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  1. AU="Knowlton, Nicholas"
  2. AU="Sagan, Sandrine"
  3. AU="Rimoldi, Ornella"

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  1. Article ; Online: Clinically Relevant Biology of Hyaluronic Acid in the Desmoplastic Stroma of Pancreatic Ductal Adenocarcinoma.

    Jahedi, Hossein / Ramachandran, Anassuya / Windsor, John / Knowlton, Nicholas / Blenkiron, Cherie / Print, Cristin G

    Pancreas

    2023  Volume 51, Issue 9, Page(s) 1092–1104

    Abstract: Abstract: Pancreatic ductal adenocarcinoma (PDAC) is notorious for its poor outcome. The presence of a dense desmoplastic stroma is a hallmark of this malignancy, and abundant hyaluronic acid (HA) within this stroma is a common feature of PDAC. At the ... ...

    Abstract Abstract: Pancreatic ductal adenocarcinoma (PDAC) is notorious for its poor outcome. The presence of a dense desmoplastic stroma is a hallmark of this malignancy, and abundant hyaluronic acid (HA) within this stroma is a common feature of PDAC. At the end of 2019, an HA-targeting drug, after initial promise, failed phase 3 clinical trials in PDAC. This failure in the face of such strong evidence for biological importance forces us to turn back to the research and seek a better understanding of HA biology in PDAC. Therefore, in this review, we reexamine what is known about HA biology, the methods used to detect and quantify HA, and the ability of the biological models in which HA has been investigated to recapitulate an HA-rich desmoplastic tumor stroma. The role of HA in PDAC relies on its complex interplay with a range of HA-associated molecules, which have not been as extensively investigated as HA itself. Therefore, using large genomic data sets, we cataloged the abundance and activity in PDAC of molecules that modulate HA synthesis, degradation, protein interactions, and receptor binding. Based on their association with clinical characteristics and individual patient outcomes, we suggest a small number of HA-associated molecules that warrant further investigation as biomarkers and drug targets.
    MeSH term(s) Humans ; Hyaluronic Acid/metabolism ; Pancreatic Neoplasms/drug therapy ; Pancreatic Neoplasms/genetics ; Pancreatic Neoplasms/metabolism ; Carcinoma, Pancreatic Ductal/drug therapy ; Carcinoma, Pancreatic Ductal/genetics ; Carcinoma, Pancreatic Ductal/metabolism ; Biology ; Pancreatic Neoplasms
    Chemical Substances Hyaluronic Acid (9004-61-9)
    Language English
    Publishing date 2023-04-20
    Publishing country United States
    Document type Review ; Journal Article
    ZDB-ID 632831-3
    ISSN 1536-4828 ; 0885-3177
    ISSN (online) 1536-4828
    ISSN 0885-3177
    DOI 10.1097/MPA.0000000000002154
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article: Breast Cancer Patient Prognosis Is Determined by the Interplay between

    Lasham, Annette / Knowlton, Nicholas / Mehta, Sunali Y / Braithwaite, Antony W / Print, Cristin G

    Cancers

    2021  Volume 13, Issue 7

    Abstract: ... ...

    Abstract The
    Language English
    Publishing date 2021-03-26
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2527080-1
    ISSN 2072-6694
    ISSN 2072-6694
    DOI 10.3390/cancers13071531
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Identification of novel biomarkers for the prediction of subclinical coronary artery atherosclerosis in patients with rheumatoid arthritis: an exploratory analysis.

    Bathon, Joan M / Centola, Michael / Liu, Xiaoqian / Jin, Zhicheng / Ji, Weihua / Knowlton, Nicholas S / Ferraz-Amaro, Iván / Fu, Qin / Giles, Jon T / Wasko, Mary Chester / Stein, C Michael / Van Eyk, Jennifer E

    Arthritis research & therapy

    2023  Volume 25, Issue 1, Page(s) 213

    Abstract: Background: Cardiovascular (CV) risk estimation calculators for the general population underperform in patients with rheumatoid arthritis (RA). The purpose of this study was to identify relevant protein biomarkers that could be added to traditional CV ... ...

