Topic modeling for multi-omic integration in the human gut microbiome and implications for Autism.

Autor: Tataru C; Department of Microbiology, Oregon State University, SW Campus Way, Corvallis, USA. tataruc@oregonstate.edu., Peras M; Second Genome Inc, 1000 Marina Blvd, Suite 500, Brisbane, CA, 94005, USA., Rutherford E; Second Genome Inc, 1000 Marina Blvd, Suite 500, Brisbane, CA, 94005, USA., Dunlap K; Department of Bioengineering, Serra Mall, Stanford, USA., Yin X; Second Genome Inc, 1000 Marina Blvd, Suite 500, Brisbane, CA, 94005, USA., Chrisman BS; Department of Bioengineering, Serra Mall, Stanford, USA., DeSantis TZ; Second Genome Inc, 1000 Marina Blvd, Suite 500, Brisbane, CA, 94005, USA., Wall DP; Department of Biomedical Data Science, Serra Mall, Stanford, USA.; Department of Pediatrics (Systems Medicine), Stanford, 1265 Welch Road, Stanford, USA., Iwai S; Second Genome Inc, 1000 Marina Blvd, Suite 500, Brisbane, CA, 94005, USA., David MM; Department of Microbiology, Oregon State University, SW Campus Way, Corvallis, USA. maude.david@oregonstate.edu.; School of Pharmacy, Oregon State University, SW Campus Way, Corvallis, USA. maude.david@oregonstate.edu.

Publikováno v: Scientific reports [Sci Rep] 2023 Jul 13; Vol. 13 (1), pp. 11353. Date of Electronic Publication: 2023 Jul 13.

Multi-angle meta-analysis of the gut microbiome in Autism Spectrum Disorder: a step toward understanding patient subgroups.

Autor: West KA; Second Genome Inc., Brisbane, CA, USA., Yin X; Second Genome Inc., Brisbane, CA, USA., Rutherford EM; Second Genome Inc., Brisbane, CA, USA., Wee B; Second Genome Inc., Brisbane, CA, USA., Choi J; Second Genome Inc., Brisbane, CA, USA., Chrisman BS; Department of Bioengineering, Stanford University, Stanford, CA, USA., Dunlap KL; Departments of Pediatrics (Systems Medicine), Stanford University, Stanford, CA, USA., Hannibal RL; Second Genome Inc., Brisbane, CA, USA., Hartono W; Second Genome Inc., Brisbane, CA, USA., Lin M; Second Genome Inc., Brisbane, CA, USA., Raack E; Second Genome Inc., Brisbane, CA, USA., Sabino K; Second Genome Inc., Brisbane, CA, USA., Wu Y; Second Genome Inc., Brisbane, CA, USA.; Labii Inc., South San Francisco, CA, USA., Wall DP; Departments of Pediatrics (Systems Medicine), Stanford University, Stanford, CA, USA.; Department of Biomedical Data Science, Stanford University, Stanford, CA, USA.; Department of Psychiatry and Behavioral Sciences (By Courtesy), Stanford University, Stanford, CA, USA., David MM; Department of Microbiology, Oregon State University, Corvallis, OR, USA.; Department of Pharmaceutical Sciences, Oregon State University, Corvallis, OR, USA., Dabbagh K; Second Genome Inc., Brisbane, CA, USA., DeSantis TZ; Second Genome Inc., Brisbane, CA, USA. todd@secondgenome.com., Iwai S; Second Genome Inc., Brisbane, CA, USA.

Publikováno v: Scientific reports [Sci Rep] 2022 Oct 11; Vol. 12 (1), pp. 17034. Date of Electronic Publication: 2022 Oct 11.

Longitudinal study of stool-associated microbial taxa in sibling pairs with and without autism spectrum disorder.

