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9. Supplementary Table 6 from Common Breast Cancer Susceptibility Variants in LSP1 and RAD51L1 Are Associated with Mammographic Density Measures that Predict Breast Cancer Risk

Author

Vachon, Celine M., primary, Scott, Christopher G., primary, Fasching, Peter A., primary, Hall, Per, primary, Tamimi, Rulla M., primary, Li, Jingmei, primary, Stone, Jennifer, primary, Apicella, Carmel, primary, Odefrey, Fabrice, primary, Gierach, Gretchen L., primary, Jud, Sebastian M., primary, Heusinger, Katharina, primary, Beckmann, Matthias W., primary, Pollan, Marina, primary, Fernández-Navarro, Pablo, primary, Gonzalez-Neira, Anna, primary, Benitez, Javier, primary, van Gils, Carla H., primary, Lokate, Mariëtte, primary, Onland-Moret, N. Charlotte, primary, Peeters, Petra H.M., primary, Brown, Judith, primary, Leyland, Jean, primary, Varghese, Jajini S., primary, Easton, Douglas F., primary, Thompson, Deborah J., primary, Luben, Robert N., primary, Warren, Ruth M.L., primary, Wareham, Nicholas J., primary, Loos, Ruth J.F., primary, Khaw, Kay-Tee, primary, Ursin, Giske, primary, Lee, Eunjung, primary, Gayther, Simon A., primary, Ramus, Susan J., primary, Eeles, Rosalind A., primary, Leach, Martin O., primary, Kwan-Lim, Gek, primary, Couch, Fergus J., primary, Giles, Graham G., primary, Baglietto, Laura, primary, Krishnan, Kavitha, primary, Southey, Melissa C., primary, Le Marchand, Loic, primary, Kolonel, Laurence N., primary, Woolcott, Christy, primary, Maskarinec, Gertraud, primary, Haiman, Christopher A., primary, Walker, Kate, primary, Johnson, Nichola, primary, McCormack, Valeria A., primary, Biong, Margarethe, primary, Alnaes, Grethe I.G., primary, Gram, Inger Torhild, primary, Kristensen, Vessela N., primary, Børresen-Dale, Anne-Lise, primary, Lindström, Sara, primary, Hankinson, Susan E., primary, Hunter, David J., primary, Andrulis, Irene L., primary, Knight, Julia A., primary, Boyd, Norman F., primary, Figuero, Jonine D., primary, Lissowska, Jolanta, primary, Wesolowska, Ewa, primary, Peplonska, Beata, primary, Bukowska, Agnieszka, primary, Reszka, Edyta, primary, Liu, JianJun, primary, Eriksson, Louise, primary, Czene, Kamila, primary, Audley, Tina, primary, Wu, Anna H., primary, Pankratz, V. Shane, primary, Hopper, John L., primary, and dos-Santos-Silva, Isabel, primary

Published
2023
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10. Supplementary Tables 1 - 4 from Common Breast Cancer Susceptibility Variants in LSP1 and RAD51L1 Are Associated with Mammographic Density Measures that Predict Breast Cancer Risk

