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1.
公开(公告)号:US20230407402A1
公开(公告)日:2023-12-21
申请号:US18023598
申请日:2021-08-24
IPC分类号: C12Q1/6886
CPC分类号: C12Q1/6886 , C12Q2600/158 , C12Q2600/106
摘要: The invention relates to a method of predicting a response of a prostate cancer subject to therapy or of personalizing therapy of a prostate cancer subject, comprising determining or receiving the result of a determination of a first gene expression profile for each of one or more immune defense response genes, of a second gene expression profile for each of one or more T-Cell receptor signaling genes, and of a third gene expression profile for each of one or more PDE4D7 correlated genes, said first, second, and third expression profile(s) being determined in a biological sample obtained from the subject, determining the prediction of the therapy response or the personalization of the therapy based on the first, second, and third gene expression profile(s), and, optionally, providing the prediction or the personalization or a therapy recommendation based on the prediction or the personalization to a medical caregiver or the subject.
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公开(公告)号:US20240076746A1
公开(公告)日:2024-03-07
申请号:US18271793
申请日:2022-01-05
IPC分类号: C12Q1/6886 , C12Q1/6851
CPC分类号: C12Q1/6886 , C12Q1/6851 , C12Q2600/118 , C12Q2600/158
摘要: The invention relates to a method of predicting an outcome of a colorectal cancer subject, comprising determining or receiving the result of a determination of a first gene expression profile for each of one or more immune defense response genes, and/or of a second gene expression profile for each of one or more T-Cell receptor signaling genes, and/or of a third gene expression profile for each of one or more PDE4D7 correlated genes, said first, second, and third expression profile(s) being determined in a biological sample obtained from the subject, determining the prediction of outcome based on the first gene expression profile(s), or on the second gene expression profile(s), or on the third gene expression profile(s), or on the first, second, and third gene expression profile(s), and, optionally, providing the prediction to a medical caregiver or the subject.
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公开(公告)号:US20200219627A1
公开(公告)日:2020-07-09
申请号:US16648797
申请日:2018-09-18
发明人: Sergio Consoli , Monique Hendriks , Pieter Christiaan Vos , Jacek Lukasz Kustra , Ralf Dieter Hoffmann , Dimitrios Mavroeidis
摘要: A method of clustering or grouping subjects that are similar to one another. A dataset contains, for each subject, a set of quantitative values which each represent a respective clinical or pathological feature of that subject. A principle component analysis, PCA, is performed on the dataset. Loadings of one of the first two principle components identified by the PCA are used to generate a respective dataset of weighting values. These weighting values are used to weigh or modify each set of quantitative values in the dataset. A clustering algorithm is performed on the weighted sets of subject data. The process may be iterated until user-defined stopping conditions are satisfied.
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4.
公开(公告)号:US12000002B2
公开(公告)日:2024-06-04
申请号:US16771558
申请日:2018-12-19
发明人: Ralf Dieter Hoffmann
IPC分类号: G01N33/48 , C12Q1/6886 , G16B25/10 , G16B40/00 , G16H50/30
CPC分类号: C12Q1/6886 , G16B25/10 , G16B40/00 , G16H50/30 , C12Q2600/118 , C12Q2600/158
摘要: The invention relates to a method of pre-surgical risk stratification of a prostate cancer subject, comprising determining a gene expression profile for phosphodiesterase 4D variant 7 (PDE4D7) in a biological sample obtained from the subject, determining gene expression profile, and determining a pre-surgical prognostic risk score for the subject based on the expression based risk score and pre-surgical clinical variables of the subject. This may allow for an improved stratification of the subject in a pre-surgical setting that may result in better primary treatment decisions. For instance, the pre-surgical prognostic risk score may allow to make better recommendation on whether to select active surveillance vs. active intervention, e.g., radical prostatectomy, for certain sub-populations of prostate cancer patients.
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公开(公告)号:US20230357858A1
公开(公告)日:2023-11-09
申请号:US18029748
申请日:2021-09-13
IPC分类号: C12Q1/6886 , G16B25/10 , G16B40/20
CPC分类号: C12Q1/6886 , G16B25/10 , G16B40/20 , C12Q2600/118 , C12Q2600/158
摘要: The invention relates to a method of predicting an outcome of a bladder or kidney cancer subject, comprising determining or receiving the result of a determination of a first gene expression profile for each of one or more immune defense response genes, and/or of a second gene expression profile for each of one or more T-Cell receptor signaling genes, and/or of a third gene expression profile for each of one or more PDE4D7 correlated genes, said first, second, and third expression profile(s) being determined in a biological sample obtained from the subject, determining the prediction of outcome based on the first gene expression profile(s), or on the second gene expression profile(s), or on the third gene expression profile(s), or on the first, second, and third gene expression profile(s), and, optionally, providing the prediction to a medical caregiver or the subject.
