Abstract: Computer-implemented monitoring of monoclonal quality of cell growth is specifically applicable to development of cell lines for the manufacturing of biopharmaceuticals. In one aspect, a computer-implemented method comprises: acquiring a sequence of images of a cell culture taken at different times during cell growth; processing each image in the sequence of images to identify cell locations of cells in the cell culture; determining for at least some of the images in the sequence of images the number of cells from the identified cell locations; determining for at least one image in the sequence of images a spatial distribution of cells from the identified cell locations; evaluating compliance of the determined numbers of cells and the determined spatial distribution of cells with predetermined evaluation conditions being characteristic of monoclonal growth; and assessing and outputting a monoclonal quality indicator based on the evaluated compliance with the predetermined evaluation conditions.

Abstract: Techniques for predicting an amount of at least one biomaterial produced or consumed by a biological system in a bioreactor are provided. Process conditions and metabolite concentrations are measured for the biological system as a function of time. Metabolic rates for the biological system, including specific consumption rates of metabolites and specific production rates of metabolites are determined. The process conditions and the metabolic rates are provided to a hybrid system model configured to predict production of the biomaterial. The hybrid system model includes a kinetic growth model configured to estimate cell growth as a function of time and a metabolic condition model based on metabolite specific consumption or secretion rates and select process conditions, wherein the metabolic condition model is configured to classify the biological system into a metabolic state. An amount of the biomaterial based on the hybrid system model is predicted.

Abstract: A computer-implemented method is provided for analyzing videos of a living system captured with microscopic imaging. The method can include obtaining a base dataset including one or more videos captured with microscopic imaging with at least one of the one or more videos including a cellular event, and cropping out, from the base dataset, sub-videos including one or more objects of interest that may be involved in the cellular event. An artificial neural network (ANN) model can be trained using the plurality of selected sub-videos as training data, to perform unsupervised video alignment, a query sub-video can be aligned using the trained ANN model, and a determination can be made whether or not the query sub-video includes the cellular event.

Abstract: A computer-implemented method for data analysis comprises obtaining a plurality of first observations, each one of the plurality of first observations including one or more values of one or more first parameters, the plurality of first observations grouped into a plurality of groups; constructing a first histogram using the values of at least one of the one or more first parameters, included in the plurality of first observations; constructing, for each one of the plurality of groups, a second histogram having bins corresponding to bins of the first histogram, wherein each one of the bins of the second histogram includes a count of the first observations, among the first observations that belong to the one of the plurality of groups, having one or more values corresponding to the one of the bins for the at least one of the one or more first parameters; and outputting the second histograms.

Abstract: Techniques for predicting an amount of at least one biomaterial produced or consumed by a biological system in a bioreactor are provided. Process conditions and metabolite concentrations are measured for the biological system as a function of time. Metabolic rates for the biological system, including specific consumption rates of metabolites and specific production rates of metabolites are determined. The process conditions and the metabolic rates are provided to a hybrid system model configured to predict production of the biomaterial. The hybrid system model includes a kinetic growth model configured to estimate cell growth as a function of time and a metabolic condition model based on metabolite specific consumption or secretion rates and select process conditions, wherein the metabolic condition model is configured to classify the biological system into a metabolic state. An amount of the biomaterial based on the hybrid system model is predicted.

Abstract: Methods for monitoring, controlling and simulating a bioprocess comprising a cell culture in a bioreactor are provided. The methods comprise obtaining values of one or more process conditions for the bioprocess at one or more maturities, and determining the specific transport rates of one or more metabolites in the cell culture using the values obtained as input to a machine learning model trained to predict the specific transport rates of the one or more metabolites at a latest maturity of the one or more maturities or a later maturity based at least in part on the values of one or more process conditions for the bioprocess at the one or more preceding maturities. The methods further comprise predicting one or more features of the bioprocess based at least in part on the determined specific transport rates. Systems, computer readable media and methods for providing tools to implement such methods are also provided.

Abstract: A computer-implemented method for simulating a cell culture process is provided.

Abstract: A computer implemented and a system for adapting control of a cell culture in a production-scale vessel with regard to a starting medium are provided. The method comprises providing multiple production-scale process trajectories, receiving a media lot for the cell culture, and sampling first media from the media lot for possible use in the production-scale vessel. The method also comprises starting a seed train using the first media to achieve inoculation of the production-scale vessel, providing a plurality of micro-scale vessels in a process control device, and sampling second media from the media lot for the micro-scale vessels. Cells from the seed train can be introduced into the micro-scale vessels to start cell cultures in each of the micro-scale vessels.