Author

Vachon, Celine M., primary, Scott, Christopher G., primary, Fasching, Peter A., primary, Hall, Per, primary, Tamimi, Rulla M., primary, Li, Jingmei, primary, Stone, Jennifer, primary, Apicella, Carmel, primary, Odefrey, Fabrice, primary, Gierach, Gretchen L., primary, Jud, Sebastian M., primary, Heusinger, Katharina, primary, Beckmann, Matthias W., primary, Pollan, Marina, primary, Fernández-Navarro, Pablo, primary, Gonzalez-Neira, Anna, primary, Benitez, Javier, primary, van Gils, Carla H., primary, Lokate, Mariëtte, primary, Onland-Moret, N. Charlotte, primary, Peeters, Petra H.M., primary, Brown, Judith, primary, Leyland, Jean, primary, Varghese, Jajini S., primary, Easton, Douglas F., primary, Thompson, Deborah J., primary, Luben, Robert N., primary, Warren, Ruth M.L., primary, Wareham, Nicholas J., primary, Loos, Ruth J.F., primary, Khaw, Kay-Tee, primary, Ursin, Giske, primary, Lee, Eunjung, primary, Gayther, Simon A., primary, Ramus, Susan J., primary, Eeles, Rosalind A., primary, Leach, Martin O., primary, Kwan-Lim, Gek, primary, Couch, Fergus J., primary, Giles, Graham G., primary, Baglietto, Laura, primary, Krishnan, Kavitha, primary, Southey, Melissa C., primary, Le Marchand, Loic, primary, Kolonel, Laurence N., primary, Woolcott, Christy, primary, Maskarinec, Gertraud, primary, Haiman, Christopher A., primary, Walker, Kate, primary, Johnson, Nichola, primary, McCormack, Valeria A., primary, Biong, Margarethe, primary, Alnaes, Grethe I.G., primary, Gram, Inger Torhild, primary, Kristensen, Vessela N., primary, Børresen-Dale, Anne-Lise, primary, Lindström, Sara, primary, Hankinson, Susan E., primary, Hunter, David J., primary, Andrulis, Irene L., primary, Knight, Julia A., primary, Boyd, Norman F., primary, Figuero, Jonine D., primary, Lissowska, Jolanta, primary, Wesolowska, Ewa, primary, Peplonska, Beata, primary, Bukowska, Agnieszka, primary, Reszka, Edyta, primary, Liu, JianJun, primary, Eriksson, Louise, primary, Czene, Kamila, primary, Audley, Tina, primary, Wu, Anna H., primary, Pankratz, V. Shane, primary, Hopper, John L., primary, and dos-Santos-Silva, Isabel, primary

Published
2023
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11. Supplementary Table 5 from Common Breast Cancer Susceptibility Variants in LSP1 and RAD51L1 Are Associated with Mammographic Density Measures that Predict Breast Cancer Risk

Author

Vachon, Celine M., primary, Scott, Christopher G., primary, Fasching, Peter A., primary, Hall, Per, primary, Tamimi, Rulla M., primary, Li, Jingmei, primary, Stone, Jennifer, primary, Apicella, Carmel, primary, Odefrey, Fabrice, primary, Gierach, Gretchen L., primary, Jud, Sebastian M., primary, Heusinger, Katharina, primary, Beckmann, Matthias W., primary, Pollan, Marina, primary, Fernández-Navarro, Pablo, primary, Gonzalez-Neira, Anna, primary, Benitez, Javier, primary, van Gils, Carla H., primary, Lokate, Mariëtte, primary, Onland-Moret, N. Charlotte, primary, Peeters, Petra H.M., primary, Brown, Judith, primary, Leyland, Jean, primary, Varghese, Jajini S., primary, Easton, Douglas F., primary, Thompson, Deborah J., primary, Luben, Robert N., primary, Warren, Ruth M.L., primary, Wareham, Nicholas J., primary, Loos, Ruth J.F., primary, Khaw, Kay-Tee, primary, Ursin, Giske, primary, Lee, Eunjung, primary, Gayther, Simon A., primary, Ramus, Susan J., primary, Eeles, Rosalind A., primary, Leach, Martin O., primary, Kwan-Lim, Gek, primary, Couch, Fergus J., primary, Giles, Graham G., primary, Baglietto, Laura, primary, Krishnan, Kavitha, primary, Southey, Melissa C., primary, Le Marchand, Loic, primary, Kolonel, Laurence N., primary, Woolcott, Christy, primary, Maskarinec, Gertraud, primary, Haiman, Christopher A., primary, Walker, Kate, primary, Johnson, Nichola, primary, McCormack, Valeria A., primary, Biong, Margarethe, primary, Alnaes, Grethe I.G., primary, Gram, Inger Torhild, primary, Kristensen, Vessela N., primary, Børresen-Dale, Anne-Lise, primary, Lindström, Sara, primary, Hankinson, Susan E., primary, Hunter, David J., primary, Andrulis, Irene L., primary, Knight, Julia A., primary, Boyd, Norman F., primary, Figuero, Jonine D., primary, Lissowska, Jolanta, primary, Wesolowska, Ewa, primary, Peplonska, Beata, primary, Bukowska, Agnieszka, primary, Reszka, Edyta, primary, Liu, JianJun, primary, Eriksson, Louise, primary, Czene, Kamila, primary, Audley, Tina, primary, Wu, Anna H., primary, Pankratz, V. Shane, primary, Hopper, John L., primary, and dos-Santos-Silva, Isabel, primary

Published
2023
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16. Molecular Characterisation of Vancomycin-Resistant Enterococcus faecium Isolates Belonging to the Lineage ST117/CT24 Causing Hospital Outbreaks

