Back to results
US 2025/0029689 A1Published application
Systems and methods for space health exposomics
AssigneeLinus Biotechnology Inc.
InventorsManish ARORA, Paul CURTIN, Christine AUSTIN
Life of this patent
Estimating the term…
Abstract
Provided herein are methods and systems configured to analyze exposomic features of subjects undergoing space travel.
Claims307
A computer-implemented exposomics system, the system comprising:
- one or more processors;
- and
- memory addressable by the one or more processors, the memory storing:
- (a) an exposome biochemical signature database (EDB), the EDB comprising, in electronic form, a corresponding plurality of exposomic features for each subject in a plurality of subjects that have or have not participated in space travel;
- and
- (b) an intervention outcome database (IODB), the IODB comprising, in electronic form, information on intervention outcome information for at least one phase of at least one intervention of at least one subject of the plurality of subjects;
- the memory further storing at least one program for execution by the one or more processors, the at least one program comprising:
- (i) an association software module communicatively coupled to the EDB and the IODB, wherein the association software module is programmed to determine an association between the corresponding plurality of exposomic features and the intervention outcome information for at least one phase for the at least one subject, and
- (ii) a recommendation software module communicatively coupled to the EDB and the IODB, the recommendation software module programmed to provide an intervention recommendation for the at least one subject based at least in part on the corresponding plurality of exposomic features of the at least one subject, the intervention outcome information for the at least one subject, and the association between the corresponding plurality of exposomic features, the clinical phenotype information, and the intervention outcome information for the at least one subject.
6 more elements
A method for selecting a subject for an intervention, the method comprising:
- (a) providing a trained predictive model, wherein the trained predictive model is trained on one or more of clinical metadata, exposomic features, and corresponding intervention outcome information of a training cohort;
- (b) detecting a biochemical signature using a biological sample obtained from the subject, thereby producing a plurality of prospective exposomic features;
- (c) inputting the plurality of prospective exposomic features and clinical meta data of the subject into the trained predictive model thereby obtaining a predicted intervention outcome information of the subject;
- and
- (d) selecting the subject for the intervention or excluding the subject from the intervention, based at least in part on the predicted intervention outcome information of the subject.
2 more elements
A method of selecting an optimal treatment for subjects participating in space travel, comprising:
- (a) detecting one or more biochemical signatures obtained from one or more biological samples from one or more subjects that have not participated in space travel, thereby producing one or more reference exposomic features;
- (b) detecting features of one or more biochemical signature obtained from one or more biological samples from one or more subjects that have participated in space travel, thereby producing one or more pre-treatment exposomic features;
- (c) administering a treatment to the one or more subjects that have participated in space travel;
- (d) detecting features of one or more biochemical signatures obtained from one or more biological samples from the one or more subjects that have participated in space travel after a period of time has elapsed after receiving the treatment, thereby producing one or more post-treatment exposomic features;
- (e) determining a difference between the one or more reference exposomic features of the one or more subjects that have not participated in space travel, the one or more pre-treatment exposomic features of the one or more subjects that have participated in space travel, and the one or more post-treatment exposomic features of the one or more subjects that have participated in space travel;
- and
- (f) selecting one or more optimal treatments based at least in part on the determined difference between the one or more reference exposomic features, the one or more pre-treatment exposomic features, and the one or more post-treatment exposomic features, wherein the one or more optimal treatments are selected based on the determined differences satisfying a pre-determined criterion.
