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  1. Article: Lower Expression of

    Scott, Patricia / Wang, Shuo / Onyeaghala, Guillaume / Pankratz, Nathan / Starr, Timothy / Prizment, Anna E

    Cancers

    2023  Volume 15, Issue 3

    Abstract: Individuals with cystic fibrosis (CF), caused by biallelic germline mutations in the cystic fibrosis transmembrane conductance regulator ( ...

    Abstract Individuals with cystic fibrosis (CF), caused by biallelic germline mutations in the cystic fibrosis transmembrane conductance regulator (
    Language English
    Publishing date 2023-02-03
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2527080-1
    ISSN 2072-6694
    ISSN 2072-6694
    DOI 10.3390/cancers15030989
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article: Disseminated Histoplasmosis with Underlying Sarcoidosis-Rheumatoid Arthritis Overlap Syndrome: An Example of Diagnostic Test Threshold of Detection Affecting Test Results and Patient Care.

    Pankratz, Daniel / Tichenor, Jordan / Merino, Fernando / Bahr, Nathan C

    Case reports in infectious diseases

    2022  Volume 2022, Page(s) 8334083

    Abstract: Histoplasmosis is common in many parts of the world but with areas of hyperendemicity. Disseminated histoplasmosis is the deadliest form of histoplasmosis and is most common among immunocompromised patients. Timely diagnosis is crucial to improve ... ...

    Abstract Histoplasmosis is common in many parts of the world but with areas of hyperendemicity. Disseminated histoplasmosis is the deadliest form of histoplasmosis and is most common among immunocompromised patients. Timely diagnosis is crucial to improve outcomes. We describe a patient on azathioprine and rituximab with disseminated histoplasmosis in which diagnosis was delayed in part because of negative early
    Language English
    Publishing date 2022-07-14
    Publishing country Egypt
    Document type Case Reports
    ZDB-ID 2627642-2
    ISSN 2090-6633 ; 2090-6625
    ISSN (online) 2090-6633
    ISSN 2090-6625
    DOI 10.1155/2022/8334083
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article: Parkinson Disease Genetics Extended to African and Hispanic Ancestries in the VA Million Veteran Program.

    Pankratz, Nathan / Cole, Benjamin R / Beutel, Kathleen M / Liao, Katherine P / Ashe, James

    Neurology. Genetics

    2023  Volume 10, Issue 1, Page(s) e200110

    Abstract: Background and objectives: Nearly all genetic analyses of Parkinson disease (PD) have been in populations of European ancestry. We sought to test the ability of a machine learning method to extract accurate PD diagnoses from an electronic medical record ...

    Abstract Background and objectives: Nearly all genetic analyses of Parkinson disease (PD) have been in populations of European ancestry. We sought to test the ability of a machine learning method to extract accurate PD diagnoses from an electronic medical record (EMR) system, to see whether genetic variants identified in European populations generalize to individuals of African and Hispanic ancestries, and to compare the rates of PD across ancestries.
    Methods: A machine learning method using natural language processing was applied to EMRs of US veterans participating in the VA Million Veteran Program (MVP) to identify individuals with PD. These putative cases were vetted via blind chart review by a movement disorder specialist. A polygenic risk score (PRS) of 90 established genetic variants whose genotypes were imputed from a customized Axiom Biobank Array was evaluated in different case groups.
    Results: The EMR prediction scores had a distinct trimodal distribution, with 97% of the high group and only 30% of the middle group having a credible diagnosis of PD. Using the 3,542 cases from the high group matched 4:1 to controls, the PRS was highly predictive in individuals of European ancestry (n = 3,137 cases; OR = 1.82;
    Discussion: Machine learning can reliably classify PD using data from a large EMR. Larger studies of non-European populations are required to confirm the generalizability of PD risk variants identified in populations of European ancestry and the increased risk coming from a higher proportion of European DNA in African Americans.
    Language English
    Publishing date 2023-12-20
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2818607-2
    ISSN 2376-7839
    ISSN 2376-7839
    DOI 10.1212/NXG.0000000000200110
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Long-Term Air Pollution Exposure and Mitochondrial DNA Copy Number: An Analysis of UK Biobank Data.