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公开(公告)号:US20200251224A1
公开(公告)日:2020-08-06
申请号:US16648719
申请日:2018-09-10
发明人: Dimitrios Mavroeidis , Monique Hendriks , Pieter Christiaan Vos , Sergio Consoli , Jacek Lukasz Kustra , Johan Janssen , Ralf Dieter Hoffmann
摘要: The invention provides a method for evaluating a set of input data, the input data comprising at least one of: clinical data of a subject; genomic data of a subject; clinical data of a plurality of subjects; and genomic data of a plurality of subjects, using a deep learning algorithm. The method includes obtaining a set of input data, wherein the set of input data comprises raw data arranged into a plurality of data clusters and tuning the deep learning algorithm based on the plurality of data clusters. The deep learning algorithm comprises: an input layer; an output layer; and a plurality of hidden layers. The method further includes performing stabstical clustering on the raw data using the deep learning algorithm, thereby generating statistical clusters and obtaining a marker from each statistical cluster. Finally, the set of input data is evaluated based on the markers to derive data of medical relevance in respect of the subject or subjects.
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7.
公开(公告)号:US20230323469A1
公开(公告)日:2023-10-12
申请号:US18023589
申请日:2021-08-17
IPC分类号: C12Q1/6886 , G16H20/10
CPC分类号: C12Q1/6886 , G16H20/10 , C12Q2600/106 , C12Q2600/158
摘要: The invention relates to a method of predicting a response of a prostate cancer subject to radiotherapy, comprising determining or receiving the result of a determination of a gene expression profile for each of two or more PDE4D7 correlated genes selected from the group consisting of: ABCC5, CUX2, KIAA1549, PDE4D, RAP1GAP2, SLC39A11, TDRD1, and VWA2, said gene expression profiles being determined in a biological sample obtained from the subject, and determining the 5 prediction of the radiotherapy response based on the gen expression profiles for the two or more PDE4D7 correlated genes.
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公开(公告)号:US11636954B2
公开(公告)日:2023-04-25
申请号:US16648797
申请日:2018-09-18
发明人: Sergio Consoli , Monique Hendriks , Pieter Christiaan Vos , Jacek Lukasz Kustra , Ralf Dieter Hoffmann , Dimitrios Mavroeidis
摘要: A method of clustering or grouping subjects that are similar to one another. A dataset contains, for each subject, a set of quantitative values which each represent a respective clinical or pathological feature of that subject. A principal component analysis, PCA, is performed on the dataset. Loadings of one of the first two principal components identified by the PCA are used to generate a respective dataset of weighting values. These weighting values are used to weigh or modify each set of quantitative values in the dataset. A clustering algorithm is performed on the weighted sets of subject data. The process may be iterated until user-defined stopping conditions are satisfied.
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公开(公告)号:US20230114184A1
公开(公告)日:2023-04-13
申请号:US17908279
申请日:2021-03-04
发明人: Ralf Dieter Hoffmann , Joukje Garrelina Orsel , Maud de Klerk-Starmans , Ron Martinus Laurentius van Lieshout
IPC分类号: C12Q1/6886
摘要: The invention relates to a method of predicting a response of a prostate cancer subject to radiotherapy, comprising determining or receiving the result of a determination of a gene expression profile for each of eight or more T-Cell receptor signaling genes selected from the group consisting of: CD2, CD247, CD28, CD3E, CD3G, CD4, CSK, EZR, FYN, LAT, LCK, PAG1, PDE4D, PRKACA, PRKACB, PTPRC, and ZAP70, said gene expression profiles being determined in a biological sample obtained from the subject, and determining, by a processor, the prediction of the radiotherapy response based on the gene expression profiles for the eight or more T-Cell receptor signaling genes.
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公开(公告)号:US11842268B2
公开(公告)日:2023-12-12
申请号:US16648719
申请日:2018-09-10
发明人: Dimitrios Mavroeidis , Monique Hendriks , Pieter Christiaan Vos , Sergio Consoli , Jacek Lukasz Kustra , Johan Janssen , Ralf Dieter Hoffmann
IPC分类号: G06N3/08 , G16H10/60 , G16H50/70 , G06N20/00 , G06F17/18 , G06F18/214 , G06F18/23213
CPC分类号: G06N3/08 , G06F17/18 , G06F18/214 , G06F18/23213 , G06N20/00 , G16H10/60 , G16H50/70
摘要: The invention provides a method for evaluating a set of input data, the input data comprising at least one of: clinical data of a subject; genomic data of a subject; clinical data of a plurality of subjects; and genomic data of a plurality of subjects, using a deep learning algorithm. The method includes obtaining a set of input data, wherein the set of input data comprises raw data arranged into a plurality of data clusters and tuning the deep learning algorithm based on the plurality of data clusters. The deep learning algorithm comprises: an input layer; an output layer; and a plurality of hidden layers. The method further includes performing statistical clustering on the raw data using the deep learning algorithm, thereby generating statistical clusters and obtaining a marker from each statistical cluster. Finally, the set of input data is evaluated based on the markers to derive data of medical relevance in respect of the subject or subjects.
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