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  1. Article ; Online: Maternal Iron Deficiency and Environmental Lead (Pb) Exposure Alter the Predictive Value of Blood Pb Levels on Brain Pb Burden in the Offspring in a Dietary Mouse Model: An Important Consideration for Cumulative Risk in Development.

    Cubello, Janine / Peterson, Derick R / Wang, Lu / Mayer-Proschel, Margot

    Nutrients

    2023  Volume 15, Issue 19

    Abstract: Maternal iron deficiency (ID) and environmental lead (Pb) exposure are co-occurring insults that both affect the neurodevelopment of offspring. Few studies have investigated how ID affects brain-region-specific Pb accumulations using human-relevant Pb ... ...

    Abstract Maternal iron deficiency (ID) and environmental lead (Pb) exposure are co-occurring insults that both affect the neurodevelopment of offspring. Few studies have investigated how ID affects brain-region-specific Pb accumulations using human-relevant Pb concentrations. Furthermore, how these Pb exposures impact blood and brain Fe levels remains unclear. Importantly, we also wanted to determine whether the use of blood Pb levels as a surrogate for the brain Pb burden is affected by underlying iron status. We exposed virgin Swiss Webster female mice to one of six conditions differing by iron diet and Pb water concentration (0 ppm, 19 ppm, or 50 ppm lead acetate) and used Inductively Coupled Plasma Mass Spectrometry to measure the maternal and offspring circulating, stored, and brain Pb levels. We found that maternal ID rendered the offspring iron-deficient anemic and led to a region-specific depletion of brain Fe that was exacerbated by Pb in a dose-specific manner. The postnatal iron deficiency anemia also exacerbated cortical and hippocampal Pb accumulation. Interestingly, BPb levels only correlated with the brain Pb burden in ID pups but not in IN offspring. We conclude that ID significantly increases the brain Pb burden and that BPb levels alone are insufficient as a clinical surrogate to make extrapolations on the brain Pb burden.
    MeSH term(s) Animals ; Female ; Mice ; Humans ; Iron ; Lead/toxicity ; Iron Deficiencies ; Brain ; Diet/adverse effects ; Fetal Diseases
    Chemical Substances Iron (E1UOL152H7) ; Lead (2P299V784P)
    Language English
    Publishing date 2023-09-22
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2518386-2
    ISSN 2072-6643 ; 2072-6643
    ISSN (online) 2072-6643
    ISSN 2072-6643
    DOI 10.3390/nu15194101
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  2. Article ; Online: Post hoc analysis of food costs associated with Dietary Approaches to Stop Hypertension diet, whole food, plant-based diet, and typical baseline diet of individuals with insulin-treated type 2 diabetes mellitus in a nonrandomized crossover trial with meals provided.

    Campbell, Erin K / Taillie, Laurie / Blanchard, Lisa M / Wixom, Nellie / Harrington, Donald K / Peterson, Derick R / Wittlin, Steven D / Campbell, Thomas M

    The American journal of clinical nutrition

    2023  Volume 119, Issue 3, Page(s) 769–778

    Abstract: Background: Americans consume diets that fall short of dietary recommendations, and the cost of healthier diets is often cited as a barrier to dietary change. We conducted a nonrandomized crossover trial with meals provided utilizing 2 diets: Dietary ... ...