    Abstract Background: Cardiovascular (CV) risk estimation calculators for the general population underperform in patients with rheumatoid arthritis (RA). The purpose of this study was to identify relevant protein biomarkers that could be added to traditional CV risk calculators to improve the capacity of coronary artery calcification (CAC) prediction in individuals with RA. In a second step, we quantify the improvement of this prediction of CAC when these circulating biomarkers are added to standard risk scores.
    Methods: A panel of 141 serum and plasma proteins, which represent a broad base of both CV and RA biology, were evaluated and prioritized as candidate biomarkers. Of these, 39 proteins were selected and measured by commercial ELISA or quantitative mass spectroscopy in 561 individuals with RA in whom a measure of CAC and frozen sera were available. The patients were randomly split 50:50 into a training/validation cohort. Discrimination (using area under the receiver operator characteristic curves) and re-classification (through net reclassification improvement and integrated discrimination improvement calculation) analyses were performed first in the training cohort and replicated in the validation cohort, to estimate the increase in prediction accuracy for CAC using the ACA/AHA (American College of Cardiology and the American Heart Association) score with, compared to without, addition of these circulating biomarkers.
    Results: The model containing ACC/AHA score plus cytokines (osteopontin, cartilage glycoprotein-39, cystatin C, and chemokine (C-C motif) ligand 18) and plus quantitative mass spectroscopy biomarkers (serpin D1, paraoxonase, and clusterin) had a statistically significant positive net reclassifications index and integrated discrimination improvement for the prediction of CAC, using ACC/AHA score without any biomarkers as the reference category. These results were confirmed in the validation cohort.
    Conclusion: In this exploratory analysis, the addition of several circulating CV and RA biomarkers to a standard CV risk calculator yielded significant improvements in discrimination and reclassification for the presence of CAC in individuals with RA.
    MeSH term(s) Humans ; United States ; Risk Assessment ; Coronary Artery Disease/diagnosis ; Coronary Artery Disease/epidemiology ; Arthritis, Rheumatoid/complications ; Arthritis, Rheumatoid/epidemiology ; Biomarkers ; Atherosclerosis/complications
    Chemical Substances Biomarkers
    Language English
    Publishing date 2023-10-30
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, N.I.H., Extramural
    ZDB-ID 2107602-9
    ISSN 1478-6362 ; 1478-6354
    ISSN (online) 1478-6362
    ISSN 1478-6354
    DOI 10.1186/s13075-023-03196-3
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Deletion of Grin1 in mouse megakaryocytes reveals NMDA receptor role in platelet function and proplatelet formation.

    Hearn, James I / Green, Taryn N / Hisey, Colin L / Bender, Markus / Josefsson, Emma C / Knowlton, Nicholas / Baumann, Juliane / Poulsen, Raewyn C / Bohlander, Stefan K / Kalev-Zylinska, Maggie L

    Blood

    2022  Volume 139, Issue 17, Page(s) 2673–2690

    Abstract: The process of proplatelet formation (PPF) requires coordinated interaction between megakaryocytes (MKs) and the extracellular matrix (ECM), followed by a dynamic reorganization of the actin and microtubule cytoskeleton. Localized fluxes of intracellular ...

    Abstract The process of proplatelet formation (PPF) requires coordinated interaction between megakaryocytes (MKs) and the extracellular matrix (ECM), followed by a dynamic reorganization of the actin and microtubule cytoskeleton. Localized fluxes of intracellular calcium ions (Ca2+) facilitate MK-ECM interaction and PPF. Glutamate-gated N-methyl-D-aspartate receptor (NMDAR) is highly permeable to Ca2+. NMDAR antagonists inhibit MK maturation ex vivo; however, there are no in vivo data. Using the Cre-loxP system, we generated a platelet lineage-specific knockout mouse model of reduced NMDAR function in MKs and platelets (Pf4-Grin1-/- mice). Effects of NMDAR deletion were examined using well-established assays of platelet function and production in vivo and ex vivo. We found that Pf4-Grin1-/- mice had defects in megakaryopoiesis, thrombopoiesis, and platelet function, which manifested as reduced platelet counts, lower rates of platelet production in the immune model of thrombocytopenia, and prolonged tail bleeding time. Platelet activation was impaired to a range of agonists associated with reduced Ca2+ responses, including metabotropic like, and defective platelet spreading. MKs showed reduced colony and proplatelet formation. Impaired reorganization of intracellular F-actin and α-tubulin was identified as the main cause of reduced platelet function and production. Pf4-Grin1-/- MKs also had lower levels of transcripts encoding crucial ECM elements and enzymes, suggesting NMDAR signaling is involved in ECM remodeling. In summary, we provide the first genetic evidence that NMDAR plays an active role in platelet function and production. NMDAR regulates PPF through a mechanism that involves MK-ECM interaction and cytoskeletal reorganization. Our results suggest that NMDAR helps guide PPF in vivo.
    MeSH term(s) Actins/metabolism ; Animals ; Blood Platelets/metabolism ; Calcium ; Megakaryocytes/metabolism ; Mice ; Mice, Knockout ; Nerve Tissue Proteins/genetics ; Receptors, N-Methyl-D-Aspartate/genetics ; Receptors, N-Methyl-D-Aspartate/metabolism ; Thrombocytopenia/genetics ; Thrombopoiesis/physiology
    Chemical Substances Actins ; Gprin1 protein, mouse ; Nerve Tissue Proteins ; Receptors, N-Methyl-D-Aspartate ; Calcium (SY7Q814VUP)
    Language English
    Publishing date 2022-03-04
    Publishing country United States
    Document type Journal Article
    ZDB-ID 80069-7
    ISSN 1528-0020 ; 0006-4971
    ISSN (online) 1528-0020
    ISSN 0006-4971
    DOI 10.1182/blood.2021014000
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article: Accessing a New Dimension in TP53 Biology: Multiplex Long Amplicon Digital PCR to Specifically Detect and Quantitate Individual

