User profiles for Begüm D. Topçuoğlu
Begüm D. TopçuoğluBristol Myers Squibb Verified email at bms.com Cited by 2039 |
[HTML][HTML] Long-term forest soil warming alters microbial communities in temperate forest soils
Soil microbes are major drivers of soil carbon cycling, yet we lack an understanding of how
climate warming will affect microbial communities. Three ongoing field studies at the Harvard …
climate warming will affect microbial communities. Three ongoing field studies at the Harvard …
A framework for effective application of machine learning to microbiome-based classification problems
ABSTRACT Machine learning (ML) modeling of the human microbiome has the potential to
identify microbial biomarkers and aid in the diagnosis of many diseases such as …
identify microbial biomarkers and aid in the diagnosis of many diseases such as …
Experimental investigation on the controls of clumped isotopologue and hydrogen isotope ratios in microbial methane
… barkeri using D-spiked water or D-… 3 D values of product methane only weakly correlate
with the D/H ratio of medium water. Our experimental results demonstrate that low Δ 13 CH 3 D …
with the D/H ratio of medium water. Our experimental results demonstrate that low Δ 13 CH 3 D …
Women are underrepresented and receive differential outcomes at ASM journals: a six-year retrospective analysis
AK Hagan, BD Topçuoğlu, ME Gregory, HA Barton… - MBio, 2020 - Am Soc Microbiol
Despite 50% of biology Ph.D. graduates being women, the number of women that advance
in academia decreases at each level (eg, from graduate to postdoctorate to tenure track). …
in academia decreases at each level (eg, from graduate to postdoctorate to tenure track). …
[HTML][HTML] mikropml: user-friendly R package for supervised machine learning pipelines
Machine learning (ML) for classification and prediction based on a set of features is used to
make decisions in healthcare, economics, criminal justice and more. However, implementing …
make decisions in healthcare, economics, criminal justice and more. However, implementing …
Fecal short-chain fatty acids are not predictive of colonic tumor status and cannot be predicted based on bacterial community structure
Colonic bacterial populations are thought to have a role in the development of colorectal
cancer with some protecting against inflammation and others exacerbating inflammation. Short-…
cancer with some protecting against inflammation and others exacerbating inflammation. Short-…
[HTML][HTML] Hydrogen limitation and syntrophic growth among natural assemblages of thermophilic methanogens at deep-sea hydrothermal vents
Thermophilic methanogens are common autotrophs at hydrothermal vents, but their growth
constraints and dependence on H 2 syntrophy in situ are poorly understood. Between 2012 …
constraints and dependence on H 2 syntrophy in situ are poorly understood. Between 2012 …
Very early life microbiome and metabolome correlates with primary vaccination variability in children
…, TP Wyche, J Kang, H Wesseling, BD Topçuoğlu… - Msystems, 2023 - Am Soc Microbiol
Despite multiple vaccine doses early in life, a substantial proportion of infants do not mount
protective responses. In this study, we followed a cohort of children over the first 2 years of life…
protective responses. In this study, we followed a cohort of children over the first 2 years of life…
Growth Kinetics, Carbon Isotope Fractionation, and Gene Expression in the Hyperthermophile Methanocaldococcus jannaschii during Hydrogen-Limited Growth and …
BD Topçuoğlu, C Meydan, TB Nguyen… - Applied and …, 2019 - Am Soc Microbiol
Hyperthermophilic methanogens are often H 2 limited in hot subseafloor environments, and
their survival may be due in part to physiological adaptations to low H 2 conditions and …
their survival may be due in part to physiological adaptations to low H 2 conditions and …
A goldilocks principle for the gut microbiome: taxonomic resolution matters for microbiome-based classification of colorectal cancer
Colorectal cancer is a common and deadly disease in the United States accounting for over
50,000 deaths in 2020. This progressive disease is highly preventable with early detection …
50,000 deaths in 2020. This progressive disease is highly preventable with early detection …