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  1. Article ; Online: Weighing up the evidence used by direct-to-consumer stem cell businesses.

    Cook, Margaret / Richey, Alexandra / Brafman, David A / Frow, Emma K

    Stem cell reports

    2021  Volume 16, Issue 12, Page(s) 2852–2860

    Abstract: Hundreds of businesses across the United States offer direct-to-consumer stem-cell-based interventions that have not been approved by the Food and Drug Administration. Here, we characterize the types of evidence used on the websites of 59 stem cell ... ...

    Abstract Hundreds of businesses across the United States offer direct-to-consumer stem-cell-based interventions that have not been approved by the Food and Drug Administration. Here, we characterize the types of evidence used on the websites of 59 stem cell businesses in the Southwest United States to market their services. We identify over a dozen forms of evidence, noting that businesses are less likely to rely on "gold-standard" scientific evidence, like randomized clinical trials, and instead draw substantially on forms of evidence that we identify as being "ambiguous." Ambiguous evidence has some scientific or medical basis, but its interpretation is highly context-dependent. These findings highlight the interpretive responsibility placed on prospective patients. We identify actions for regulators and professional societies to assist with evaluating evidence, but caution that focusing on the (in)validity of particular evidence types is unlikely to eliminate demand for stem-cell-based treatments in this complex marketplace.
    MeSH term(s) Direct-to-Consumer Advertising ; Humans ; Peer Review, Research ; Periodicals as Topic ; Stem Cells/cytology
    Language English
    Publishing date 2021-11-11
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2720528-9
    ISSN 2213-6711 ; 2213-6711
    ISSN (online) 2213-6711
    ISSN 2213-6711
    DOI 10.1016/j.stemcr.2021.10.007
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article: Cis

    Ginley-Hidinger, Matthew / Abewe, Hosiana / Osborne, Kyle / Richey, Alexandra / Kitchen, Noel / Mortenson, Katelyn L / Wissink, Erin M / Lis, John / Zhang, Xiaoyang / Gertz, Jason

    bioRxiv : the preprint server for biology

    2024  

    Abstract: Cis-regulatory elements control transcription levels, temporal dynamics, and cell-cell variation or transcriptional noise. However, the combination of regulatory features that control these different attributes is not fully understood. Here, we used ... ...

    Abstract Cis-regulatory elements control transcription levels, temporal dynamics, and cell-cell variation or transcriptional noise. However, the combination of regulatory features that control these different attributes is not fully understood. Here, we used single cell RNA-seq during an estrogen treatment time course and machine learning to identify predictors of expression timing and noise. We find that genes with multiple active enhancers exhibit faster temporal responses. We verified this finding by showing that manipulation of enhancer activity changes the temporal response of estrogen target genes. Analysis of transcriptional noise uncovered a relationship between promoter and enhancer activity, with active promoters associated with low noise and active enhancers linked to high noise. Finally, we observed that co-expression across single cells is an emergent property associated with chromatin looping, timing, and noise. Overall, our results indicate a fundamental tradeoff between a gene's ability to quickly respond to incoming signals and maintain low variation across cells.
    Language English
    Publishing date 2024-02-14
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2023.03.14.532457
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Cis-regulatory control of transcriptional timing and noise in response to estrogen.

    Ginley-Hidinger, Matthew / Abewe, Hosiana / Osborne, Kyle / Richey, Alexandra / Kitchen, Noel / Mortenson, Katelyn L / Wissink, Erin M / Lis, John / Zhang, Xiaoyang / Gertz, Jason

    Cell genomics

    2024  Volume 4, Issue 5, Page(s) 100542

    Abstract: Cis-regulatory elements control transcription levels, temporal dynamics, and cell-cell variation or transcriptional noise. However, the combination of regulatory features that control these different attributes is not fully understood. Here, we used ... ...