Abstract: Techniques for predicting an amount of at least one biomaterial produced or consumed by a biological system in a bioreactor are provided. Process conditions and metabolite concentrations are measured for the biological system as a function of time. Metabolic rates for the biological system, including specific consumption rates of metabolites and specific production rates of metabolites are determined. The process conditions and the metabolic rates are provided to a hybrid system model configured to predict production of the biomaterial. The hybrid system model includes a kinetic growth model configured to estimate cell growth as a function of time and a metabolic condition model based on metabolite specific consumption or secretion rates and select process conditions, wherein the metabolic condition model is configured to classify the biological system into a metabolic state. An amount of the biomaterial based on the hybrid system model is predicted.

Abstract: Aspects relate to a computer-implemented method, a computer program and a system for storing a heterogeneous sequence of discrete-time data determined from a process to produce a chemical, pharmaceutical, biopharmaceutical and/or biological product. The method comprises receiving the discrete-time data, the discrete-time data comprising data from one or more first scientific instruments and including data comprising one or more timestamps corresponding to one or more digital signals.

Abstract: A computer-implemented method for analyzing data obtained for a chemical and/or biological process comprises: obtaining a result of statistical data analysis on the data obtained with respect to the chemical and/or biological process; calculating, for values of process parameters obtained at groups of time points during batch processes of the chemical and/or biological process, a ratio of a correlation value to a confidence value of the correlation value, the correlation value indicating a correlation between the values of the process parameter and at a process output value; calculating, for process parameters, an average of absolute values of the ratios calculated for the values of the process parameter obtained at different groups of time points during the batch processes; excluding the values of one of the process parameters having a smallest average; and iterating, until at least one specified condition is met.

Abstract: Aspects of the application relate to methods, a computer program and a process control device. According to one aspect, a computer-implemented method for determining a multivariate process chart is provided. The multivariate process chart is to be used to control a process to produce a chemical, pharmaceutical, biopharmaceutical and/or biological product. The multivariate process chart includes a first trajectory, an upper limit for the first trajectory and a lower limit for the first trajectory.

Abstract: Aspects of the application relate to computer-implemented methods, process control devices, and a computer program. According to one aspect, a computer-implemented method for controlling a process in a plurality of first scale vessels via a first process control device is provided. Each of the first scale vessels contains fluid and the process is for producing a chemical, pharmaceutical, biopharmaceutical and/or biological product. The method comprises controlling, by the first process control device and at least partially in parallel, the process in each of the first scale vessels. The method can include periodically determining, prior to an assigning decision and at a first frequency, first sets of process parameter values for each of the process parameters from each of the first scale vessels.

Abstract: According to some aspects of the disclosure, a computer-implemented method, a computer program and a process control device for selecting at least one set of target cells from multiple sets of candidate cells are provided. The method can include receiving data collected from a plurality of processes, wherein each of the processes produces a distinct set of candidate cells. The method further comprises the received data including values of process outputs being a product quality attribute or a key performance indicator for selecting the target cells.

Abstract: A computer-implemented method for analysis of cell images comprises obtaining a deep neural network and a training dataset, the deep neural network comprising a plurality of hidden layers; obtaining first sets of intermediate output values that are output from at least one of the plurality of hidden layers; constructing a latent variable model using the first sets of intermediate output values, the latent variable model mapping the first sets of intermediate output values to first sets of projected values in a sub-space that has a dimension lower than the sets of the intermediate outputs; obtaining a second set of intermediate output values by inputting a received new cell image to the deep neural network; mapping, using the latent variable model, the second set of intermediate output values to a second set of projected values; and determining whether the received new cell image is an outlier.

Abstract: An example method comprises receiving a new observation characterizing at least one parameter of an entity; inputting the new observation to a deep neural network having hidden layers; obtaining a second set of intermediate output values that are output from at least one of the hidden layers by inputting the received new observation to the deep neural network; mapping the second set of intermediate output values to a second set of projected values; determining whether or not the received new observation is an outlier with respect to the training dataset based on the latent variable model and the second set of projected values, calculating a prediction for the new observation; and determining a result indicative of the occurrence of at least one anomaly in the entity based on the prediction and the determination whether or not the new observation is an outlier.