toward type 1 diabetes." Cell host & microbe vol. 17,2 (2015): 260-73. doi: https://doi.org/10.1016/j.chom.2015.01.001
Kostic AD, Gevers D, Siljander H, Vatanen T, Hyötyläinen T, Hämäläinen AM, Peet A, Tillmann V, Pöhö P, Mattila I, Lähdesmäki H, Franzosa EA, Vaarala O, de Goffau M, Harmsen H, Ilonen J, Virtanen SM, Clish CB, Orešič M, Huttenhower C, Knip M, Xavier RJ. The dynamics of the human infant gut microbiome in development and in progression toward type 1 diabetes. Cell Host Microbe. 2015 Feb 11;17(2):260-73. doi: 10.1016/j.chom.2015.01.001. Epub 2015 Feb 05. PMID: 25662751; PMCID: PMC4689191.
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The metabolomics of asthma control: a promising link between genetics and disease.

Immunity, inflammation and disease

McGeachie MJ, Dahlin A, Qiu W, Croteau-Chonka DC, Savage J, Wu AC, Wan ES, Sordillo JE, Al-Garawi A, Martinez FD, Strunk RC, Lemanske RF, Liu AH, Raby BA, Weiss S, Clish CB, Lasky-Su JA.
PMID: 26421150
Immun Inflamm Dis. 2015 Sep;3(3):224-38. doi: 10.1002/iid3.61. Epub 2015 May 07.

Short-acting β agonists (e.g., albuterol) are the most commonly used medications for asthma, a disease that affects over 300 million people in the world. Metabolomic profiling of asthmatics taking β agonists presents a new and promising resource for identifying...

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McGeachie MJ, Dahlin A, Qiu W, et al. The metabolomics of asthma control: a promising link between genetics and disease. Immun Inflamm Dis. 2015;3(3):224-38doi: 10.1002/iid3.61.
McGeachie, M. J., Dahlin, A., Qiu, W., Croteau-Chonka, D. C., Savage, J., Wu, A. C., Wan, E. S., Sordillo, J. E., Al-Garawi, A., Martinez, F. D., Strunk, R. C., Lemanske, R. F., Liu, A. H., Raby, B. A., Weiss, S., Clish, C. B., & Lasky-Su, J. A. (2015). The metabolomics of asthma control: a promising link between genetics and disease. Immunity, inflammation and disease, 3(3), 224-38. https://doi.org/10.1002/iid3.61
McGeachie, Michael J, et al. "The metabolomics of asthma control: a promising link between genetics and disease." Immunity, inflammation and disease vol. 3,3 (2015): 224-38. doi: https://doi.org/10.1002/iid3.61
McGeachie MJ, Dahlin A, Qiu W, Croteau-Chonka DC, Savage J, Wu AC, Wan ES, Sordillo JE, Al-Garawi A, Martinez FD, Strunk RC, Lemanske RF, Liu AH, Raby BA, Weiss S, Clish CB, Lasky-Su JA. The metabolomics of asthma control: a promising link between genetics and disease. Immun Inflamm Dis. 2015 Sep;3(3):224-38. doi: 10.1002/iid3.61. Epub 2015 May 07. PMID: 26421150; PMCID: PMC4578522.
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Identifying Metabolomic Profiles of Insulinemic Dietary Patterns.

Metabolites

Tabung FK, Balasubramanian R, Liang L, Clinton SK, Cespedes Feliciano EM, Manson JE, Van Horn L, Wactawski-Wende J, Clish CB, Giovannucci EL, Rexrode KM.
PMID: 31238601
Metabolites. 2019 Jun 24;9(6). doi: 10.3390/metabo9060120.

The food-based empirical dietary index for hyperinsulinemia (EDIH) score assesses the insulinemic potential of diet. This cross-sectional study evaluated associations between EDIH scores from food frequency questionnaires with c-peptide concentrations and with 448 metabolites, from fasting plasma samples, in...