Author

Lisotto, Paola, primary, Couto, Natacha, additional, Rosema, Sigrid, additional, Lokate, Mariëtte, additional, Zhou, Xuewei, additional, Bathoorn, Erik, additional, Harmsen, Hermie J. M., additional, Friedrich, Alexander W., additional, Rossen, John W. A., additional, and Chlebowicz-Fliss, Monika A., additional

Published
2021
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30. High Prevalence of Infectious Diseases and Drug-Resistant Microorganisms in Asylum Seekers Admitted to Hospital; No Carbapenemase Producing Enterobacteriaceae until September 2015

Author

Ravensbergen, Sofanne J., primary, Lokate, Mariëtte, additional, Cornish, Darren, additional, Kloeze, Eveline, additional, Ott, Alewijn, additional, Friedrich, Alex W., additional, van Hest, Rob, additional, Akkerman, Onno W., additional, de Lange, Wiel C., additional, van der Werf, Tjip S., additional, Bathoorn, Erik, additional, and Stienstra, Ymkje, additional

Published
2016
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37. Common Breast Cancer Susceptibility Variants in LSP1 and RAD51L1 Are Associated with Mammographic Density Measures that Predict Breast Cancer Risk

Author

Vachon, Celine M., primary, Scott, Christopher G., additional, Fasching, Peter A., additional, Hall, Per, additional, Tamimi, Rulla M., additional, Li, Jingmei, additional, Stone, Jennifer, additional, Apicella, Carmel, additional, Odefrey, Fabrice, additional, Gierach, Gretchen L., additional, Jud, Sebastian M., additional, Heusinger, Katharina, additional, Beckmann, Matthias W., additional, Pollan, Marina, additional, Fernández-Navarro, Pablo, additional, Gonzalez-Neira, Anna, additional, Benitez, Javier, additional, van Gils, Carla H., additional, Lokate, Mariëtte, additional, Onland-Moret, N. Charlotte, additional, Peeters, Petra H.M., additional, Brown, Judith, additional, Leyland, Jean, additional, Varghese, Jajini S., additional, Easton, Douglas F., additional, Thompson, Deborah J., additional, Luben, Robert N., additional, Warren, Ruth M.L., additional, Wareham, Nicholas J., additional, Loos, Ruth J.F., additional, Khaw, Kay-Tee, additional, Ursin, Giske, additional, Lee, Eunjung, additional, Gayther, Simon A., additional, Ramus, Susan J., additional, Eeles, Rosalind A., additional, Leach, Martin O., additional, Kwan-Lim, Gek, additional, Couch, Fergus J., additional, Giles, Graham G., additional, Baglietto, Laura, additional, Krishnan, Kavitha, additional, Southey, Melissa C., additional, Le Marchand, Loic, additional, Kolonel, Laurence N., additional, Woolcott, Christy, additional, Maskarinec, Gertraud, additional, Haiman, Christopher A., additional, Walker, Kate, additional, Johnson, Nichola, additional, McCormack, Valeria A., additional, Biong, Margarethe, additional, Alnaes, Grethe I.G., additional, Gram, Inger Torhild, additional, Kristensen, Vessela N., additional, Børresen-Dale, Anne-Lise, additional, Lindström, Sara, additional, Hankinson, Susan E., additional, Hunter, David J., additional, Andrulis, Irene L., additional, Knight, Julia A., additional, Boyd, Norman F., additional, Figuero, Jonine D., additional, Lissowska, Jolanta, additional, Wesolowska, Ewa, additional, Peplonska, Beata, additional, Bukowska, Agnieszka, additional, Reszka, Edyta, additional, Liu, JianJun, additional, Eriksson, Louise, additional, Czene, Kamila, additional, Audley, Tina, additional, Wu, Anna H., additional, Pankratz, V. Shane, additional, Hopper, John L., additional, and dos-Santos-Silva, Isabel, additional

Published
2012
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43. Characterization of a CTX-M-15 Producing Klebsiella Pneumoniae Outbreak Strain Assigned to a Novel Sequence Type (1427).