    Hong, Yun Soo / Battle, Stephanie L / Puiu, Daniela / Shi, Wen / Pankratz, Nathan / Zhao, Di / Arking, Dan E / Guallar, Eliseo

    Environmental health perspectives

    2023  Volume 131, Issue 5, Page(s) 57703

    MeSH term(s) DNA, Mitochondrial/genetics ; DNA Copy Number Variations ; Biological Specimen Banks ; Air Pollution/analysis ; Air Pollutants/analysis ; United Kingdom ; Particulate Matter/analysis ; Environmental Exposure/analysis
    Chemical Substances DNA, Mitochondrial ; Air Pollutants ; Particulate Matter
    Language English
    Publishing date 2023-05-16
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 195189-0
    ISSN 1552-9924 ; 0091-6765 ; 1078-0475
    ISSN (online) 1552-9924
    ISSN 0091-6765 ; 1078-0475
    DOI 10.1289/EHP11946
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Exploratory Study of the Association of Genetic Factors With Recovery of Adrenal Function in Cushing Disease.

    Nguyen, Matthew H / Zhang, Wei / Pankratz, Nathan / Lane, John / Chitiboina, Prashant / Faucz, Fabio R / Mills, James L / Stratakis, Constantine A / Tatsi, Christina

    Journal of the Endocrine Society

    2023  Volume 7, Issue 6, Page(s) bvad046

    Abstract: Successful treatment of endogenous Cushing disease (CD) is often followed by a period of adrenal insufficiency (AI). We performed an exploratory study on genetic factors potentially involved in the hypothalamic-pituitary-adrenal (HPA) axis recovery in ... ...

    Abstract Successful treatment of endogenous Cushing disease (CD) is often followed by a period of adrenal insufficiency (AI). We performed an exploratory study on genetic factors potentially involved in the hypothalamic-pituitary-adrenal (HPA) axis recovery in patients with CD after remission. We identified 90 patients who achieved remission after surgery and had a minimum of 3 months follow-up. Variants in a selected panel of genes that were rare in the general population and predicted as damaging
    Language English
    Publishing date 2023-04-25
    Publishing country United States
    Document type Journal Article
    ISSN 2472-1972
    ISSN (online) 2472-1972
    DOI 10.1210/jendso/bvad046
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Exome sequencing findings in children with annular pancreas.

    Pitsava, Georgia / Pankratz, Nathan / Lane, John / Yang, Wei / Rigler, Shannon / Shaw, Gary M / Mills, James L

    Molecular genetics & genomic medicine

    2023  Volume 11, Issue 10, Page(s) e2233

    Abstract: Background: Annular pancreas (AP) is a congenital defect of unknown cause in which the pancreas encircles the duodenum. Theories include abnormal migration and rotation of the ventral bud, persistence of ectopic pancreatic tissue, and inappropriate ... ...

    Abstract Background: Annular pancreas (AP) is a congenital defect of unknown cause in which the pancreas encircles the duodenum. Theories include abnormal migration and rotation of the ventral bud, persistence of ectopic pancreatic tissue, and inappropriate fusion of the ventral and dorsal buds before rotation. The few reported familial cases suggest a genetic contribution.
    Methods: We conducted exome sequencing in 115 affected infants from the California birth defects registry.
    Results: Seven cases had a single heterozygous missense variant in IQGAP1, five of them with CADD scores >20; seven other infants had a single heterozygous missense variant in NRCAM, five of them with CADD scores >20. We also looked at genes previously associated with AP and found two rare heterozygous missense variants, one each in PDX1 and FOXF1.
    Conclusion: IQGAP1 and NRCAM are crucial in cell polarization and migration. Mutations result in decreased motility which could possibly cause the ventral bud to not migrate normally. To our knowledge, this is the first study reporting a possible association for IQGAP1 and NRCAM with AP. Our findings of rare genetic variants involved in cell migration in 15% of our population raise the possibility that AP may be related to abnormal cell migration.
    Language English
    Publishing date 2023-08-28
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2734884-2
    ISSN 2324-9269 ; 2324-9269
    ISSN (online) 2324-9269
    ISSN 2324-9269
    DOI 10.1002/mgg3.2233
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Genome Sequencing of Consanguineous Family Implicates Ubiquitin-Specific Protease 53 (

    Kanwal, Ambreen / Sheikh, Sohail A / Aslam, Faiza / Yaseen, Samina / Beetham, Zachary / Pankratz, Nathan / Clabots, Connie R / Naz, Sadaf / Pardo, José V

    Genes

    2023  Volume 14, Issue 10

    Abstract: Psychosis is a severe mental disorder characterized by abnormal thoughts and perceptions (e.g., hallucinations) occurring quintessentially in schizophrenia and in several other neuropsychiatric disorders. Schizophrenia is widely considered as a ... ...