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Tabung FK, Balasubramanian R, Liang L, et al. Identifying Metabolomic Profiles of Insulinemic Dietary Patterns. Metabolites. 2019;9(6)doi: 10.3390/metabo9060120.
Tabung, F. K., Balasubramanian, R., Liang, L., Clinton, S. K., Cespedes Feliciano, E. M., Manson, J. E., Van Horn, L., Wactawski-Wende, J., Clish, C. B., Giovannucci, E. L., & Rexrode, K. M. (2019). Identifying Metabolomic Profiles of Insulinemic Dietary Patterns. Metabolites, 9(6), . https://doi.org/10.3390/metabo9060120
Tabung, Fred K, et al. "Identifying Metabolomic Profiles of Insulinemic Dietary Patterns." Metabolites vol. 9,6 (2019). doi: https://doi.org/10.3390/metabo9060120
Tabung FK, Balasubramanian R, Liang L, Clinton SK, Cespedes Feliciano EM, Manson JE, Van Horn L, Wactawski-Wende J, Clish CB, Giovannucci EL, Rexrode KM. Identifying Metabolomic Profiles of Insulinemic Dietary Patterns. Metabolites. 2019 Jun 24;9(6). doi: 10.3390/metabo9060120. PMID: 31238601; PMCID: PMC6630814.
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Cycling cancer persister cells arise from lineages with distinct programs.

Nature

Oren Y, Tsabar M, Cuoco MS, Amir-Zilberstein L, Cabanos HF, Hütter JC, Hu B, Thakore PI, Tabaka M, Fulco CP, Colgan W, Cuevas BM, Hurvitz SA, Slamon DJ, Deik A, Pierce KA, Clish C, Hata AN, Zaganjor E, Lahav G, Politi K, Brugge JS, Regev A.
PMID: 34381210
Nature. 2021 Aug;596(7873):576-582. doi: 10.1038/s41586-021-03796-6. Epub 2021 Aug 11.

Non-genetic mechanisms have recently emerged as important drivers of cancer therapy failure

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Oren Y, Tsabar M, Cuoco MS, et al. Cycling cancer persister cells arise from lineages with distinct programs. Nature. 2021;596(7873):576-582doi: 10.1038/s41586-021-03796-6.
Oren, Y., Tsabar, M., Cuoco, M. S., Amir-Zilberstein, L., Cabanos, H. F., Hütter, J. C., Hu, B., Thakore, P. I., Tabaka, M., Fulco, C. P., Colgan, W., Cuevas, B. M., Hurvitz, S. A., Slamon, D. J., Deik, A., Pierce, K. A., Clish, C., Hata, A. N., Zaganjor, E., Lahav, G., Politi, K., Brugge, J. S., & Regev, A. (2021). Cycling cancer persister cells arise from lineages with distinct programs. Nature, 596(7873), 576-582. https://doi.org/10.1038/s41586-021-03796-6
Oren, Yaara, et al. "Cycling cancer persister cells arise from lineages with distinct programs." Nature vol. 596,7873 (2021): 576-582. doi: https://doi.org/10.1038/s41586-021-03796-6
Oren Y, Tsabar M, Cuoco MS, Amir-Zilberstein L, Cabanos HF, Hütter JC, Hu B, Thakore PI, Tabaka M, Fulco CP, Colgan W, Cuevas BM, Hurvitz SA, Slamon DJ, Deik A, Pierce KA, Clish C, Hata AN, Zaganjor E, Lahav G, Politi K, Brugge JS, Regev A. Cycling cancer persister cells arise from lineages with distinct programs. Nature. 2021 Aug;596(7873):576-582. doi: 10.1038/s41586-021-03796-6. Epub 2021 Aug 11. PMID: 34381210.
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Changes in metabolomics profiles over ten years and subsequent risk of developing type 2 diabetes: Results from the Nurses' Health Study.