    Abstract Background: Americans consume diets that fall short of dietary recommendations, and the cost of healthier diets is often cited as a barrier to dietary change. We conducted a nonrandomized crossover trial with meals provided utilizing 2 diets: Dietary Approaches to Stop Hypertension (DASH) and whole food, plant-based (WFPB), and thus had intake data from baseline and both intervention diets.
    Objectives: Using actual diet records, describe food costs of baseline diets of individuals with type 2 diabetes (T2DM) as well as therapeutic DASH and WFPB diets.
    Methods: Three-day food records were collected and analyzed for each 7-d diet phase: baseline, DASH, and WFPB. Nutrient content was analyzed using the Nutrient Data System for Research and cost was determined using Fillet, an application to manage menu pricing. Food costs were calculated for each diet as consumed and adjusted to a standardized 1800 kcal/d. Ingredient-only costs of food away from home (FAFH) were approximated and analyzed. Costs were analyzed using linear mixed-effect models as a function of diet.
    Results: Fifteen subjects enrolled; 12 completed all dietary phases. The baseline, DASH, and WFPB diets, as consumed, cost $15.72/d (95% CI; $13.91, $17.53), $12.74/d ($11.23, $14.25), and $9.78/d ($7.97, $11.59), respectively. When adjusted to an 1800 kcal/d intake, the baseline, DASH, and WFPB diets cost $15.69/d ($13.87, $17.52), $14.92/d ($13.59, $16.26), and $11.96/d ($10.14, $13.78), respectively. When approximated ingredient-only costs of FAFH were analyzed, as consumed baseline [$11.01 ($9.53, $12.49)] and DASH diets [$11.81 ($10.44, $13.18)] had similar costs; WFPB diet [$8.83 ($7.35, $10.31)] cost the least.
    Conclusions: In this short-term study with meals provided, the food costs of plant-predominant diets offering substantial metabolic health benefits were less than or similar to baseline food costs of adults with insulin-treated T2DM. Longer-term data without meal provision are needed for more generalizable results. This trial was registered at clinicaltrials.gov as NCT04048642.
    MeSH term(s) Adult ; Humans ; Dietary Approaches To Stop Hypertension ; Diabetes Mellitus, Type 2 ; Cross-Over Studies ; Diet, Plant-Based ; Diet ; Meals ; Insulins ; Hypertension
    Chemical Substances Insulins
    Language English
    Publishing date 2023-12-30
    Publishing country United States
    Document type Clinical Trial ; Journal Article
    ZDB-ID 280048-2
    ISSN 1938-3207 ; 0002-9165
    ISSN (online) 1938-3207
    ISSN 0002-9165
    DOI 10.1016/j.ajcnut.2023.12.023
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  3. Article ; Online: Constructing multivariate prognostic gene signatures with censored survival data.

    Peterson, Derick R

    Methods in molecular biology (Clifton, N.J.)

    2013  Volume 972, Page(s) 85–101

    Abstract: Modern high-throughput technologies allow us to simultaneously measure the expressions of a huge number of candidate predictors, some of which are likely to be associated with survival. One difficult task is to search among an enormous number of ... ...

    Abstract Modern high-throughput technologies allow us to simultaneously measure the expressions of a huge number of candidate predictors, some of which are likely to be associated with survival. One difficult task is to search among an enormous number of potential predictors and to correctly identify most of the important ones, without mistakenly identifying too many spurious associations. Mere variable selection is insufficient, however, for the information from the multiple predictors must be intelligently combined and calibrated to form the final composite predictor. Many commonly used procedures overfit the training data, miss many important predictors, or both. Although it is impossible to simultaneously adjust for a huge number of predictors in an unconstrained way, we propose a method that offers a middle ground where some partial multivariate adjustments can be made in an adaptive fashion, regardless of the number of candidate predictors. We demonstrate the performance of our proposed procedure in a simulation study within the Cox proportional hazards regression framework, and we apply our new method to a publicly available data set to construct a novel prognostic gene signature for breast cancer survival.
    MeSH term(s) Algorithms ; Breast Neoplasms/genetics ; Breast Neoplasms/mortality ; Computer Simulation ; Data Interpretation, Statistical ; Female ; Gene Expression Profiling/methods ; Humans ; Likelihood Functions ; Models, Statistical ; Multivariate Analysis ; Principal Component Analysis ; Prognosis ; Proportional Hazards Models ; Transcriptome
    Language English
    Publishing date 2013-02-05
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Intramural ; Research Support, Non-U.S. Gov't
    ISSN 1940-6029
    ISSN (online) 1940-6029
    DOI 10.1007/978-1-60327-337-4_6
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  4. Article ; Online: The highly selective Bruton tyrosine kinase inhibitor acalabrutinib leaves macrophage phagocytosis intact.

    Pinney, Jonathan J / Blick-Nitko, Sara K / Baran, Andrea M / Peterson, Derick R / Whitehead, Hannah E / Izumi, Raquel / Munugalavadla, Veerendra / Van DerMeid, Karl R / Barr, Paul M / Zent, Clive S / Elliott, Michael R / Chu, Charles C

    Haematologica

    2022  Volume 107, Issue 6, Page(s) 1460–1465

    MeSH term(s) Benzamides ; Humans ; Leukemia, Lymphocytic, Chronic, B-Cell ; Macrophages ; Phagocytosis ; Plant Leaves ; Protein Kinase Inhibitors/pharmacology ; Protein Kinase Inhibitors/therapeutic use ; Pyrazines
    Chemical Substances Benzamides ; Protein Kinase Inhibitors ; Pyrazines ; acalabrutinib (I42748ELQW)
    Language English
    Publishing date 2022-06-01
    Publishing country Italy
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2333-4
    ISSN 1592-8721 ; 0017-6567 ; 0390-6078
    ISSN (online) 1592-8721
    ISSN 0017-6567 ; 0390-6078
    DOI 10.3324/haematol.2021.279560
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  5. Article ; Online: The acute effects of a DASH diet and whole food, plant-based diet on insulin requirements and related cardiometabolic markers in individuals with insulin-treated type 2 diabetes.

