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From Wikipedia, the free encyclopedia
A. Murat Eren (Meren)
Born1980 (age 43–44)
Alma mater University of New Orleans
Scientific career
Fields Microbial ecology, Bioinformatics
Institutions Marine Biological Laboratory, and University of Chicago.
Thesis Assessing Microbial Diversity Through Nucleotide Variation (2011)
Doctoral advisorMichael Ferris
Other academic advisors Mitchell Sogin
Website https://meren.org

A. Murat Eren (Meren) is a computer scientist known for his work on microbial ecology and developing novel, open-source, computational tools for analysis of large data sets.

Early life and education

Eren grew up in the Barhal Valley in Turkey and studied cryptography as an undergraduate at Canakkale Onsekiz Mart Universitesi [1] where he earned a B.S. in 2002. [2] He moved to the United States and started his Ph.D. at the University of New Orleans. While working at the Children's Hospital of New Orleans, Eren was introduced to microbiology by Michael Ferris. In 2011 Eren completed his Ph.D.; his dissertation was titled Assessing microbial diversity through nucleotide variation. [3]

Career and research

Eren's Ph.D. research involved developing oligotyping, [4] a computational method to examine the diversity of microorganisms within high throughput sequencing datasets. Following his Ph.D., Eren joined the Marine Biological Laboratory as a postdoctoral scientist, during which he applied oligotyping to microbes that live in the human genitourinary tract, [5] oral cavity, [6] [7] and sewage. [8] In 2015 he joined the University of Chicago as an assistant professor, [9] where he started using metagenomics to investigate the ecology and evolution of microbes found in the human gut, [10] human mouth, [11] [12] and surface ocean. [13] In 2022, Eren was appointed Professor of Ecosystem Data Science at the University of Oldenburg and the Alfred Wegener Institute for Polar and Marine Research. [14]

Eren is an advocate of open-source software [9] and leads the community development of anvi'o, [15] a platform to allow analysis and visualization of large datasets. [16]

Example of Anvi’o software output

Selected publications

  • Eren, A. Murat; Esen, Özcan C.; Quince, Christopher; Vineis, Joseph H.; Morrison, Hilary G.; Sogin, Mitchell L.; Delmont, Tom O. (8 October 2015). "Anvi'o: an advanced analysis and visualization platform for 'omics data". PeerJ. 3: e1319. doi: 10.7717/peerj.1319. ISSN  2167-8359. PMC  4614810. PMID  26500826.
  • Eren, A. Murat; Maignien, Loïs; Sul, Woo Jun; Murphy, Leslie G.; Grim, Sharon L.; Morrison, Hilary G.; Sogin, Mitchell L. (2013). "Oligotyping: differentiating between closely related microbial taxa using 16S rRNA gene data". Methods in Ecology and Evolution. 4 (12): 1111–1119. doi: 10.1111/2041-210X.12114. hdl: 1912/6377. ISSN  2041-210X. PMC  3864673. PMID  24358444.
  • Eren, A. Murat; Zozaya, Marcela; Taylor, Christopher M.; Dowd, Scot E.; Martin, David H.; Ferris, Michael J. (25 October 2011). "Exploring the Diversity of Gardnerella vaginalis in the Genitourinary Tract Microbiota of Monogamous Couples Through Subtle Nucleotide Variation". PLOS ONE. 6 (10): e26732. Bibcode: 2011PLoSO...626732E. doi: 10.1371/journal.pone.0026732. ISSN  1932-6203. PMC  3201972. PMID  22046340.
  • Eren, A. Murat; Morrison, Hilary G.; Lescault, Pamela J.; Reveillaud, Julie; Vineis, Joseph H.; Sogin, Mitchell L. (April 2015). "Minimum entropy decomposition: Unsupervised oligotyping for sensitive partitioning of high-throughput marker gene sequences". The ISME Journal. 9 (4): 968–979. doi: 10.1038/ismej.2014.195. ISSN  1751-7370. PMC  4817710. PMID  25325381.