4 more elements
A method for evaluating the effects of an intervention in a plurality of subjects, the method comprising:
- sampling, for each respective subject in the plurality of subjects, each respective position in a plurality of positions along a reference line on a corresponding biological sample associated with chemical dynamics of the respective subject, thereby obtaining a corresponding plurality of chemical samples for the respective subject, each chemical sample in the plurality of chemical samples corresponding to a different position in the plurality of positions, and each position in the plurality of positions representing a different period of growth of the corresponding biological sample associated with chemical dynamics, wherein the plurality of positions comprises:
- one or more positions representing a period of growth prior to the intervention,
- one or more positions representing a period of growth during the intervention, and
- one or more positions representing a period of growth after the intervention;
- analyzing, for each respective subject in the plurality of subjects, the corresponding plurality of chemical samples for the respective subject with a mass spectrometer thereby obtaining a corresponding first dataset that includes a plurality of traces, each trace in the plurality of traces being a concentration of a corresponding chemicals, in a plurality of chemicals, over time collectively determined from the plurality of chemical samples,
- generating, for each of one or more chemicals in the plurality of chemicals, a corresponding isotope data set comprising:
- a set of pre-intervention features corresponding to the time period of biological sample growth prior to the intervention, the set of pre-intervention features comprising, for each respective subject in the plurality of subjects, one or more features derived from the concentration of the respective chemicals measured from the one or more positions representing a period of growth prior to the intervention,
- a set of intervention features corresponding to the time period of biological sample growth during the intervention, the set of intervention features comprising, for each respective subject in the plurality of subjects, one or more features derived from the concentration of the respective chemicals measured from the one or more positions representing a period of growth during the intervention, and
- a set of post-intervention features corresponding to the time period of biological sample growth after the intervention, the set of post-intervention features comprising, for each respective subject in the plurality of subjects, one or more features derived from the concentration of the respective chemicals measured from the one or more positions representing a period of growth after the intervention;
- and
- evaluating changes in chemical dynamics in response to the intervention using, for each chemical in the one or more chemicals, the corresponding isotope data set.
8 more elements
A method for evaluating the effects of an intervention in a plurality of subjects, the method comprising:
- sampling, for each respective subject in the plurality of subjects, each respective position in a plurality of positions along a reference line on a corresponding biological sample associated with chemical dynamics of the respective subject, thereby obtaining a corresponding plurality of chemical samples for the respective subject, each chemical sample in the plurality of chemical samples corresponding to a different position in the plurality of positions, and each position in the plurality of positions representing a different period of growth of the corresponding biological sample associated with chemical dynamics, wherein the plurality of positions comprises:
- one or more positions representing a period of growth prior to the intervention,
- one or more positions representing a period of growth during the intervention, and
- one or more positions representing a period of growth after the intervention;
- analyzing, for each respective subject in the plurality of subjects, the corresponding plurality of chemical samples for the respective subject with a mass spectrometer thereby obtaining a corresponding first dataset that includes a plurality of traces, each trace in the plurality of traces being a concentration of a corresponding chemicals, in a plurality of chemicals, over time collectively determined from the plurality of chemical samples,
- generating, for a set of two or more chemicals in the plurality of chemicals, a respective aggregate isotope data set comprising:
- a set of pre-intervention features corresponding to biological sample growth prior to the intervention, the set of pre-intervention features comprising values for one or more dimension reduction components formed from features derived from, for each respective subject in the plurality of subjects, concentrations of each of the two or more chemicals measured from the one or more positions representing a period of growth prior to the intervention,
- a set of intervention features corresponding to biological sample growth during the intervention, the set of intervention features comprising values for one or more dimension reduction components formed from features derived from, for each respective subject in the plurality of subjects, concentrations of each of the two or more chemicals measured from the one or more positions representing a period of growth during the intervention, and
- a set of post-intervention features corresponding to biological sample growth after the intervention, the set of post-intervention features comprising values for one or more dimension reduction components formed from features derived from, for each respective subject in the plurality of subjects, concentrations of each of the set of two or more chemicals measured from the one or more positions representing a period of growth after the intervention;
- and
- evaluating changes in chemical dynamics in response to the intervention using the aggregate isotope data set.
8 more elements
A method for evaluating the effects of an intervention in a plurality of subjects, the method comprising:
- sampling, for each respective subject in the plurality of subjects, each respective position in a plurality of positions along a reference line on a corresponding biological sample associated with chemical dynamics of the respective subject, thereby obtaining a corresponding plurality of chemical samples for the respective subject, each chemical sample in the plurality of chemical samples corresponding to a different position in the plurality of positions, and each position in the plurality of positions representing a different period of growth of the corresponding biological sample associated with chemical dynamics, wherein the plurality of positions comprises:
- one or more positions representing a period of growth prior to the intervention,
- one or more positions representing a period of growth during the intervention, and
- one or more positions representing a period of growth after the intervention;
- analyzing, for each respective subject in the plurality of subjects, the corresponding plurality of chemical samples for the respective subject with a mass spectrometer thereby obtaining a corresponding first dataset that includes a plurality of traces, each trace in the plurality of traces being a concentration of a corresponding chemicals, in a plurality of chemicals, over time collectively determined from the plurality of chemical samples,
- applying, for each respective subject in the plurality of subjects and for each of one or more chemicals in the plurality of chemicals, a distributed lag model or similar non-linear distribution model as a function of time relative to the intervention to the concentration of the respective chemicals measured from the plurality of positions, or a feature derived therefrom, to generate a corresponding contribution data set representing the contribution of the intervention to the concentration of the respective chemicals in the respective subject as a function of time;
- and
- evaluating changes in chemical dynamics in response to the intervention using the corresponding contribution data set, for each of the one or more chemicals, from each respective subject in the plurality of subjects.