    Abstract Psychosis is a severe mental disorder characterized by abnormal thoughts and perceptions (e.g., hallucinations) occurring quintessentially in schizophrenia and in several other neuropsychiatric disorders. Schizophrenia is widely considered as a neurodevelopmental disorder that onsets during teenage/early adulthood. A multiplex consanguineous Pakistani family was afflicted with severe psychosis and apparent autosomal recessive transmission. The first-cousin parents and five children were healthy, whereas two teenage daughters were severely affected. Structured interviews confirmed the diagnosis of DSM-V schizophrenia. Probands and father underwent next-generation sequencing. All available relatives were subjected to confirmatory Sanger sequencing. Homozygosity mapping and directed a priori filtering identified only one rare variant [MAF < 5(10)
    MeSH term(s) Child ; Humans ; Animals ; Mice ; Adult ; Adolescent ; Schizophrenia/genetics ; Consanguinity ; alpha-Amino-3-hydroxy-5-methyl-4-isoxazolepropionic Acid ; Psychotic Disorders/genetics ; Hippocampus ; Ubiquitin-Specific Proteases/genetics
    Chemical Substances alpha-Amino-3-hydroxy-5-methyl-4-isoxazolepropionic Acid (77521-29-0) ; Ubiquitin-Specific Proteases (EC 3.4.19.12) ; USP53 protein, human (EC 3.4.19.12)
    Language English
    Publishing date 2023-10-09
    Publishing country Switzerland
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, N.I.H., Extramural ; Research Support, U.S. Gov't, Non-P.H.S.
    ZDB-ID 2527218-4
    ISSN 2073-4425 ; 2073-4425
    ISSN (online) 2073-4425
    ISSN 2073-4425
    DOI 10.3390/genes14101921
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  8. Article ; Online: Prediction of venous thromboembolism incidence in the general adult population using two published genetic risk scores.

    Folsom, Aaron R / Tang, Weihong / Hong, Ching-Ping / Rosamond, Wayne D / Lane, John A / Cushman, Mary / Pankratz, Nathan

    PloS one

    2023  Volume 18, Issue 1, Page(s) e0280657

    Abstract: Introduction: Most strategies for prevention of venous thromboembolism focus on preventing recurrent events. Yet, primary prevention might be possible through approaches targeting the whole population or high-risk patients. To inform possible prevention ...

    Abstract Introduction: Most strategies for prevention of venous thromboembolism focus on preventing recurrent events. Yet, primary prevention might be possible through approaches targeting the whole population or high-risk patients. To inform possible prevention strategies, population-based information on the ability of genetic risk scores to identify risk of incident venous thromboembolism is needed.
    Materials and methods: We used proportional hazards regression to relate two published genetic risk scores (273-variants versus 5-variants) with venous thromboembolism incidence in the Atherosclerosis Risk in Communities Study (ARIC) cohort (n = 11,292), aged 45-64 at baseline, drawn from 4 US communities.
    Results: Over a median of 28 years, ARIC identified 788 incident venous thromboembolism events. Incidence rates rose more than two-fold across quartiles of the 273-variant genetic risk score: 1.7, 2.7, 3.4 and 4.0 per 1,000 person-years. For White participants, age, sex, and ancestry-adjusted hazard ratios (95% confidence intervals) across quartiles were strong [1 (reference), 1.30 (0.99,1.70), 1.85 (1.43,2.40), and 2.58 (2.04,3.28)] but weaker for Black participants [1, 1.05 (0.63,1.75), 1.37 (0.84,2.22), and 1.32 (0.80,2.20)]. The 5-variant genetic risk score showed a less steep gradient, with hazard ratios in Whites of 1, 1.17 (0.89,1.54), 1.48 (1.14,1.92), and 2.18 (1.71,2.79). Models including the 273-variant genetic risk score plus lifestyle and clinical factors had a c-statistic of 0.67.
    Conclusions: In the general population, middle-aged adults in the highest quartile of either genetic risk score studied have approximately two-fold higher risk of an incident venous thromboembolism compared with the lowest quartile. The genetic risk scores show a weaker association with venous thromboembolism for Black people.
    MeSH term(s) Middle Aged ; Humans ; Adult ; Incidence ; Venous Thromboembolism/epidemiology ; Venous Thromboembolism/genetics ; Risk Factors ; Black People ; Atherosclerosis/complications ; Proportional Hazards Models
    Language English
    Publishing date 2023-01-30
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 2267670-3
    ISSN 1932-6203 ; 1932-6203
    ISSN (online) 1932-6203
    ISSN 1932-6203
    DOI 10.1371/journal.pone.0280657
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  9. Article ; Online: Prediction of venous thromboembolism incidence in the general adult population using two published genetic risk scores

    Aaron R. Folsom / Weihong Tang / Ching-Ping Hong / Wayne D. Rosamond / John A. Lane / Mary Cushman / Nathan Pankratz

    PLoS ONE, Vol 18, Iss

    2023  Volume 1

    Abstract: Introduction Most strategies for prevention of venous thromboembolism focus on preventing recurrent events. Yet, primary prevention might be possible through approaches targeting the whole population or high-risk patients. To inform possible prevention ... ...