    Campbell, Thomas M / Campbell, Erin K / Attia, Jonven / Ventura, Kenilia / Mathews, Tony / Chhabra, Kavaljit H / Blanchard, Lisa M / Wixom, Nellie / Faniyan, Tumininu S / Peterson, Derick R / Harrington, Donald K / Wittlin, Steven D

    Diabetes research and clinical practice

    2023  Volume 202, Page(s) 110814

    Abstract: Aims: There is limited research regarding insulin dosing changes following adoption of plant-based diets. We conducted a nonrandomized crossover trial utilizing two plant-based diets (Dietary Approaches to Stop Hypertension, or DASH, and Whole Food, ... ...

    Abstract Aims: There is limited research regarding insulin dosing changes following adoption of plant-based diets. We conducted a nonrandomized crossover trial utilizing two plant-based diets (Dietary Approaches to Stop Hypertension, or DASH, and Whole Food, Plant-Based, or WFPB) to assess acute changes in insulin requirements and associated markers among individuals with insulin-treated type 2 diabetes.
    Methods: Participants (n = 15) enrolled in a 4-week trial with sequential, one-week phases: Baseline, DASH 1, WFPB, and DASH 2. Each diet was ad libitum and meals were provided.
    Results: Compared to baseline, daily insulin usage was 24%, 39%, and 30% lower after DASH 1, WFPB, and DASH 2 weeks respectively (all p < 0.01). Insulin resistance (HOMA-IR) was 49% lower (p < 0.01) and the insulin sensitivity index was 38% higher (p < 0.01) at the end of the WFPB week before regressing toward baseline during DASH 2. Total, LDL, and HDL cholesterol, leptin, urinary glucose, and hsCRP decreased to a nadir at the end of the WFPB week before increasing during DASH 2.
    Conclusions: Adopting a DASH or WFPB diet can result in significant, rapid changes in insulin requirements, insulin sensitivity, and related markers among individuals with insulin-treated type 2 diabetes, with larger dietary changes producing larger benefits.
    MeSH term(s) Humans ; Insulin/therapeutic use ; Insulin Resistance ; Diabetes Mellitus, Type 2/drug therapy ; Dietary Approaches To Stop Hypertension ; Diet ; Hypertension ; Insulin, Regular, Human ; Diet, Vegetarian
    Chemical Substances Insulin ; Insulin, Regular, Human
    Language English
    Publishing date 2023-07-05
    Publishing country Ireland
    Document type Journal Article
    ZDB-ID 632523-3
    ISSN 1872-8227 ; 0168-8227
    ISSN (online) 1872-8227
    ISSN 0168-8227
    DOI 10.1016/j.diabres.2023.110814
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  6. Article ; Online: Can Analysis of Routine Viral Testing Provide Accurate Estimates of Respiratory Syncytial Virus Disease Burden in Adults?

    Datta, Siddhant / Walsh, Edward E / Peterson, Derick R / Falsey, Ann R

    The Journal of infectious diseases

    2017  Volume 215, Issue 11, Page(s) 1706–1710

    Abstract: Respiratory syncytial virus (RSV) is increasingly recognized as a significant cause of adult respiratory illness. We evaluated routine viral testing and discharge diagnoses for identifying RSV and influenza burden. Polymerase chain reaction results ... ...