EBioMedicine

Wittenbecher C, Guasch-Ferré M, Haslam DE, Dennis C, Li J, Bhupathiraju SN, Lee CH, Qi Q, Liang L, Eliassen AH, Clish C, Sun Q, Hu FB.
PMID: 34979341
EBioMedicine. 2021 Dec 31;75:103799. doi: 10.1016/j.ebiom.2021.103799. Epub 2021 Dec 31.

BACKGROUND: Metabolomics profiles were consistently associated with type 2 diabetes (T2D) risk, but evidence on long-term metabolite changes and T2D incidence is lacking. We examined the associations of 10-year plasma metabolite changes with subsequent T2D risk.METHODS: We conducted a...

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Wittenbecher C, Guasch-Ferré M, Haslam DE, et al. Changes in metabolomics profiles over ten years and subsequent risk of developing type 2 diabetes: Results from the Nurses' Health Study. EBioMedicine. 2021;75:103799doi: 10.1016/j.ebiom.2021.103799.
Wittenbecher, C., Guasch-Ferré, M., Haslam, D. E., Dennis, C., Li, J., Bhupathiraju, S. N., Lee, C. H., Qi, Q., Liang, L., Eliassen, A. H., Clish, C., Sun, Q., & Hu, F. B. (2021). Changes in metabolomics profiles over ten years and subsequent risk of developing type 2 diabetes: Results from the Nurses' Health Study. EBioMedicine, 75103799. https://doi.org/10.1016/j.ebiom.2021.103799
Wittenbecher, Clemens, et al. "Changes in metabolomics profiles over ten years and subsequent risk of developing type 2 diabetes: Results from the Nurses' Health Study." EBioMedicine vol. 75 (2021): 103799. doi: https://doi.org/10.1016/j.ebiom.2021.103799
Wittenbecher C, Guasch-Ferré M, Haslam DE, Dennis C, Li J, Bhupathiraju SN, Lee CH, Qi Q, Liang L, Eliassen AH, Clish C, Sun Q, Hu FB. Changes in metabolomics profiles over ten years and subsequent risk of developing type 2 diabetes: Results from the Nurses' Health Study. EBioMedicine. 2021 Dec 31;75:103799. doi: 10.1016/j.ebiom.2021.103799. Epub 2021 Dec 31. PMID: 34979341; PMCID: PMC8733263.
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Metabolic modeling of single Th17 cells reveals regulators of autoimmunity.

Cell

Wagner A, Wang C, Fessler J, DeTomaso D, Avila-Pacheco J, Kaminski J, Zaghouani S, Christian E, Thakore P, Schellhaass B, Akama-Garren E, Pierce K, Singh V, Ron-Harel N, Douglas VP, Bod L, Schnell A, Puleston D, Sobel RA, Haigis M, Pearce EL, Soleimani M, Clish C, Regev A, Kuchroo VK, Yosef N.
PMID: 34216539
Cell. 2021 Aug 05;184(16):4168-4185.e21. doi: 10.1016/j.cell.2021.05.045. Epub 2021 Jul 02.

Metabolism is a major regulator of immune cell function, but it remains difficult to study the metabolic status of individual cells. Here, we present Compass, an algorithm to characterize cellular metabolic states based on single-cell RNA sequencing and flux...