    Lasham, Annette / Tsai, Peter / Fitzgerald, Sandra J / Mehta, Sunali Y / Knowlton, Nicholas S / Braithwaite, Antony W / Print, Cristin G

    Cancers

    2020  Volume 12, Issue 3

    Abstract: ... ...

    Abstract TP53
    Language English
    Publishing date 2020-03-24
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2527080-1
    ISSN 2072-6694
    ISSN 2072-6694
    DOI 10.3390/cancers12030769
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: N-Methyl-D-Aspartate Receptor Hypofunction in Meg-01 Cells Reveals a Role for Intracellular Calcium Homeostasis in Balancing Megakaryocytic-Erythroid Differentiation.

    Hearn, James I / Green, Taryn N / Chopra, Martin / Nursalim, Yohanes N S / Ladvanszky, Leandro / Knowlton, Nicholas / Blenkiron, Cherie / Poulsen, Raewyn C / Singleton, Dean C / Bohlander, Stefan K / Kalev-Zylinska, Maggie L

    Thrombosis and haemostasis

    2020  Volume 120, Issue 4, Page(s) 671–686

    Abstract: The release of calcium ions ( ... ...

    Abstract The release of calcium ions (Ca
    MeSH term(s) Apoptosis/genetics ; CRISPR-Cas Systems ; Calcium/metabolism ; Calcium Signaling ; Carcinogenesis ; Cell Differentiation ; Cell Line, Tumor ; Endoplasmic Reticulum Stress/genetics ; Erythrocytes/physiology ; Homeostasis ; Humans ; Leukemia, Myelogenous, Chronic, BCR-ABL Positive ; Megakaryocytes/physiology ; Receptors, N-Methyl-D-Aspartate/genetics ; Receptors, N-Methyl-D-Aspartate/metabolism ; Thrombopoiesis
    Chemical Substances Receptors, N-Methyl-D-Aspartate ; Calcium (SY7Q814VUP)
    Language English
    Publishing date 2020-04-14
    Publishing country Germany
    Document type Journal Article
    ZDB-ID 518294-3
    ISSN 2567-689X ; 0340-6245
    ISSN (online) 2567-689X
    ISSN 0340-6245
    DOI 10.1055/s-0040-1708483
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Validation of the power model of ovarian nongrowing follicle depletion associated with aging in women.

    Knowlton, Nicholas S / Craig, LaTasha B / Zavy, Michael T / Hansen, Karl R

    Fertility and sterility

    2014  Volume 101, Issue 3, Page(s) 851–856

    Abstract: Objective: To validate recently proposed models of ovarian nongrowing follicle (NGF) decay associated with aging within the context of an independent data set.: Design: Prospective investigation.: Setting: Academic medical center.: Patient(s): ... ...