5 more elements
A method for evaluating the effects of an intervention in a plurality of subjects, the method comprising:
- sampling, for each respective subject in the plurality of subjects, each respective position in a plurality of positions along a reference line on a corresponding biological sample associated with chemical dynamics of the respective subject, thereby obtaining a corresponding plurality of chemical samples for the respective subject, each chemical sample in the plurality of chemical samples corresponding to a different position in the plurality of positions, and each position in the plurality of positions representing a different period of growth of the corresponding biological sample associated with chemical dynamics, wherein the plurality of positions comprises:
- one or more positions representing a period of growth prior to the intervention,
- one or more positions representing a period of growth during the intervention, and
- one or more positions representing a period of growth after the intervention;
- analyzing, for each respective subject in the plurality of subjects, the corresponding plurality of chemical samples for the respective subject with a mass spectrometer thereby obtaining a corresponding first dataset that includes a plurality of traces, each trace in the plurality of traces being a concentration of a corresponding chemicals, in a plurality of chemicals, over time collectively determined from the plurality of chemical samples,
- generating, for each respective subject in the plurality of subjects and for a set of two or more chemicals in the plurality of chemicals, a corresponding aggregate isotope data set comprising a set of features comprising values for one or more dimension reduction components formed from features derived from concentrations of each of the two or more chemicals measured across the different periods of growth for the respective subject;
- applying, for each respective subject in the plurality of subjects, a distributed lag model or similar non-linear distribution model as a function of time relative to the intervention to the corresponding aggregate isotope data set to generate a corresponding contribution data set representing the contribution of the intervention to the concentration of the set of two or more chemicals in the respective subject as a function of time;
- and
- evaluating changes in chemical dynamics in response to the intervention using the corresponding contribution data for each respective subject in the plurality of subjects.
6 more elements
A method for outputting one or more quantitative metrics of one or more exposomic signatures of a first subject, comprising:
- (a) receiving a biological sample from the subject;
- (b) determining one or more exposomic signatures from the biological sample of the subject;
- (c) calculating one or more features of the one or more exposomic signatures, wherein each feature of the one or more features comprises one or more quantitative metrics;
- and
- (d) outputting the one or more quantitative metrics of the one or more features of the subject.
2 more elements
A method for outputting a prediction of phenotypic data of one or more subjects, comprising:
- (a) receiving one or more biological samples and phenotypic data from a first set of subjects;
- (b) determining a first set of exposomic signatures from one or more biological samples of the first set of subjects;
- (c) calculating a first set of features of the first set of exposomic signatures;
- (d) training a predictive model with the first set of features and the phenotypic data of the first set of subjects;
- (e) receiving one or more biological samples from a second set of subjects different than the first set of subjects;
- (f) determining a second set of exposomic signatures from the one or more biological samples of the second set of subjects;
- (g) calculating a second set of features from the second set of exposomic signatures;
- and
- (h) outputting the prediction of the second set of subjects' phenotypic data determined by inputting the second set of features into the trained predictive model.
6 more elements
A method for outputting one or more subjects' response to participating in real or simulated space travel, comprising:
- (a) receiving one or more biological samples of one or more subjects participating in space travel;
- (b) determining one or more exposomic signatures of the one or more biological samples;
- (c) calculating exposomic features of the one or more biological samples' one or more exposomic signatures;
- and
- (d) outputting the one or more subjects' response to participating in space travel as an output of a trained predictive model provided the exposomic features of the one or more biological samples as an input.