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Wagner A, Wang C, Fessler J, et al. Metabolic modeling of single Th17 cells reveals regulators of autoimmunity. Cell. 2021;184(16):4168-4185.e21doi: 10.1016/j.cell.2021.05.045.
Wagner, A., Wang, C., Fessler, J., DeTomaso, D., Avila-Pacheco, J., Kaminski, J., Zaghouani, S., Christian, E., Thakore, P., Schellhaass, B., Akama-Garren, E., Pierce, K., Singh, V., Ron-Harel, N., Douglas, V. P., Bod, L., Schnell, A., Puleston, D., Sobel, R. A., Haigis, M., Pearce, E. L., Soleimani, M., Clish, C., Regev, A., Kuchroo, V. K., & Yosef, N. (2021). Metabolic modeling of single Th17 cells reveals regulators of autoimmunity. Cell, 184(16), 4168-4185.e21. https://doi.org/10.1016/j.cell.2021.05.045
Wagner, Allon, et al. "Metabolic modeling of single Th17 cells reveals regulators of autoimmunity." Cell vol. 184,16 (2021): 4168-4185.e21. doi: https://doi.org/10.1016/j.cell.2021.05.045
Wagner A, Wang C, Fessler J, DeTomaso D, Avila-Pacheco J, Kaminski J, Zaghouani S, Christian E, Thakore P, Schellhaass B, Akama-Garren E, Pierce K, Singh V, Ron-Harel N, Douglas VP, Bod L, Schnell A, Puleston D, Sobel RA, Haigis M, Pearce EL, Soleimani M, Clish C, Regev A, Kuchroo VK, Yosef N. Metabolic modeling of single Th17 cells reveals regulators of autoimmunity. Cell. 2021 Aug 05;184(16):4168-4185.e21. doi: 10.1016/j.cell.2021.05.045. Epub 2021 Jul 02. PMID: 34216539; PMCID: PMC8621950.
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Changes in metabolomics profiles over ten years and subsequent risk of developing type 2 diabetes: Results from the Nurses' Health Study.

EBioMedicine

Wittenbecher C, Guasch-Ferré M, Haslam DE, Dennis C, Li J, Bhupathiraju SN, Lee CH, Qi Q, Liang L, Eliassen AH, Clish C, Sun Q, Hu FB.
PMID: 34979341
EBioMedicine. 2021 Dec 31;75:103799. doi: 10.1016/j.ebiom.2021.103799. Epub 2021 Dec 31.

BACKGROUND: Metabolomics profiles were consistently associated with type 2 diabetes (T2D) risk, but evidence on long-term metabolite changes and T2D incidence is lacking. We examined the associations of 10-year plasma metabolite changes with subsequent T2D risk.METHODS: We conducted a...

Cite
Wittenbecher C, Guasch-Ferré M, Haslam DE, et al. Changes in metabolomics profiles over ten years and subsequent risk of developing type 2 diabetes: Results from the Nurses' Health Study. EBioMedicine. 2021;75:103799doi: 10.1016/j.ebiom.2021.103799.
Wittenbecher, C., Guasch-Ferré, M., Haslam, D. E., Dennis, C., Li, J., Bhupathiraju, S. N., Lee, C. H., Qi, Q., Liang, L., Eliassen, A. H., Clish, C., Sun, Q., & Hu, F. B. (2021). Changes in metabolomics profiles over ten years and subsequent risk of developing type 2 diabetes: Results from the Nurses' Health Study. EBioMedicine, 75103799. https://doi.org/10.1016/j.ebiom.2021.103799
Wittenbecher, Clemens, et al. "Changes in metabolomics profiles over ten years and subsequent risk of developing type 2 diabetes: Results from the Nurses' Health Study." EBioMedicine vol. 75 (2021): 103799. doi: https://doi.org/10.1016/j.ebiom.2021.103799
Wittenbecher C, Guasch-Ferré M, Haslam DE, Dennis C, Li J, Bhupathiraju SN, Lee CH, Qi Q, Liang L, Eliassen AH, Clish C, Sun Q, Hu FB. Changes in metabolomics profiles over ten years and subsequent risk of developing type 2 diabetes: Results from the Nurses' Health Study. EBioMedicine. 2021 Dec 31;75:103799. doi: 10.1016/j.ebiom.2021.103799. Epub 2021 Dec 31. PMID: 34979341.
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A Metabolomics Analysis of Circulating Carotenoids and Breast Cancer Risk.

Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology

Peng C, Zeleznik OA, Shutta KH, Rosner BA, Kraft P, Clish CB, Stampfer MJ, Willett WC, Tamimi RM, Eliassen AH.
PMID: 34697058
Cancer Epidemiol Biomarkers Prev. 2021 Oct 25; doi: 10.1158/1055-9965.EPI-21-0837. Epub 2021 Oct 25.