    Abstract Cis-regulatory elements control transcription levels, temporal dynamics, and cell-cell variation or transcriptional noise. However, the combination of regulatory features that control these different attributes is not fully understood. Here, we used single-cell RNA-seq during an estrogen treatment time course and machine learning to identify predictors of expression timing and noise. We found that genes with multiple active enhancers exhibit faster temporal responses. We verified this finding by showing that manipulation of enhancer activity changes the temporal response of estrogen target genes. Analysis of transcriptional noise uncovered a relationship between promoter and enhancer activity, with active promoters associated with low noise and active enhancers linked to high noise. Finally, we observed that co-expression across single cells is an emergent property associated with chromatin looping, timing, and noise. Overall, our results indicate a fundamental tradeoff between a gene's ability to quickly respond to incoming signals and maintain low variation across cells.
    MeSH term(s) Humans ; Chromatin/genetics ; Enhancer Elements, Genetic ; Estrogens/physiology ; Gene Expression Regulation ; Machine Learning ; Promoter Regions, Genetic ; Single-Cell Analysis ; Transcription, Genetic
    Chemical Substances Chromatin ; Estrogens
    Language English
    Publishing date 2024-04-24
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ISSN 2666-979X
    ISSN (online) 2666-979X
    DOI 10.1016/j.xgen.2024.100542
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article: Uncertainty in global groundwater storage estimates in a Total Groundwater Stress framework.

    Richey, Alexandra S / Thomas, Brian F / Lo, Min-Hui / Famiglietti, James S / Swenson, Sean / Rodell, Matthew

    Water resources research

    2015  Volume 51, Issue 7, Page(s) 5198–5216

    Abstract: Groundwater resilience is defined and quantified with remote sensing from GRACETimescales of aquifer depletion are assessed as a Total Groundwater Stress ratioThe volume of usable global groundwater storage is found to be largely unknown. ...

    Abstract Groundwater resilience is defined and quantified with remote sensing from GRACETimescales of aquifer depletion are assessed as a Total Groundwater Stress ratioThe volume of usable global groundwater storage is found to be largely unknown.
    Language English
    Publishing date 2015-07-14
    Publishing country United States
    Document type Journal Article
    ZDB-ID 5564-5
    ISSN 1944-7973 ; 0043-1397
    ISSN (online) 1944-7973
    ISSN 0043-1397
    DOI 10.1002/2015WR017351
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Water Storage Trends in High Mountain Asia.

    Loomis, Bryant D / Richey, Alexandra S / Arendt, Anthony A / Appana, Ravi / Deweese, Y-J C / Forman, Bart A / Kumar, Sujay V / Sabaka, Terence J / Shean, David E

    Frontiers in earth science

    2019  Volume 7

    Abstract: Changes in terrestrial water storage (TWS) in High Mountain Asia (HMA) could have major societal impacts, as the region's large reservoirs of glaciers, snow, and groundwater provide a freshwater source to more than one billion people. We seek to quantify ...

    Abstract Changes in terrestrial water storage (TWS) in High Mountain Asia (HMA) could have major societal impacts, as the region's large reservoirs of glaciers, snow, and groundwater provide a freshwater source to more than one billion people. We seek to quantify and close the budget of secular changes in TWS over the span of the GRACE satellite mission (2003-2016). To assess the TWS trend budget we consider a new high-resolution mass trend product determined directly from GRACE L1B data, glacier mass balance derived from Digital Elevation Models (DEMs), groundwater variability determined from confined and unconfined well observations, and terrestrial water budget estimates from a suite of land surface model simulations with the NASA Land Information System (LIS). This effort is successful at closing the aggregated TWS trend budget over the entire HMA region, the glaciated portion of HMA, and the Indus and Ganges basins, where the full-region trends are primarily due to the glacier mass balance and groundwater signals. Additionally, we investigate the closure of TWS trends at individual 1-arc-degree mascons (area ≈12,000 km
    Language English
    Publishing date 2019-09-26
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2741235-0
    ISSN 2296-6463 ; 2296-6463
    ISSN (online) 2296-6463
    ISSN 2296-6463
    DOI 10.3389/feart.2019.00235
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article: Quantifying renewable groundwater stress with GRACE.