    Abstract Objective: To validate recently proposed models of ovarian nongrowing follicle (NGF) decay associated with aging within the context of an independent data set.
    Design: Prospective investigation.
    Setting: Academic medical center.
    Patient(s): Normal appearing ovaries collected from 52 women (age 28-51 years) undergoing oophorectomy for benign gynecologic indications.
    Intervention(s): Determining ovarian NGF counts with systematic random sampling rules and a validated fractionator/optical disector technique. The goodness-of-fit of predicted NGF counts based on the power and double Gaussian models and those observed in the validation set was assessed with the calculation of the Akaike information criterion and R(2) values.
    Main outcome measure(s): The goodness-of-fit between observed and expected ovarian NGF counts.
    Result(s): The power model was an excellent fit to the observed data. The average difference between the observed and expected NGF count was 0.161 (95% CI, -0.058, 0.327). In the present study population, the power model was a superior fit to the observed data compared with the double Gaussian model.
    Conclusion(s): This prospective investigation with an independent set of ovarian NGF counts validates the power model as an excellent characterization of the ovarian NGF decline associated with aging.
    MeSH term(s) Adult ; Aging/metabolism ; Aging/pathology ; Female ; Humans ; Middle Aged ; Models, Biological ; Ovarian Follicle/metabolism ; Ovarian Follicle/pathology ; Prospective Studies
    Language English
    Publishing date 2014-03
    Publishing country United States
    Document type Journal Article ; Validation Studies
    ZDB-ID 80133-1
    ISSN 1556-5653 ; 0015-0282
    ISSN (online) 1556-5653
    ISSN 0015-0282
    DOI 10.1016/j.fertnstert.2013.12.008
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: A Predictor of Early Disease Recurrence in Patients With Breast Cancer Using a Cell-free RNA and Protein Liquid Biopsy.

    Lasham, Annette / Fitzgerald, Sandra J / Knowlton, Nicholas / Robb, Tamsin / Tsai, Peter / Black, Michael A / Williams, Liam / Mehta, Sunali Y / Harris, Gavin / Shelling, Andrew N / Blenkiron, Cherie / Print, Cristin G

    Clinical breast cancer

    2019  Volume 20, Issue 2, Page(s) 108–116

    Abstract: Introduction: Circulating biomarkers have been increasingly used in the clinical management of breast cancer. The present study evaluated whether RNAs and a protein present in the plasma of patients with breast cancer might have utility as prognostic ... ...

    Abstract Introduction: Circulating biomarkers have been increasingly used in the clinical management of breast cancer. The present study evaluated whether RNAs and a protein present in the plasma of patients with breast cancer might have utility as prognostic biomarkers complementary to existing clinical tests.
    Patients and methods: We performed microarray profiling of small noncoding RNAs in plasma samples from 30 patients with breast cancer and 10 control individuals. Two small noncoding RNAs, including microRNA (miR)-923, were selected and quantified in plasma samples from an evaluation cohort of 253 patients with breast cancer, using droplet digital polymerase chain reaction. We also measured cancer antigen (CA) 15-3 protein levels in these samples. Cox regression survival analysis was used to determine which markers were associated with patient prognosis.
    Results: As independent markers of prognosis, the plasma levels of miR-923 and CA 15-3 at the time of surgery for breast cancer were significantly associated with prognosis, irrespective of treatment (Cox proportional hazards, P = 3.9 × 10
    Conclusion: We propose that the plasma levels of miR-923 and CA 15-3, combined with standard clinicopathological predictors, could be used as a preoperative, noninvasive estimate of patient prognosis to identify which women might need more aggressive treatment or closer surveillance after surgery for breast cancer.
    MeSH term(s) Adult ; Aged ; Aged, 80 and over ; Biomarkers, Tumor/blood ; Biomarkers, Tumor/metabolism ; Breast Neoplasms/blood ; Breast Neoplasms/pathology ; Breast Neoplasms/surgery ; Case-Control Studies ; Cell-Free Nucleic Acids/blood ; Cell-Free Nucleic Acids/metabolism ; Disease-Free Survival ; Female ; Gene Expression Profiling ; Healthy Volunteers ; Humans ; Kaplan-Meier Estimate ; Liquid Biopsy/methods ; Mastectomy ; MicroRNAs/blood ; Middle Aged ; Mucin-1/blood ; Neoplasm Recurrence, Local/epidemiology ; Neoplasm Recurrence, Local/genetics ; Neoplasm Recurrence, Local/prevention & control ; Oligonucleotide Array Sequence Analysis ; Predictive Value of Tests ; Prognosis ; ROC Curve ; Risk Assessment/methods
    Chemical Substances Biomarkers, Tumor ; Cell-Free Nucleic Acids ; MUC1 protein, human ; MicroRNAs ; Mucin-1
    Language English
    Publishing date 2019-08-22
    Publishing country United States
    Document type Journal Article ; Observational Study ; Research Support, Non-U.S. Gov't
    ZDB-ID 2106734-X
    ISSN 1938-0666 ; 1526-8209
    ISSN (online) 1938-0666
    ISSN 1526-8209
    DOI 10.1016/j.clbc.2019.07.003
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article ; Online: Correlation of ovarian reserve tests with histologically determined primordial follicle number.