    Abstract Respiratory syncytial virus (RSV) is increasingly recognized as a significant cause of adult respiratory illness. We evaluated routine viral testing and discharge diagnoses for identifying RSV and influenza burden. Polymerase chain reaction results performed in adults during emergency room visits or hospitalizations were reviewed. Peak RSV activity preceded influenza activity by 8 weeks. The ratio of total number of viral tests performed divided by total number of respiratory visits was higher during influenza than RSV peaks (1.31 vs 0.72; P = .0001). Influenza and RSV were listed primary diagnoses in 56 (30%) vs 7 (6%), respectively (P < .0001). Routine viral testing to estimate adult RSV disease burden has limitations.
    MeSH term(s) Adult ; Diagnostic Tests, Routine/statistics & numerical data ; Humans ; Influenza, Human ; Polymerase Chain Reaction ; Respiratory Syncytial Virus Infections/diagnosis ; Respiratory Syncytial Virus Infections/epidemiology ; Respiratory Syncytial Virus Infections/virology ; Respiratory Syncytial Virus, Human ; Retrospective Studies ; Virology/statistics & numerical data
    Language English
    Publishing date 2017-08-30
    Publishing country United States
    Document type Journal Article
    ZDB-ID 3019-3
    ISSN 1537-6613 ; 0022-1899
    ISSN (online) 1537-6613
    ISSN 0022-1899
    DOI 10.1093/infdis/jix196
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  7. Article ; Online: Survival methods: additional topics.

    Oakes, David / Peterson, Derick R

    Circulation

    2008  Volume 117, Issue 22, Page(s) 2949–2955

    MeSH term(s) Humans ; Methods ; Models, Statistical ; Survival Analysis
    Language English
    Publishing date 2008-06-03
    Publishing country United States
    Document type Journal Article ; Review
    ZDB-ID 80099-5
    ISSN 1524-4539 ; 0009-7322 ; 0069-4193 ; 0065-8499
    ISSN (online) 1524-4539
    ISSN 0009-7322 ; 0069-4193 ; 0065-8499
    DOI 10.1161/CIRCULATIONAHA.107.700377
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  8. Article ; Online: Gene Expression Risk Scores for COVID-19 Illness Severity.

    Peterson, Derick R / Baran, Andrea M / Bhattacharya, Soumyaroop / Branche, Angela R / Croft, Daniel P / Corbett, Anthony M / Walsh, Edward E / Falsey, Ann R / Mariani, Thomas J

    The Journal of infectious diseases

    2021  Volume 227, Issue 3, Page(s) 322–331

    Abstract: Background: The correlates of coronavirus disease 2019 (COVID-19) illness severity following infection with severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) are incompletely understood.: Methods: We assessed peripheral blood gene ... ...

    Abstract Background: The correlates of coronavirus disease 2019 (COVID-19) illness severity following infection with severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) are incompletely understood.
    Methods: We assessed peripheral blood gene expression in 53 adults with confirmed SARS-CoV-2 infection clinically adjudicated as having mild, moderate, or severe disease. Supervised principal components analysis was used to build a weighted gene expression risk score (WGERS) to discriminate between severe and nonsevere COVID-19.
    Results: Gene expression patterns in participants with mild and moderate illness were similar, but significantly different from severe illness. When comparing severe versus nonsevere illness, we identified >4000 genes differentially expressed (false discovery rate < 0.05). Biological pathways increased in severe COVID-19 were associated with platelet activation and coagulation, and those significantly decreased with T-cell signaling and differentiation. A WGERS based on 18 genes distinguished severe illness in our training cohort (cross-validated receiver operating characteristic-area under the curve [ROC-AUC] = 0.98), and need for intensive care in an independent cohort (ROC-AUC = 0.85). Dichotomizing the WGERS yielded 100% sensitivity and 85% specificity for classifying severe illness in our training cohort, and 84% sensitivity and 74% specificity for defining the need for intensive care in the validation cohort.
    Conclusions: These data suggest that gene expression classifiers may provide clinical utility as predictors of COVID-19 illness severity.
    MeSH term(s) Adult ; Humans ; COVID-19/genetics ; SARS-CoV-2/genetics ; Risk Factors ; Patient Acuity ; Severity of Illness Index ; Gene Expression ; Retrospective Studies
    Language English
    Publishing date 2021-11-30
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 3019-3
    ISSN 1537-6613 ; 0022-1899
    ISSN (online) 1537-6613
    ISSN 0022-1899
    DOI 10.1093/infdis/jiab568
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  9. Article: Gene Expression Risk Scores for COVID-19 Illness Severity.

    Peterson, Derick R / Baran, Andrea M / Bhattacharya, Soumyaroop / Branche, Angela R / Croft, Daniel P / Corbett, Anthony M / Walsh, Edward E / Falsey, Ann R / Mariani, Thomas J

    bioRxiv : the preprint server for biology

    2021  

    Abstract: Background: The correlates of COVID-19 illness severity following infection with SARS-Coronavirus 2 (SARS-CoV-2) are incompletely understood.: Methods: We assessed peripheral blood gene expression in 53 adults with confirmed SARS-CoV-2-infection ... ...