2 more elements
A method for training a predictive model to determine a clinical response of subjects to an intervention when the subject is participating in space travel, comprising:
- (a) receiving one or more biological samples and clinical responses of a first set of subjects, wherein the first set of subjects are exposed to space travel and are provided an intervention, and a second set of subjects, wherein the second set of subjects are exposed to space travel and do not receive the intervention;
- (b) determining one or more exposomic signatures of the one or more biological samples of the first and second set of subjects;
- (c) calculating a first and second set of exposomic features of the first and second set of subjects' one or more exposomic signatures, wherein each feature of the first and second set of exposomic features comprises one or more quantitative metrics;
- and
- (a) outputting a trained predictive model configured to determine a clinical response of a subject to an intervention, wherein the subject is participating in space travel, and wherein the trained predictive model is trained on the first and second set of subjects' one or more exposomic features' one or more quantitative metrics and the corresponding clinical responses.
2 more elements
A method for generating a predictive model configured to output one or more subjects' health state in response to a gravitational force in addition to the earth's gravitational force, comprising:
- (a) receiving a first one or more subjects' one or more biological samples and corresponding health states, wherein the first one or more subjects' have received an exposure to a gravitational force in addition to the earth's gravitational force;
- (b) determining one or more exposomic signatures of the first one or more subjects' one or more biological samples;
- (c) calculating exposomic features of the one or more biological samples' one or more exposomic signatures;
- and
- (d) generating a trained predictive mode configured to output a second one or more subjects' health state in response to a gravitational force in addition to the earth's gravitational force, wherein the trained predictive model is trained with the first one or more subjects' exposomic features of the one or more exposomic signatures and corresponding health states.
2 more elements
A method for using a predictive model to output a health outcome of one or more subjects prior to exposure of a gravitational force, comprising:
- (a) receiving one or more subjects' one or more biological samples;
- (b) determining one or more exposomic signatures of the one or more subjects' one or more biological samples;
- (c) calculating exposomic features of the one or more biological samples' one or more exposomic signatures;
- and
- (d) outputting a health outcome of the one or more subjects prior to exposure of a gravitational force in addition to the gravitational force of the earth by providing the one or more subjects' exposomic features as an input to a trained predictive model.
2 more elements
A method for administering a treatment to a subject participating in space travel, comprising:
- (a) receiving one or more biological samples of a subject prior to participating in space travel;
- (b) determining one or more exposomic signatures of the one or more biological samples of the subject;
- (c) calculating exposomic features of the subject's one or more exposomic signatures, wherein each feature of the exposomic features comprises one or more quantitative metrics;
- and
- (d) administering a treatment to the subject participating in space travel at a time point, wherein the treatment and the time point of administering the treatment is determined as an output of a trained predictive model when the trained predictive model is provided the exposomic features of the subject as an input.
2 more elements
A method for evaluating one or more subjects' response to an intervention in the presence or lack thereof gravity, comprising:
- (a) sampling each respective position in a plurality of positions along a reference line of a first set of one or more biological samples of a first set of subjects and a second set of one or more biological samples of a second set of subjects, thereby obtaining a plurality of ion samples, each ion sample in the plurality of ion samples corresponding to a different position in the plurality of positions, and each position in the plurality of positions representing a different period of growth of the first and second set of one or more biological samples, wherein the first set of subjects are subjected to space travel and the second set of subjects are not subjected to space travel, and wherein the first and second set of subjects are administered an intervention;
- (b) analyzing each ion sample in the plurality of ion samples with a mass spectrometer thereby obtaining a first dataset that includes a plurality of traces, each trace in the plurality of traces being a concentration of a corresponding elemental isotope, in a plurality of elemental isotopes, over time collectively determined from the plurality of ion samples;
- (c) deriving a second dataset from the plurality of traces that includes a set of features, each respective feature in the set of features being determined by a variation of a single isotope or a combination of isotopes in the plurality of traces;
- and
- (d) inputting the set of features into a trained classifier thereby obtaining a probability from the trained classifier of the first and second set of one or more subjects' which predicts the one or more subjects' response to the space travel.
