David E. Neal
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View article: EvidenceBench: A Benchmark for Extracting Evidence from Biomedical Papers
EvidenceBench: A Benchmark for Extracting Evidence from Biomedical Papers Open
We study the task of automatically finding evidence relevant to hypotheses in biomedical papers. Finding relevant evidence is an important step when researchers investigate scientific hypotheses. We introduce EvidenceBench to measure model…
View article: Setting the Stage for Branched-Chain Amino Acids Use in Neurological Pathologies: Does a Single Oral Dose Provide Hours of Elevated Systemic Levels?
Setting the Stage for Branched-Chain Amino Acids Use in Neurological Pathologies: Does a Single Oral Dose Provide Hours of Elevated Systemic Levels? Open
Background: Recent studies have demonstrated that branched-chain amino acids are neuroprotective and neurorestorative. Branched-chain amino acid supplements are now being recommended to be taken before contact sports to reduce concussions.…
View article: Specificity of a polygenic score for aggressive prostate cancer
Specificity of a polygenic score for aggressive prostate cancer Open
To address the concern that polygenic hazard scores for prostate cancer (PCa) might not distinguish between indolent and aggressive disease, we performed case-only analyses using a 601-variant polygenic score (PHS601). We hypothesized that…
View article: From a genomic risk model to clinical trial implementation in a learning health system: the ProGRESS Study
From a genomic risk model to clinical trial implementation in a learning health system: the ProGRESS Study Open
Background As healthcare moves from a one-size-fits-all approach towards precision care, individual risk prediction is an important step in disease prevention and early detection. Biobank-linked healthcare systems can generate knowledge ab…
View article: Prostate-Specific Antigen Screening and 15-Year Prostate Cancer Mortality
Prostate-Specific Antigen Screening and 15-Year Prostate Cancer Mortality Open
Importance The Cluster Randomized Trial of PSA Testing for Prostate Cancer (CAP) reported no effect of prostate-specific antigen (PSA) screening on prostate cancer mortality at a median 10-year follow-up (primary outcome), but the long-ter…
View article: Genomic evolution shapes prostate cancer disease type
Genomic evolution shapes prostate cancer disease type Open
View article: Evaluating approaches for constructing polygenic risk scores for prostate cancer in men of African and European ancestry
Evaluating approaches for constructing polygenic risk scores for prostate cancer in men of African and European ancestry Open
View article: Evaluating Approaches for Constructing Polygenic Risk Scores for Prostate Cancer in Men of African and European Ancestry
Evaluating Approaches for Constructing Polygenic Risk Scores for Prostate Cancer in Men of African and European Ancestry Open
Genome-wide polygenic risk scores (GW-PRS) have been reported to have better predictive ability than PRS based on genome-wide significance thresholds across numerous traits. We compared the predictive ability of several GW-PRS approaches t…
View article: Supplementary Tables 2 - 5, Figures 2 - 3 from A Large-Scale Analysis of Genetic Variants within Putative miRNA Binding Sites in Prostate Cancer
Supplementary Tables 2 - 5, Figures 2 - 3 from A Large-Scale Analysis of Genetic Variants within Putative miRNA Binding Sites in Prostate Cancer Open
Supplementary Table 2. Indolent versus aggressive disease analysis. Supplementary Table 3. Geometric mean PSA levels by genotype in cases and controls. Supplementary Table 4. Association of miRSNPs with prostate cancer risk in different ag…
View article: Supplementary Figure 1 from A Large-Scale Analysis of Genetic Variants within Putative miRNA Binding Sites in Prostate Cancer
Supplementary Figure 1 from A Large-Scale Analysis of Genetic Variants within Putative miRNA Binding Sites in Prostate Cancer Open
Supplementary Figure 1. Forest Plot (Fixed effects model) of the 22 prostate cancer risk associated miRSNPs.
View article: Data from ProDiet: A Phase II Randomized Placebo-controlled Trial of Green Tea Catechins and Lycopene in Men at Increased Risk of Prostate Cancer
Data from ProDiet: A Phase II Randomized Placebo-controlled Trial of Green Tea Catechins and Lycopene in Men at Increased Risk of Prostate Cancer Open
Epidemiologic studies suggest that diet can alter prostate cancer risk. This study aimed to establish the feasibility and acceptability of dietary modification in men at increased risk of prostate cancer. Men were invited with a PSA level …
View article: Supplementary Figure 5 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer
Supplementary Figure 5 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer Open
Supplementary Figure 5. Validation of SIK2, TORC1, TORC2 and TORC3 antibodies by Western-Blot.
View article: Supplementary Figure 1 from ProDiet: A Phase II Randomized Placebo-controlled Trial of Green Tea Catechins and Lycopene in Men at Increased Risk of Prostate Cancer
Supplementary Figure 1 from ProDiet: A Phase II Randomized Placebo-controlled Trial of Green Tea Catechins and Lycopene in Men at Increased Risk of Prostate Cancer Open
Figure of changes in lycopene and green tea intake over 6 months
View article: Supplementary Tables 2 - 5, Figures 2 - 3 from A Large-Scale Analysis of Genetic Variants within Putative miRNA Binding Sites in Prostate Cancer
Supplementary Tables 2 - 5, Figures 2 - 3 from A Large-Scale Analysis of Genetic Variants within Putative miRNA Binding Sites in Prostate Cancer Open
Supplementary Table 2. Indolent versus aggressive disease analysis. Supplementary Table 3. Geometric mean PSA levels by genotype in cases and controls. Supplementary Table 4. Association of miRSNPs with prostate cancer risk in different ag…
View article: Supplementary Figure Legend from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer
Supplementary Figure Legend from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer Open
Supplementary Figure Legend
View article: Data from The Histone Demethylase JMJD2B Plays an Essential Role in Human Carcinogenesis through Positive Regulation of Cyclin-Dependent Kinase 6
Data from The Histone Demethylase JMJD2B Plays an Essential Role in Human Carcinogenesis through Positive Regulation of Cyclin-Dependent Kinase 6 Open
Histone methyltransferases and demethylases are known to regulate transcription by altering the epigenetic marks on histones, but the pathologic roles of their dysfunction in human diseases, such as cancer, still remain to be elucidated. H…
View article: Supplementary Figure 8 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer
Supplementary Figure 8 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer Open
Supplementary Figure 8 (Relates to Figure 6) - SIK2 regulates a cell cycle network and a ER stress network related to cancer.