    Abstract Introduction Most strategies for prevention of venous thromboembolism focus on preventing recurrent events. Yet, primary prevention might be possible through approaches targeting the whole population or high-risk patients. To inform possible prevention strategies, population-based information on the ability of genetic risk scores to identify risk of incident venous thromboembolism is needed. Materials and methods We used proportional hazards regression to relate two published genetic risk scores (273-variants versus 5-variants) with venous thromboembolism incidence in the Atherosclerosis Risk in Communities Study (ARIC) cohort (n = 11,292), aged 45–64 at baseline, drawn from 4 US communities. Results Over a median of 28 years, ARIC identified 788 incident venous thromboembolism events. Incidence rates rose more than two-fold across quartiles of the 273-variant genetic risk score: 1.7, 2.7, 3.4 and 4.0 per 1,000 person-years. For White participants, age, sex, and ancestry-adjusted hazard ratios (95% confidence intervals) across quartiles were strong [1 (reference), 1.30 (0.99,1.70), 1.85 (1.43,2.40), and 2.58 (2.04,3.28)] but weaker for Black participants [1, 1.05 (0.63,1.75), 1.37 (0.84,2.22), and 1.32 (0.80,2.20)]. The 5-variant genetic risk score showed a less steep gradient, with hazard ratios in Whites of 1, 1.17 (0.89,1.54), 1.48 (1.14,1.92), and 2.18 (1.71,2.79). Models including the 273-variant genetic risk score plus lifestyle and clinical factors had a c-statistic of 0.67. Conclusions In the general population, middle-aged adults in the highest quartile of either genetic risk score studied have approximately two-fold higher risk of an incident venous thromboembolism compared with the lowest quartile. The genetic risk scores show a weaker association with venous thromboembolism for Black people.
    Keywords Medicine ; R ; Science ; Q
    Language English
    Publishing date 2023-01-01T00:00:00Z
    Publisher Public Library of Science (PLoS)
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  10. Article ; Online: Prediction of venous thromboembolism incidence in the general adult population using two published genetic risk scores.

    Aaron R Folsom / Weihong Tang / Ching-Ping Hong / Wayne D Rosamond / John A Lane / Mary Cushman / Nathan Pankratz

    PLoS ONE, Vol 18, Iss 1, p e

    2023  Volume 0280657

    Abstract: Introduction Most strategies for prevention of venous thromboembolism focus on preventing recurrent events. Yet, primary prevention might be possible through approaches targeting the whole population or high-risk patients. To inform possible prevention ... ...

    Abstract Introduction Most strategies for prevention of venous thromboembolism focus on preventing recurrent events. Yet, primary prevention might be possible through approaches targeting the whole population or high-risk patients. To inform possible prevention strategies, population-based information on the ability of genetic risk scores to identify risk of incident venous thromboembolism is needed. Materials and methods We used proportional hazards regression to relate two published genetic risk scores (273-variants versus 5-variants) with venous thromboembolism incidence in the Atherosclerosis Risk in Communities Study (ARIC) cohort (n = 11,292), aged 45-64 at baseline, drawn from 4 US communities. Results Over a median of 28 years, ARIC identified 788 incident venous thromboembolism events. Incidence rates rose more than two-fold across quartiles of the 273-variant genetic risk score: 1.7, 2.7, 3.4 and 4.0 per 1,000 person-years. For White participants, age, sex, and ancestry-adjusted hazard ratios (95% confidence intervals) across quartiles were strong [1 (reference), 1.30 (0.99,1.70), 1.85 (1.43,2.40), and 2.58 (2.04,3.28)] but weaker for Black participants [1, 1.05 (0.63,1.75), 1.37 (0.84,2.22), and 1.32 (0.80,2.20)]. The 5-variant genetic risk score showed a less steep gradient, with hazard ratios in Whites of 1, 1.17 (0.89,1.54), 1.48 (1.14,1.92), and 2.18 (1.71,2.79). Models including the 273-variant genetic risk score plus lifestyle and clinical factors had a c-statistic of 0.67. Conclusions In the general population, middle-aged adults in the highest quartile of either genetic risk score studied have approximately two-fold higher risk of an incident venous thromboembolism compared with the lowest quartile. The genetic risk scores show a weaker association with venous thromboembolism for Black people.
    Keywords Medicine ; R ; Science ; Q
    Language English
    Publishing date 2023-01-01T00:00:00Z
    Publisher Public Library of Science (PLoS)
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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