Awards and honors

References

  1. ^ Tarcy, Brian (2014-02-22). "A. Murat Eren, The Question-Authority Shepherd At MBL– A Scientist's Unique Story". Cape Cod Wave. Archived from the original on 2015-10-16. Retrieved 2021-08-04.
  2. ^ "A. Murat Eren (Meren), Ph.D." ASM.org. Retrieved 2021-08-04.
  3. ^ Eren, Ahmet Murat (May 2011). Assessing Microbial Diversity Through Nucleotide Variation (PhD dissertation). University of New Orleans.
  4. ^ Eren, A. Murat; Maignien, Loïs; Sul, Woo Jun; Murphy, Leslie G.; Grim, Sharon L.; Morrison, Hilary G.; Sogin, Mitchell L. (2013). "Oligotyping: differentiating between closely related microbial taxa using 16S rRNA gene data". Methods in Ecology and Evolution. 4 (12): 1111–1119. doi: 10.1111/2041-210X.12114. ISSN  2041-210X. PMC  3864673. PMID  24358444.
  5. ^ Eren, A. Murat; Zozaya, Marcela; Taylor, Christopher M.; Dowd, Scot E.; Martin, David H.; Ferris, Michael J. (2011-10-25). "Exploring the Diversity of Gardnerella vaginalis in the Genitourinary Tract Microbiota of Monogamous Couples Through Subtle Nucleotide Variation". PLOS ONE. 6 (10): e26732. Bibcode: 2011PLoSO...626732E. doi: 10.1371/journal.pone.0026732. ISSN  1932-6203. PMC  3201972. PMID  22046340.
  6. ^ Eren, A. Murat; Borisy, Gary G.; Huse, Susan M.; Mark Welch, Jessica L. (15 July 2014). "Oligotyping analysis of the human oral microbiome". Proceedings of the National Academy of Sciences. 111 (28): E2875–E2884. doi: 10.1073/pnas.1409644111. PMC  4104879. PMID  24965363.
  7. ^ Zimmer, Carl (25 June 2014). "The Zoo In the Mouth". Science. Archived from the original on August 4, 2021. Retrieved 4 August 2021.
  8. ^ "Sewage provides insight into human microbiome". ScienceDaily. Retrieved 4 August 2021.
  9. ^ a b "A. Murat Eren". www.mbl.edu. Retrieved 2021-08-04.
  10. ^ Lee, Sonny T. M.; Kahn, Stacy A.; Delmont, Tom O.; Shaiber, Alon; Esen, Özcan C.; Hubert, Nathaniel A.; Morrison, Hilary G.; Antonopoulos, Dionysios A.; Rubin, David T.; Eren, A. Murat (2017-05-04). "Tracking microbial colonization in fecal microbiota transplantation experiments via genome-resolved metagenomics". Microbiome. 5 (1): 50. doi: 10.1186/s40168-017-0270-x. ISSN  2049-2618. PMC  5418705. PMID  28473000.
  11. ^ Lim, Joseph (July 10, 2021). "Microbe communities". www.panaynews.net. Retrieved 4 August 2021.
  12. ^ Shaiber, Alon; Willis, Amy D.; Delmont, Tom O.; Roux, Simon; Chen, Lin-Xing; Schmid, Abigail C.; Yousef, Mahmoud; Watson, Andrea R.; Lolans, Karen; Esen, Özcan C.; Lee, Sonny T. M.; Downey, Nora; Morrison, Hilary G.; Dewhirst, Floyd E.; Mark Welch, Jessica L.; Eren, A. Murat (16 December 2020). "Functional and genetic markers of niche partitioning among enigmatic members of the human oral microbiome". Genome Biology. 21 (1): 292. doi: 10.1186/s13059-020-02195-w. ISSN  1474-760X. PMC  7739484. PMID  33323122.
  13. ^ "Large-scale study indicates novel, abundant nitrogen-fixing microbes in surface ocean". EurekAlert!. Retrieved 4 August 2021.
  14. ^ "A. Murat Eren". uol.de. Retrieved 2022-02-14.
  15. ^ "Anvi'o dot org". Anvi'o dot org. Retrieved 2022-02-14.
  16. ^ Eren, A. Murat; Kiefl, Evan; Shaiber, Alon; Veseli, Iva; Miller, Samuel E.; Schechter, Matthew S.; Fink, Isaac; Pan, Jessica N.; Yousef, Mahmoud; Fogarty, Emily C.; Trigodet, Florian (2021). "Community-led, integrated, reproducible multi-omics with anvi'o". Nature Microbiology. 6 (1): 3–6. doi: 10.1038/s41564-020-00834-3. ISSN  2058-5276. PMC  8116326. PMID  33349678.
  17. ^ "Three University of Chicago scientists named 2020 Sloan Fellows | University of Chicago News". news.uchicago.edu. Retrieved 4 August 2021.
  18. ^ "A. Murat Eren Awarded 2021 American Society for Microbiology Award | Microbiology". micro.uchicago.edu. Retrieved 2021-08-04.
  19. ^ https://researchparasite.com/#past-recipients
Retrieved from " https://en.wikipedia.org/?title=A._Murat_Eren&oldid=1216961926"
From Wikipedia, the free encyclopedia
A. Murat Eren (Meren)
Born1980 (age 43–44)
Alma mater University of New Orleans
Scientific career
Fields Microbial ecology, Bioinformatics
Institutions Marine Biological Laboratory, and University of Chicago.
Thesis Assessing Microbial Diversity Through Nucleotide Variation (2011)
Doctoral advisorMichael Ferris
Other academic advisors Mitchell Sogin
Website https://meren.org

A. Murat Eren (Meren) is a computer scientist known for his work on microbial ecology and developing novel, open-source, computational tools for analysis of large data sets.