    Abstract Background: The correlates of COVID-19 illness severity following infection with SARS-Coronavirus 2 (SARS-CoV-2) are incompletely understood.
    Methods: We assessed peripheral blood gene expression in 53 adults with confirmed SARS-CoV-2-infection clinically adjudicated as having mild, moderate or severe disease. Supervised principal components analysis was used to build a weighted gene expression risk score (WGERS) to discriminate between severe and non-severe COVID.
    Results: Gene expression patterns in participants with mild and moderate illness were similar, but significantly different from severe illness. When comparing severe versus non-severe illness, we identified >4000 genes differentially expressed (FDR<0.05). Biological pathways increased in severe COVID-19 were associated with platelet activation and coagulation, and those significantly decreased with T cell signaling and differentiation. A WGERS based on 18 genes distinguished severe illness in our training cohort (cross-validated ROC-AUC=0.98), and need for intensive care in an independent cohort (ROC-AUC=0.85). Dichotomizing the WGERS yielded 100% sensitivity and 85% specificity for classifying severe illness in our training cohort, and 84% sensitivity and 74% specificity for defining the need for intensive care in the validation cohort.
    Conclusion: These data suggest that gene expression classifiers may provide clinical utility as predictors of COVID-19 illness severity.
    Language English
    Publishing date 2021-08-24
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2021.08.24.457521
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  10. Article ; Online: Incidence of Respiratory Syncytial Virus Infection Among Hospitalized Adults, 2017-2020.

    Branche, Angela R / Saiman, Lisa / Walsh, Edward E / Falsey, Ann R / Sieling, William D / Greendyke, William / Peterson, Derick R / Vargas, Celibell Y / Phillips, Matthew / Finelli, Lyn

    Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

    2021  Volume 74, Issue 6, Page(s) 1004–1011

    Abstract: Background: Respiratory syncytial virus (RSV) causes acute respiratory illness (ARI) and triggers exacerbations of cardiopulmonary disease. Estimates of incidence in hospitalized adults range widely, with few data on incidence in adults with ... ...

    Abstract Background: Respiratory syncytial virus (RSV) causes acute respiratory illness (ARI) and triggers exacerbations of cardiopulmonary disease. Estimates of incidence in hospitalized adults range widely, with few data on incidence in adults with comorbidities that increase the risk of severity. We conducted a prospective, population-based, surveillance study to estimate incidence of RSV hospitalization among adults overall and those with specific comorbidities.
    Methods: Hospitalized adults aged ≥18 years residing in the surveillance area with ≥2 ARI symptoms or exacerbation of underlying cardiopulmonary disease were screened during the 2017-2018, 2018-2019, and 2019-2020 RSV seasons in 3 hospitals in Rochester, New York and New York City. Respiratory specimens were tested for RSV using polymerase chain reaction assays. RSV incidence per 100 000 was adjusted by market share.
    Results: Active and passive surveillance identified 1099 adults hospitalized with RSV. Annual incidence during 3 seasons ranged from 44.2 to 58.9/100 000. Age-group-specific incidence ranged from 7.7 to 11.9/100 000, 33.5 to 57.5/100 000, and 136.9 to 255.6/100 000 in patients ages 18-49, 50-64, and ≥65 years, respectively. Incidence rates in patients with chronic obstructive pulmonary disease, coronary artery disease, and congestive heart failure were 3-13, 4-7, and 4-33 times, respectively, the incidence in patients without these conditions.
    Conclusions: We found a high burden of RSV hospitalization in this large prospective study. Notable was the high incidence among older patients and those with cardiac conditions. These data confirm the need for effective vaccines to prevent RSV infection in older and vulnerable adults.
    MeSH term(s) Adolescent ; Adult ; Aged ; Child ; Hospitalization ; Humans ; Incidence ; Infant ; New York City ; Prospective Studies ; Respiratory Syncytial Virus Infections/epidemiology ; Respiratory Syncytial Virus, Human
    Language English
    Publishing date 2021-07-09
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1099781-7
    ISSN 1537-6591 ; 1058-4838
    ISSN (online) 1537-6591
    ISSN 1058-4838
    DOI 10.1093/cid/ciab595
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