Autor: Tataru C; Department of Microbiology, Oregon State University, Corvallis, OR, USA. tataruc@oregonstate.edu., Martin A; Department of Microbiology, Oregon State University, Corvallis, OR, USA., Dunlap K; Departments of Pediatrics (Systems Medicine), Biomedical Data Science, and Psychiatry and Behavioral Sciences, Stanford University, Stanford, CA, USA., Peras M; Second Genome Inc., Brisbane, CA, USA., Chrisman BS; Departments of Pediatrics (Systems Medicine), Biomedical Data Science, and Psychiatry and Behavioral Sciences, Stanford University, Stanford, CA, USA.; Department of Bioengineering, Stanford University, Stanford, CA, USA., Rutherford E; Second Genome Inc., Brisbane, CA, USA., Deitzler GE; Department of Microbiology, Oregon State University, Corvallis, OR, USA., Phillips A; Department of Microbiology, Oregon State University, Corvallis, OR, USA., Yin X; Second Genome Inc., Brisbane, CA, USA., Sabino K; Second Genome Inc., Brisbane, CA, USA., Hannibal RL; Second Genome Inc., Brisbane, CA, USA., Hartono W; Second Genome Inc., Brisbane, CA, USA., Lin M; Second Genome Inc., Brisbane, CA, USA., Raack E; Second Genome Inc., Brisbane, CA, USA., Wu Y; Second Genome Inc., Brisbane, CA, USA., DeSantis TZ; Second Genome Inc., Brisbane, CA, USA., Iwai S; Second Genome Inc., Brisbane, CA, USA., Wall DP; Departments of Pediatrics (Systems Medicine), Biomedical Data Science, and Psychiatry and Behavioral Sciences, Stanford University, Stanford, CA, USA.; Department of Biomedical Data Science, Stanford University, Stanford, CA, USA.; Department of Psychiatry and Behavioral Sciences, Stanford University, Stanford, CA, USA., David MM; Department of Microbiology, Oregon State University, Corvallis, OR, USA. maude.david@oregonstate.edu.; Department of Pharmaceutical Sciences, Oregon State University, Corvallis, OR, USA. maude.david@oregonstate.edu.

Publikováno v: ISME communications [ISME Commun] 2021 Dec 18; Vol. 1 (1), pp. 80. Date of Electronic Publication: 2021 Dec 18.

A maximum flow-based network approach for identification of stable noncoding biomarkers associated with the multigenic neurological condition, autism.

Autor: Varma M; Department of Computer Science, Stanford University, Stanford, CA, USA., Paskov KM; Department of Biomedical Data Science, Stanford University, Stanford, CA, USA., Chrisman BS; Department of Bioengineering, Stanford University, Stanford, CA, USA., Sun MW; Department of Biomedical Data Science, Stanford University, Stanford, CA, USA., Jung JY; Department of Biomedical Data Science, Stanford University, Stanford, CA, USA.; Department of Pediatrics, Stanford University, Stanford, CA, USA., Stockham NT; Department of Neuroscience, Stanford University, Stanford, CA, USA., Washington PY; Department of Bioengineering, Stanford University, Stanford, CA, USA., Wall DP; Department of Biomedical Data Science, Stanford University, Stanford, CA, USA. dpwall@stanford.edu.; Department of Pediatrics, Stanford University, Stanford, CA, USA. dpwall@stanford.edu.

Publikováno v: BioData mining [BioData Min] 2021 May 03; Vol. 14 (1), pp. 28. Date of Electronic Publication: 2021 May 03.

Multiscale Modeling of Cardiovascular Function Predicts That the End-Systolic Pressure Volume Relationship Can Be Targeted via Multiple Therapeutic Strategies.

Autor: Campbell KS; Division of Cardiovascular Medicine, Department of Physiology, University of Kentucky, Lexington, KY, United States., Chrisman BS; Department of Biomedical Engineering, Yale University, New Haven, CT, United States., Campbell SG; Department of Biomedical Engineering, Yale University, New Haven, CT, United States.

Publikováno v: Frontiers in physiology [Front Physiol] 2020 Aug 19; Vol. 11, pp. 1043. Date of Electronic Publication: 2020 Aug 19 (Print Publication: 2020).