BACKGROUND: Higher circulating carotenoids are associated with lower breast cancer risk. The underlying biology remains under-explored.METHODS: We profiled 293 prediagnostic plasma metabolites in a nested case-control study (RESULTS: We identified 48 to 110 metabolites associated with plasma levels of...

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Peng C, Zeleznik OA, Shutta KH, et al. A Metabolomics Analysis of Circulating Carotenoids and Breast Cancer Risk. Cancer Epidemiol Biomarkers Prev. 2021;doi: 10.1158/1055-9965.EPI-21-0837.
Peng, C., Zeleznik, O. A., Shutta, K. H., Rosner, B. A., Kraft, P., Clish, C. B., Stampfer, M. J., Willett, W. C., Tamimi, R. M., & Eliassen, A. H. (2021). A Metabolomics Analysis of Circulating Carotenoids and Breast Cancer Risk. Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology, . https://doi.org/10.1158/1055-9965.EPI-21-0837
Peng, Cheng, et al. "A Metabolomics Analysis of Circulating Carotenoids and Breast Cancer Risk." Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology vol. (2021). doi: https://doi.org/10.1158/1055-9965.EPI-21-0837
Peng C, Zeleznik OA, Shutta KH, Rosner BA, Kraft P, Clish CB, Stampfer MJ, Willett WC, Tamimi RM, Eliassen AH. A Metabolomics Analysis of Circulating Carotenoids and Breast Cancer Risk. Cancer Epidemiol Biomarkers Prev. 2021 Oct 25; doi: 10.1158/1055-9965.EPI-21-0837. Epub 2021 Oct 25. PMID: 34697058.
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Circulating amino acids and amino acid-related metabolites and risk of breast cancer among predominantly premenopausal women.

NPJ breast cancer

Zeleznik OA, Balasubramanian R, Zhao Y, Frueh L, Jeanfavre S, Avila-Pacheco J, Clish CB, Tworoger SS, Eliassen AH.
PMID: 34006878
NPJ Breast Cancer. 2021 May 18;7(1):54. doi: 10.1038/s41523-021-00262-4.

Known modifiable risk factors account for a small fraction of premenopausal breast cancers. We investigated associations between pre-diagnostic circulating amino acid and amino acid-related metabolites (N = 207) and risk of breast cancer among predominantly premenopausal women of the...

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Zeleznik OA, Balasubramanian R, Zhao Y, et al. Circulating amino acids and amino acid-related metabolites and risk of breast cancer among predominantly premenopausal women. NPJ Breast Cancer. 2021;7(1):54doi: 10.1038/s41523-021-00262-4.
Zeleznik, O. A., Balasubramanian, R., Zhao, Y., Frueh, L., Jeanfavre, S., Avila-Pacheco, J., Clish, C. B., Tworoger, S. S., & Eliassen, A. H. (2021). Circulating amino acids and amino acid-related metabolites and risk of breast cancer among predominantly premenopausal women. NPJ breast cancer, 7(1), 54. https://doi.org/10.1038/s41523-021-00262-4
Zeleznik, Oana A, et al. "Circulating amino acids and amino acid-related metabolites and risk of breast cancer among predominantly premenopausal women." NPJ breast cancer vol. 7,1 (2021): 54. doi: https://doi.org/10.1038/s41523-021-00262-4
Zeleznik OA, Balasubramanian R, Zhao Y, Frueh L, Jeanfavre S, Avila-Pacheco J, Clish CB, Tworoger SS, Eliassen AH. Circulating amino acids and amino acid-related metabolites and risk of breast cancer among predominantly premenopausal women. NPJ Breast Cancer. 2021 May 18;7(1):54. doi: 10.1038/s41523-021-00262-4. PMID: 34006878; PMCID: PMC8131633.
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