Author

Kai Zhou, Lokate, Mariëtte, Deurenberg, Ruud H., Arends, Jan, Lo-Ten Foe, Jerome, Grundmann, Hajo, Rossen, John W. A., Friedrich, Alexander W., Partridge, Sally R., and Novais, Angela

Subjects
KLEBSIELLA pneumoniae, BETA lactamases, DISEASE outbreaks
Abstract

Extended-spectrum -lactamase producing Klebsiella pneumoniae have emerged as one of the major nosocomial pathogens. Between July and September 2012, a CTX-M-15 producing K. pneumoniae caused an outbreak in a university hospital in the Netherlands. The outbreak isolates were characterized and assigned to a novel sequence type (ST1427). An epidemiological link between affected patients was supported by patient contact tracing and whole-genome phylogenetic analysis. Intra-strain polymorphism was detected among multiple isolates obtained from different body sites of the index patient, which may relate to antibiotic treatment and/or host adaptation. Environmental contamination caused by the outbreak clone was found in the patient rooms even on medical equipment. The novel clone was not closely related to any known endemic/epidemic clone, but carried a set of a plasmid-borne resistance genes [blaCTX-M-15, blaTEM-1, blaOXA-1, aac(6')-Ib-cr, qnrB1, tetA(A), aac(3)-II]. Analysis of its virulence factors revealed a previously uncharacterized capsular biosynthesis region and two uncharacterized fimbriae gene clusters, and suggested that the new clone was not hypervirulent. To our knowledge, this is the first outbreak report of K. pneumoniae ST1427, and our study could be of help to understand the features of this newly emerging clone. [ABSTRACT FROM AUTHOR]

Published
2015
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44. Rapid Analysis of Diagnostic and Antimicrobial Patterns in R (RadaR): Interactive Open-Source Software App for Infection Management and Antimicrobial Stewardship

Author

Luz, Christian Friedemann, Berends, Matthijs S, Dik, Jan-Willem H, Lokate, Mariëtte, Pulcini, Céline, Glasner, Corinna, Sinha, Bhanu, University Medical Center Groningen [Groningen] (UMCG), Maladies chroniques, santé perçue, et processus d'adaptation (APEMAC), Université de Lorraine (UL), Service des Maladies Infectieuses et Tropicales [CHRU Nancy], Centre Hospitalier Régional Universitaire de Nancy (CHRU Nancy), Critical care, Anesthesiology, Peri-operative and Emergency medicine (CAPE), and Microbes in Health and Disease (MHD)

Subjects
020205 medical informatics, IMPROVE, Computer science, Process (engineering), Health Informatics, Context (language use), 02 engineering and technology, medical informatics applications, Tertiary referral hospital, law.invention, Data visualization, Software, Anti-Infective Agents, law, PROGRAM, 0202 electrical engineering, electronic engineering, information engineering, Humans, data visualization, Antimicrobial stewardship, Radar, Original Paper, infection, medical informatics applications, software, business.industry, hospital records, CARE, Data science, infection, Visualization, antimicrobial stewardship, [SDV.SPEE]Life Sciences [q-bio]/Santé publique et épidémiologie, business
Abstract

Background: Analyzing process and outcome measures for all patients diagnosed with an infection in a hospital, including those suspected of having an infection, requires not only processing of large datasets but also accounting for numerous patient parameters and guidelines. Substantial technical expertise is required to conduct such rapid, reproducible, and adaptable analyses; however, such analyses can yield valuable insights for infection management and antimicrobial stewardship (AMS) teams.Objective: The aim of this study was to present the design, development, and testing of RadaR (Rapid analysis of diagnostic and antimicrobial patterns in R), a software app for infection management, and to ascertain whether RadaR can facilitate user-friendly, intuitive, and interactive analyses of large datasets in the absence of prior in-depth software or programming knowledge.Methods: RadaR was built in the open-source programming language R, using Shiny, an additional package to implement Web-app frameworks in R. It was developed in the context of a 1339-bed academic tertiary referral hospital to handle data of more than 180,000 admissions.Results: RadaR enabled visualization of analytical graphs and statistical summaries in a rapid and interactive manner. It allowed users to filter patient groups by 17 different criteria and investigate antimicrobial use, microbiological diagnostic use and results including antimicrobial resistance, and outcome in length of stay. Furthermore, with RadaR, results can be stratified and grouped to compare defined patient groups on the basis of individual patient features.Conclusions: AMS teams can use RadaR to identify areas within their institutions that might benefit from increased support and targeted interventions. It can be used for the assessment of diagnostic and therapeutic procedures and for visualizing and communicating analyses. RadaR demonstrated the feasibility of developing software tools for use in infection management and for AMS teams in an open-source approach, thus making it free to use and adaptable to different settings.

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