Early life and education

Eren grew up in the Barhal Valley in Turkey and studied cryptography as an undergraduate at Canakkale Onsekiz Mart Universitesi [1] where he earned a B.S. in 2002. [2] He moved to the United States and started his Ph.D. at the University of New Orleans. While working at the Children's Hospital of New Orleans, Eren was introduced to microbiology by Michael Ferris. In 2011 Eren completed his Ph.D.; his dissertation was titled Assessing microbial diversity through nucleotide variation. [3]

Career and research

Eren's Ph.D. research involved developing oligotyping, [4] a computational method to examine the diversity of microorganisms within high throughput sequencing datasets. Following his Ph.D., Eren joined the Marine Biological Laboratory as a postdoctoral scientist, during which he applied oligotyping to microbes that live in the human genitourinary tract, [5] oral cavity, [6] [7] and sewage. [8] In 2015 he joined the University of Chicago as an assistant professor, [9] where he started using metagenomics to investigate the ecology and evolution of microbes found in the human gut, [10] human mouth, [11] [12] and surface ocean. [13] In 2022, Eren was appointed Professor of Ecosystem Data Science at the University of Oldenburg and the Alfred Wegener Institute for Polar and Marine Research. [14]

Eren is an advocate of open-source software [9] and leads the community development of anvi'o, [15] a platform to allow analysis and visualization of large datasets. [16]

Example of Anvi’o software output

Selected publications

  • Eren, A. Murat; Esen, Özcan C.; Quince, Christopher; Vineis, Joseph H.; Morrison, Hilary G.; Sogin, Mitchell L.; Delmont, Tom O. (8 October 2015). "Anvi'o: an advanced analysis and visualization platform for 'omics data". PeerJ. 3: e1319. doi: 10.7717/peerj.1319. ISSN  2167-8359. PMC  4614810. PMID  26500826.
  • Eren, A. Murat; Maignien, Loïs; Sul, Woo Jun; Murphy, Leslie G.; Grim, Sharon L.; Morrison, Hilary G.; Sogin, Mitchell L. (2013). "Oligotyping: differentiating between closely related microbial taxa using 16S rRNA gene data". Methods in Ecology and Evolution. 4 (12): 1111–1119. doi: 10.1111/2041-210X.12114. hdl: 1912/6377. ISSN  2041-210X. PMC  3864673. PMID  24358444.
  • Eren, A. Murat; Zozaya, Marcela; Taylor, Christopher M.; Dowd, Scot E.; Martin, David H.; Ferris, Michael J. (25 October 2011). "Exploring the Diversity of Gardnerella vaginalis in the Genitourinary Tract Microbiota of Monogamous Couples Through Subtle Nucleotide Variation". PLOS ONE. 6 (10): e26732. Bibcode: 2011PLoSO...626732E. doi: 10.1371/journal.pone.0026732. ISSN  1932-6203. PMC  3201972. PMID  22046340.
  • Eren, A. Murat; Morrison, Hilary G.; Lescault, Pamela J.; Reveillaud, Julie; Vineis, Joseph H.; Sogin, Mitchell L. (April 2015). "Minimum entropy decomposition: Unsupervised oligotyping for sensitive partitioning of high-throughput marker gene sequences". The ISME Journal. 9 (4): 968–979. doi: 10.1038/ismej.2014.195. ISSN  1751-7370. PMC  4817710. PMID  25325381.