    Hansen, Karl R / Hodnett, George M / Knowlton, Nicholas / Craig, LaTasha B

    Fertility and sterility

    2011  Volume 95, Issue 1, Page(s) 170–175

    Abstract: Objective: To investigate the relationship between clinical markers of ovarian reserve and the true ovarian reserve as determined by the ovarian primordial follicle number.: Design: Prospective investigation.: Setting: Academic medical center.: ... ...

    Abstract Objective: To investigate the relationship between clinical markers of ovarian reserve and the true ovarian reserve as determined by the ovarian primordial follicle number.
    Design: Prospective investigation.
    Setting: Academic medical center.
    Patient(s): Forty-two healthy women (aged 26-52 years) undergoing oophorectomy for benign gynecologic indications.
    Intervention(s): Transvaginal ultrasound examination for the determination of the ovarian antral follicle count (AFC) and serum measurements of clinical markers of ovarian reserve. All measurements were obtained within 2 weeks of surgery, irrespective of cycle day. Ovarian primordial follicle count was then determined using a validated fractionator/optical disector method.
    Main outcome measure(s): Univariate and partial correlations between ovarian reserve markers and ovarian primordial follicle count.
    Result(s): There were significant correlations between the ovarian primordial follicle count and AFC (r=0.78), anti-Müllerian hormone (AMH; r=0.72), FSH (r=-0.32), inhibin B (r=0.40), and chronological age (r=-0.80). After adjusting for age, significant correlations were identified between the ovarian primordial follicle count and AFC (r=0.53) and AMH (r=0.48).
    Conclusion(s): The ovarian AFC and serum levels of AMH correlate with the ovarian primordial follicle number even after adjustment for chronological age.
    MeSH term(s) Adult ; Aging ; Anti-Mullerian Hormone/blood ; Biomarkers/blood ; Female ; Follicle Stimulating Hormone/blood ; Humans ; Inhibins/blood ; Middle Aged ; Ovarian Follicle/cytology ; Ovarian Follicle/diagnostic imaging ; Ovariectomy ; Prospective Studies ; Reproducibility of Results ; Ultrasonography/methods ; Ultrasonography/standards
    Chemical Substances Biomarkers ; Inhibins (57285-09-3) ; Anti-Mullerian Hormone (80497-65-0) ; Follicle Stimulating Hormone (9002-68-0)
    Language English
    Publishing date 2011-01
    Publishing country United States
    Document type Clinical Trial ; Journal Article ; Research Support, Non-U.S. Gov't ; Validation Studies
    ZDB-ID 80133-1
    ISSN 1556-5653 ; 0015-0282
    ISSN (online) 1556-5653
    ISSN 0015-0282
    DOI 10.1016/j.fertnstert.2010.04.006
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article ; Online: Statistical monitoring of weak spots for improvement of normalization and ratio estimates in microarrays

    Tang Yuhong / Knowlton Nicholas / Dozmorov Igor / Centola Michael

    BMC Bioinformatics, Vol 5, Iss 1, p

    2004  Volume 53

    Abstract: Abstract Background Several aspects of microarray data analysis are dependent on identification of genes expressed at or near the limits of detection. For example, regression-based normalization methods rely on the premise that most genes in compared ... ...

    Abstract Abstract Background Several aspects of microarray data analysis are dependent on identification of genes expressed at or near the limits of detection. For example, regression-based normalization methods rely on the premise that most genes in compared samples are expressed at similar levels and therefore require accurate identification of nonexpressed genes (additive noise) so that they can be excluded from the normalization procedure. Moreover, key regulatory genes can maintain stringent control of a given response at low expression levels. If arbitrary cutoffs are used for distinguishing expressed from nonexpressed genes, some of these key regulatory genes may be unnecessarily excluded from the analysis. Unfortunately, no accurate method for differentiating additive noise from genes expressed at low levels is currently available. Results We developed a multistep procedure for analysis of mRNA expression data that robustly identifies the additive noise in a microarray experiment. This analysis is predicated on the fact that additive noise signals can be accurately identified by both distribution and statistical analysis. Conclusions Identification of additive noise in this manner allows exclusion of noncorrelated weak signals from regression-based normalization of compared profiles thus maximizing the accuracy of these methods. Moreover, genes expressed at very low levels can be clearly identified due to the fact that their expression distribution is stable and distinguishable from the random pattern of additive noise.
    Keywords Computer applications to medicine. Medical informatics ; R858-859.7 ; Biology (General) ; QH301-705.5
    Subject code 612
    Language English
    Publishing date 2004-05-01T00:00:00Z
    Publisher BMC
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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