    Richey, Alexandra S / Thomas, Brian F / Lo, Min-Hui / Reager, John T / Famiglietti, James S / Voss, Katalyn / Swenson, Sean / Rodell, Matthew

    Water resources research

    2015  Volume 51, Issue 7, Page(s) 5217–5238

    Abstract: Renewable groundwater stress is quantified in the world's largest aquifersCharacteristic stress regimes are defined to determine the severity of stressOverstressed aquifers are mainly in rangeland biomes with some croplands. ...

    Abstract Renewable groundwater stress is quantified in the world's largest aquifersCharacteristic stress regimes are defined to determine the severity of stressOverstressed aquifers are mainly in rangeland biomes with some croplands.
    Language English
    Publishing date 2015-07-14
    Publishing country United States
    Document type Journal Article
    ZDB-ID 5564-5
    ISSN 1944-7973 ; 0043-1397
    ISSN (online) 1944-7973
    ISSN 0043-1397
    DOI 10.1002/2015WR017349
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article: Uncertainty in global groundwater storage estimates in a Total Groundwater Stress framework

    Richey, Alexandra S. / Thomas, Brian F. / Lo, Min-Hui / Famiglietti, James S. / Swenson, Sean / Rodell, Matthew

    Water resources research

    2015  Volume 51, Issue 7, Page(s) 5198

    Language English
    Document type Article
    ZDB-ID 5564-5
    ISSN 0043-1397
    DOI 10.1002/2015WR017351
    Database Current Contents Nutrition, Environment, Agriculture

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  8. Article ; Online: Evaluating the uncertainty of terrestrial water budget components over High Mountain Asia.

    Yoon, Yeosang / Kumar, Sujay V / Forman, Barton A / Zaitchik, Benjamin F / Kwon, Yonghwan / Qian, Yun / Rupper, Summer / Maggioni, Viviana / Houser, Paul / Kirschbaum, Dalia / Richey, Alexandra / Arendt, Anthony / Mocko, David / Jacob, Jossy / Bhanja, Soumendra / Mukherjee, Abhijit

    Frontiers in earth science

    2019  Volume 7

    Abstract: This study explores the uncertainties in terrestrial water budget estimation over High Mountain Asia (HMA) using a suite of uncoupled land surface model (LSM) simulations. The uncertainty in the water balance components of precipitation ( ...

    Abstract This study explores the uncertainties in terrestrial water budget estimation over High Mountain Asia (HMA) using a suite of uncoupled land surface model (LSM) simulations. The uncertainty in the water balance components of precipitation (
    Language English
    Publishing date 2019-05-24
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2741235-0
    ISSN 2296-6463 ; 2296-6463
    ISSN (online) 2296-6463
    ISSN 2296-6463
    DOI 10.3389/feart.2019.00120
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article: Reply to comment by Sahoo et al. on 'Quantifying renewable groundwater stress with GRACE

    Richey, Alexandra S. / Thomas, Brian F. / Lo, Min-Hui / Reager, John T. / Famiglietti, James S. / Voss, Katalyn / Swenson, Sean / Rodell, Matthew

    Water resources research

    2016  Volume 52, Issue 5, Page(s) 4188

    Language English
    Document type Article
    Note This article is a reply to Sahoo et al. [2016], doi: 10.1002/2015WR018085
    ZDB-ID 5564-5
    ISSN 0043-1397
    DOI 10.1002/2015WR018329
    Database Current Contents Nutrition, Environment, Agriculture

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  10. Article: Quantifying renewable groundwater stress with GRACE

    Richey, Alexandra S. / Thomas, Brian F. / Lo, Min-Hui / Reager, John T. / Famiglietti, James S. / Voss, Katalyn / Swenson, Sean / Rodell, Matthew

    Water resources research

    2015  Volume 51, Issue 7, Page(s) 5217

    Language English
    Document type Article
    ZDB-ID 5564-5
    ISSN 0043-1397
    DOI 10.1002/2015WR017349
    Database Current Contents Nutrition, Environment, Agriculture

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