2 more elements
A method for outputting a subject's response to an intervention following space travel, comprising:
- (a) exposing a subject's one or more biological samples to an optical signal comprising a plurality of Raman wavelengths, wherein the subject is subjected to space travel;
- (b) acquiring a plurality of Raman spectra from the one or more biological samples;
- (c) processing the plurality of Raman spectra to generate a plurality of Raman features;
- and
- (d) outputting a probability of a subject's response to an intervention when subjected to space travel as a result of providing a trained classifier an input of the plurality of Raman features.
2 more elements
A method for evaluating a subject's response to an intervention to reduce the biological effects of space travel, comprising:
- (a) staining a first set of one or more biological samples of a first set of subject and a second set of one or more biological samples of a second set of subjects to produce a stained first and second set of one or more biological samples, wherein the first set of subject are subjected to space travel and the second set of subjects are not subjected to space travel, and wherein the first and second set of subjects are administered an intervention;
- (b) analyzing a fluorescence intensity spatially across the stained first and second set of one or more biological samples;
- and
- (c) calculating a set of features of the first and second set of subjects' spatial fluorescent intensity across the stained first and second set of one or more biological samples, wherein each feature of the first and second set of subjects' exposomic features comprises one or more metrics quantifying temporal dynamics in the fluorescence intensity trace;
- and
- (d) outputting a probability of a subject's response to an intervention to reduce the biological effects of space travel as an output of a trained predictive model when the predictive model is provided the subject's exposomic features of spatial fluorescent intensity across a stained one or more biological samples of the subject, wherein the trained predictive model is trained with the first and second set of subjects' exposomic features' one or more metrics, corresponding administered intervention, and clinical response to the administered intervention.
3 more elements
A method for outputting one or more pathways associated with space travel, comprising:
- (a) receiving one or more biological samples of a first set of one or more subjects and a second set of one or more subjects, wherein the first set of one or more subjects has participated in space travel and the second set of one or more subjects has not;
- (b) determining one or more pathways' exposomic signatures from the one or more biological samples of the first and second set of one or more subjects;
- (c) calculating exposomic features of the one or more pathways' exposomic signatures;
- and
- (d) outputting the one or more pathways associated with space travel by comparing the first and second set of subjects' exposomic features of the one or more pathways.
2 more elements
A method for providing a treatment to ameliorate the effects of space travel, comprising:
- (a) receiving one or more biological samples of one or more subjects participating in space travel;
- (b) determining one or more pathways' exposomic signatures from the one or more biological samples of the one or more subjects;
- (c) calculating exposomic features of the one or more pathways' exposomic signatures;
- and
- (d) providing a treatment to the one or more subjects, wherein the treatment ameliorates the effect of the space travel on the one or more subjects' exposomic features of the one or more pathways' exposomic signatures.
2 more elements
A method for outputting one or more pathways associated with an intervention, comprising:
- (a) receiving one or more biological samples of a first set of one or more subjects and a second set of one or more subjects, wherein the first set of one or more subjects has received an intervention and the second set of one or more subjects has not received an intervention;
- (b) determining one or more pathways' exposomic signatures from the one or more biological samples of the first and second set of one or more subjects;
- (c) calculating exposomic features of the one or more pathways' exposomic signatures;
- and
- (d) outputting the one or more pathways associated with the intervention by comparing the first and second set of subjects' exposomic features of the one or more pathways.
2 more elements
A method to determine exposomic features of a subject associated with space travel, comprising:
- (a) receiving one or more biological samples of a subject;
- (b) determining one or more pathways' exposomic signatures from the one or more biological samples;
- (c) calculating exposomic features of the one or more pathways' exposomic signatures;
- and
- (d) outputting the exposomic features of the subject associated with space travel by comparing the subject's exposomic features and a database of space travel exposomic features.
2 more elements
A method to determine exposomic features of a subject associated with space travel with a trained predictive model, comprising:
- (a) receiving one or more biological samples of a subject;
- (b) determining one or more pathways' exposomic signatures from the one or more biological samples;
- (c) calculating exposomic features of the one or more pathways' exposomic signatures;
- and
- (d) outputting the exposomic features of the subject associated with space travel by providing a trained predictive model with the exposomic features of the subject as an input, wherein the trained predictive model is trained on exposomic features of one or more subjects that participated in space travel.
2 more elements
Dependencies are inferred from the claim text.