Awards and honors

References

  1. ^ Tarcy, Brian (2014-02-22). "A. Murat Eren, The Question-Authority Shepherd At MBL– A Scientist's Unique Story". Cape Cod Wave. Archived from the original on 2015-10-16. Retrieved 2021-08-04.
  2. ^ "A. Murat Eren (Meren), Ph.D." ASM.org. Retrieved 2021-08-04.
  3. ^ Eren, Ahmet Murat (May 2011). Assessing Microbial Diversity Through Nucleotide Variation (PhD dissertation). University of New Orleans.
  4. ^ Eren, A. Murat; Maignien, Loïs; Sul, Woo Jun; Murphy, Leslie G.; Grim, Sharon L.; Morrison, Hilary G.; Sogin, Mitchell L. (2013). "Oligotyping: differentiating between closely related microbial taxa using 16S rRNA gene data". Methods in Ecology and Evolution. 4 (12): 1111–1119. doi: 10.1111/2041-210X.12114. ISSN  2041-210X. PMC  3864673. PMID  24358444.
  5. ^ Eren, A. Murat; Zozaya, Marcela; Taylor, Christopher M.; Dowd, Scot E.; Martin, David H.; Ferris, Michael J. (2011-10-25). "Exploring the Diversity of Gardnerella vaginalis in the Genitourinary Tract Microbiota of Monogamous Couples Through Subtle Nucleotide Variation". PLOS ONE. 6 (10): e26732. Bibcode: 2011PLoSO...626732E. doi: 10.1371/journal.pone.0026732. ISSN  1932-6203. PMC  3201972. PMID  22046340.
  6. ^ Eren, A. Murat; Borisy, Gary G.; Huse, Susan M.; Mark Welch, Jessica L. (15 July 2014). "Oligotyping analysis of the human oral microbiome". Proceedings of the National Academy of Sciences. 111 (28): E2875–E2884. doi: 10.1073/pnas.1409644111. PMC  4104879. PMID  24965363.
  7. ^ Zimmer, Carl (25 June 2014). "The Zoo In the Mouth". Science. Archived from the original on August 4, 2021. Retrieved 4 August 2021.
  8. ^ "Sewage provides insight into human microbiome". ScienceDaily. Retrieved 4 August 2021.
  9. ^ a b "A. Murat Eren". www.mbl.edu. Retrieved 2021-08-04.
  10. ^ Lee, Sonny T. M.; Kahn, Stacy A.; Delmont, Tom O.; Shaiber, Alon; Esen, Özcan C.; Hubert, Nathaniel A.; Morrison, Hilary G.; Antonopoulos, Dionysios A.; Rubin, David T.; Eren, A. Murat (2017-05-04). "Tracking microbial colonization in fecal microbiota transplantation experiments via genome-resolved metagenomics". Microbiome. 5 (1): 50. doi: 10.1186/s40168-017-0270-x. ISSN  2049-2618. PMC  5418705. PMID  28473000.
  11. ^ Lim, Joseph (July 10, 2021). "Microbe communities". www.panaynews.net. Retrieved 4 August 2021.
  12. ^ Shaiber, Alon; Willis, Amy D.; Delmont, Tom O.; Roux, Simon; Chen, Lin-Xing; Schmid, Abigail C.; Yousef, Mahmoud; Watson, Andrea R.; Lolans, Karen; Esen, Özcan C.; Lee, Sonny T. M.; Downey, Nora; Morrison, Hilary G.; Dewhirst, Floyd E.; Mark Welch, Jessica L.; Eren, A. Murat (16 December 2020). "Functional and genetic markers of niche partitioning among enigmatic members of the human oral microbiome". Genome Biology. 21 (1): 292. doi: 10.1186/s13059-020-02195-w. ISSN  1474-760X. PMC  7739484. PMID  33323122.
  13. ^ "Large-scale study indicates novel, abundant nitrogen-fixing microbes in surface ocean". EurekAlert!. Retrieved 4 August 2021.
  14. ^ "A. Murat Eren". uol.de. Retrieved 2022-02-14.
  15. ^ "Anvi'o dot org". Anvi'o dot org. Retrieved 2022-02-14.
  16. ^ Eren, A. Murat; Kiefl, Evan; Shaiber, Alon; Veseli, Iva; Miller, Samuel E.; Schechter, Matthew S.; Fink, Isaac; Pan, Jessica N.; Yousef, Mahmoud; Fogarty, Emily C.; Trigodet, Florian (2021). "Community-led, integrated, reproducible multi-omics with anvi'o". Nature Microbiology. 6 (1): 3–6. doi: 10.1038/s41564-020-00834-3. ISSN  2058-5276. PMC  8116326. PMID  33349678.
  17. ^ "Three University of Chicago scientists named 2020 Sloan Fellows | University of Chicago News". news.uchicago.edu. Retrieved 4 August 2021.
  18. ^ "A. Murat Eren Awarded 2021 American Society for Microbiology Award | Microbiology". micro.uchicago.edu. Retrieved 2021-08-04.
  19. ^ https://researchparasite.com/#past-recipients
Retrieved from " https://en.wikipedia.org/?title=A._Murat_Eren&oldid=1216961926"

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