Abstract: A bioinformatics process which provides an improved means to detect a JAK-STAT3 cellular signaling pathway in a subject, such as a human, based on the expression levels of at least three unique target genes of the JAK-STAT3 cellular signaling pathway measured in a sample. The invention includes an apparatus comprising a digital processor configured to perform such a method, a non-transitory storage medium storing instructions that are executable by a digital processing device to perform such a method, and a computer program comprising program code means for causing a digital processing device to perform such a method. Kits are also provided for measuring expression levels of unique sets of JAK-STAT3 cellular signaling pathway target genes.

Abstract: The invention relates to a method for characterizing a cell or tissue culture sample based on multiple cellular signaling pathway activities. The cellular signaling pathway activities are preferably determined based on expression levels of target genes of the respective pathways. The invention further describes products useful for the method having primers for the detection of pathway target genes, and uses of the product.

Abstract: The invention relates to methods based on gene expression levels to predict treatment response to an anti-TNFalpha compound in inflammatory bowel disease patients based on a pre-treatment biopsy, and a method of determining the treatment effectiveness of such treatment based on a biopsy obtained after initiation of the treatment with an anti-TNFalpha compound. The prediction is based on the determination of cellular signaling pathway activity, in particular a pathway selected from TGFbeta, NFkB, MAPK-AP1, STAT3 and WNT, preferably wherein the cellular signaling pathway is selected from TGFbeta and NFkB. When determining the treatment effectiveness, the cellular signaling pathway is AR and/or MAPK-AP1 if the IBD is UC and wherein if the IBD is CD, the cellular signaling pathway is MAPK-AP1 and/or NFkB.

Abstract: The present invention relates to assemblies of primers and probes for determining the cellular signalling pathway of the AR pathway and optionally the activities of the pathways ER, PI3K-FOXO, MAPK-AP1, Notch, HH, TGFbeta, JAK-STAT1/2 and NFkB. Kit or use of the set of 3 or more primers and probes to determine the expression levels of 3 or more genes of the AR cellular signalling pathway and optionally from a cellular signalling pathway selected from the ER, PI3K-FOXO, MAPK-AP1, Notch, HH, TGFbeta, WNT, PR, NFkB, JAK-STAT1/2 and JAK-STAT3 pathways wherein the expression levels of three or more of the reference genes selected from: ACTB, ALAS1, B2M, EEF1A1, POLR2A, PUM1, RPLPO, TBP, TPT1 and TUBA1B may also be determined.

Abstract: The present invention relates to a method for determining the immunosuppressive state of a subject having a tumor by analyzing the Notch cellular signaling pathways activity. The method can be used in assessing whether immune checkpoint inhibitors are a suitable treatment option for the subject. The invention further relates kits and uses thereof.

Abstract: A bioinformatics process which provides an improved means to detect a MAPK-AP-1 cellular signaling pathway in a subject, such as a human, based on the expression levels of at least three unique target genes of the MAPK-AP-1 cellular signaling pathway measured in a sample. The invention includes an apparatus comprising a digital processor configured to perform such a method, a non-transitory storage medium storing instructions that are executable by a digital processing device to perform such a method, and a computer program comprising program code means for causing a digital processing device to perform such a method. Kits are also provided for measuring expression levels of unique sets of MAPK-AP-1 cellular signaling pathway target genes.

Abstract: A bioinformatics process which provides an improved means to detect NFkB cellular signaling pathway in a subject, such as a human, based on the expression levels of at least six unique target genes of the NFkB cellular signaling pathway measured in a sample. The invention includes an apparatus comprising a digital processor configured to perform such a method, a non-transitory storage medium storing instructions that are executable by a digital processing device to perform such a method, and a computer program comprising program code means for causing a digital processing device to perform such a method. Kits are also provided for measuring expression levels of unique sets of NFkB cellular signaling pathway target genes.

Abstract: The invention relates to a method for determining whether a subject with an infection has a viral infection. The invention further relates to method for determining the cellular immune response to a viral infection or a vaccine. The methods may be performed on a blood sample obtained from a subject, and is based on the finding that specific cellular signaling pathways are active. The invention further relates to components for performing the methods and use of those components in a method of diagnosis.

Abstract: A bioinformatics process which provides an improved means to detect a JAK-STAT1/2 cellular signaling pathway in a subject, such as a human, based on the expression levels of at least three unique target genes of the JAK-STAT1/2 cellular signaling pathway measured in a sample. The invention includes an apparatus comprising a digital processor configured to perform such a method, a non-transitory storage medium storing instructions that are executable by a digital processing device to perform such a method, and a computer program comprising program code means for causing a digital processing device to perform such a method. Kits are also provided for measuring expression levels of unique sets of JAK-STAT1/2 cellular signaling pathway target genes.

Abstract: The present application mainly relates to specific methods for inferring activity of one or more cellular signaling pathway(s) in tissue of a medical subject based at least on the expression level(s) of one or more target gene(s) of the cellular signaling pathway(s) measured in an extracted sample of the tissue of the medical subject, an apparatus comprising a digital compressor configured to perform such methods and a non-transitory storage medium storing instructions that are executable by a digital processing device to perform such methods.

Abstract: The present invention relates to means and methods that can be used—based on a blood sample of a subject having sepsis, a subject suspected to have sepsis or a subject at risk to develop sepsis, to diagnose the subject with sepsis. The methods can further be used for making a prediction, e.g. whether the subject is likely to develop sepsis, or whether the subject has a high mortality risk as a result of sepsis. The invention further provides for compounds for use in the treatment or prevention of sepsis.

Abstract: The present invention relates to a computer-implemented method for inferring activity of a PR cellular signaling pathway in a subject based on expression levels of three or more target genes of the PR cellular signaling pathway measured in a sample of the subject. The present invention further relates to an apparatus, to a non-transitory storage medium, and to a computer program for inferring activity of a PR cellular signaling pathway in a subject. The present invention further relates to a kit for measuring expression levels of three or more target genes of the PR cellular signaling pathway in a sample of a subject, to a kit for inferring activity of a PR cellular signaling pathway in a subject, and to the use of such kits in performing the method.

Abstract: The present application mainly relates to specific methods for inferring activity of a cellular signaling pathway in tissue and/or cells of a medical subject based at least on expression levels of one or more target gene(s) of the cellular signaling pathway measured in an extracted sample of the tissue and/or cells of the medical subject, an apparatus comprising a digital compressor configured to perform such methods and a non-transitory storage medium storing instructions that are executable by a digital processing device to perform such methods.

Abstract: A bioinformatics process which provides an improved means to detect NFkB cellular signaling pathway in a subject, such as a human, based on the expression levels of at least six unique target genes of the NFkB cellular signaling pathway measured in a sample. The invention includes an apparatus comprising a digital processor configured to perform such a method, a non-transitory storage medium storing instructions that are executable by a digital processing device to perform such a method, and a computer program comprising program code means for causing a digital processing device to perform such a method. Kits are also provided for measuring expression levels of unique sets of NFkB cellular signaling pathway target genes.

Abstract: The present application mainly relates to specific methods for inferring activity of one or more cellular signaling pathway(s) in tissue of a medical subject based at least on the expression level(s) of one or more target gene(s) of the cellular signaling pathway(s) measured in an extracted sample of the tissue of the medical subject, an apparatus comprising a digital compressor configured to perform such methods and a non-transitory storage medium storing instructions that are executable by a digital processing device to perform such methods.