View article: Supplementary Acknowledgments from Genome-Wide Meta-Analyses of Breast, Ovarian, and Prostate Cancer Association Studies Identify Multiple New Susceptibility Loci Shared by at Least Two Cancer Types
Supplementary Acknowledgments from Genome-Wide Meta-Analyses of Breast, Ovarian, and Prostate Cancer Association Studies Identify Multiple New Susceptibility Loci Shared by at Least Two Cancer Types Open
Supplementary Acknowledgments
View article: Data from A Large-Scale Analysis of Genetic Variants within Putative miRNA Binding Sites in Prostate Cancer
Data from A Large-Scale Analysis of Genetic Variants within Putative miRNA Binding Sites in Prostate Cancer Open
Prostate cancer is the second most common malignancy among men worldwide. Genome-wide association studies have identified 100 risk variants for prostate cancer, which can explain approximately 33% of the familial risk of the disease. We hy…
View article: Supplementary Table S2 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer
Supplementary Table S2 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer Open
Supplementary Table S2. Detailed lists of differentially expressed genes (DEG) up- or down-regulated after treatment with Forskolin (Forsk.), over-expression of wild-type SIK2 or kinase-dead SIK2 (KI) and SIK2 knock-down (SIK2si). The numb…
View article: Supplementary Figure 7 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer
Supplementary Figure 7 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer Open
Supplementary Figure 7 (Relates to Figure 6) - Validation of microarray hits.
View article: Data from A Large-Scale Analysis of Genetic Variants within Putative miRNA Binding Sites in Prostate Cancer
Data from A Large-Scale Analysis of Genetic Variants within Putative miRNA Binding Sites in Prostate Cancer Open
Prostate cancer is the second most common malignancy among men worldwide. Genome-wide association studies have identified 100 risk variants for prostate cancer, which can explain approximately 33% of the familial risk of the disease. We hy…
View article: Supplementary Figure 1 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer
Supplementary Figure 1 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer Open
Supplementary Figure 1 (Relates to Figure 2) - Kinase-dead SIK2 and SIK2 knock-down reduce proliferation of LNCaP cells.
View article: Supplementary Tables S1 - S10 from Genome-Wide Meta-Analyses of Breast, Ovarian, and Prostate Cancer Association Studies Identify Multiple New Susceptibility Loci Shared by at Least Two Cancer Types
Supplementary Tables S1 - S10 from Genome-Wide Meta-Analyses of Breast, Ovarian, and Prostate Cancer Association Studies Identify Multiple New Susceptibility Loci Shared by at Least Two Cancer Types Open
Supplementary Table S1. Known risk loci for each cancer. Supplementary Table S2. Regions where known index SNPs for at least two of the three cancers lie within 1 Mb of each other. Supplementary Table S3. Full results from the meta-analysi…
View article: Supplementary Figures 1-7, Tables 1-7 from The Histone Demethylase JMJD2B Plays an Essential Role in Human Carcinogenesis through Positive Regulation of Cyclin-Dependent Kinase 6
Supplementary Figures 1-7, Tables 1-7 from The Histone Demethylase JMJD2B Plays an Essential Role in Human Carcinogenesis through Positive Regulation of Cyclin-Dependent Kinase 6 Open
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View article: Supplementary Figure 1 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer
Supplementary Figure 1 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer Open
Supplementary Figure 1 (Relates to Figure 2) - Kinase-dead SIK2 and SIK2 knock-down reduce proliferation of LNCaP cells.
View article: Supplementary Table 1 from A Large-Scale Analysis of Genetic Variants within Putative miRNA Binding Sites in Prostate Cancer
Supplementary Table 1 from A Large-Scale Analysis of Genetic Variants within Putative miRNA Binding Sites in Prostate Cancer Open
Supplementary Table 1. Prostate cancer risk estimates for 2169 putative miRSNPs.
View article: Supplementary Table S1 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer
Supplementary Table S1 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer Open
Supplementary Table S1. qRT-PCR primer sequences. When primer sequences were not from published studies, they were designed using Integrated DNA Technologies software.
View article: Supplementary Figure 1 from A Large-Scale Analysis of Genetic Variants within Putative miRNA Binding Sites in Prostate Cancer
Supplementary Figure 1 from A Large-Scale Analysis of Genetic Variants within Putative miRNA Binding Sites in Prostate Cancer Open
Supplementary Figure 1. Forest Plot (Fixed effects model) of the 22 prostate cancer risk associated miRSNPs.
View article: Supplementary Table S2 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer
Supplementary Table S2 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer Open
Supplementary Table S2. Detailed lists of differentially expressed genes (DEG) up- or down-regulated after treatment with Forskolin (Forsk.), over-expression of wild-type SIK2 or kinase-dead SIK2 (KI) and SIK2 knock-down (SIK2si). The numb…