المؤلفون: Madrigal J; Mathematics Department, University of North Carolina at Chapel Hill, Chapel Hill, 27599-3250, NC, USA., Monroe DM; Department of Medicine, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA; UNC Blood Research Center, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA., Sindi SS; Mathematics Department, University of California Merced, Merced, CA, USA., Leiderman K; Mathematics Department, University of North Carolina at Chapel Hill, Chapel Hill, 27599-3250, NC, USA; UNC Blood Research Center, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA; Computational Medicine Program, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA. Electronic address: karin.leiderman@unc.edu.

المصدر: Mathematical biosciences [Math Biosci] 2024 Aug; Vol. 374, pp. 109229. Date of Electronic Publication: 2024 Jun 06.

نوع المنشور: Journal Article

بيانات الدورية: Publisher: American Elsevier Country of Publication: United States NLM ID: 0103146 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1879-3134 (Electronic) Linking ISSN: 00255564 NLM ISO Abbreviation: Math Biosci Subsets: MEDLINE

مواضيع طبية MeSH: Blood Coagulation*/physiology , Factor VIIa*/metabolism, Models, Biological ; Humans ; Kinetics ; Lipids ; Thromboplastin/metabolism

المؤلفون: Tejeda-Garibay S; Quantitative and Systems Biology, Graduate Program, University of California, Merced, Merced, California, USA.; Biosciences and Biotechnology Division, Lawrence Livermore National Laboratories, Livermore, California, USA., Zhao L; Department of Applied Mathematics, University of California, Merced, Merced, California, USA.; Health Sciences Research Institute, University of California, Merced, Merced, California, USA., Hum NR; Biosciences and Biotechnology Division, Lawrence Livermore National Laboratories, Livermore, California, USA., Pimentel M; Department of Molecular and Cell Biology, School of Natural Sciences, University of California, Merced, Merced, California, USA., Diep AL; Quantitative and Systems Biology, Graduate Program, University of California, Merced, Merced, California, USA., Amiri B; Biosciences and Biotechnology Division, Lawrence Livermore National Laboratories, Livermore, California, USA., Sindi SS; Department of Applied Mathematics, University of California, Merced, Merced, California, USA.; Health Sciences Research Institute, University of California, Merced, Merced, California, USA., Weilhammer DR; Biosciences and Biotechnology Division, Lawrence Livermore National Laboratories, Livermore, California, USA., Loots GG; Biosciences and Biotechnology Division, Lawrence Livermore National Laboratories, Livermore, California, USA.; 6Department of Orthopaedic Surgery, Lawrence J. Ellison Musculoskeletal Research Center, University of California Davis Health, Sacramento, California, USA., Hoyer KK; Quantitative and Systems Biology, Graduate Program, University of California, Merced, Merced, California, USA.; Biosciences and Biotechnology Division, Lawrence Livermore National Laboratories, Livermore, California, USA.; Health Sciences Research Institute, University of California, Merced, Merced, California, USA.; Department of Molecular and Cell Biology, School of Natural Sciences, University of California, Merced, Merced, California, USA.

المصدر: Microbiology spectrum [Microbiol Spectr] 2024 Jul 02; Vol. 12 (7), pp. e0297823. Date of Electronic Publication: 2024 Jun 04.

نوع المنشور: Journal Article

بيانات الدورية: Publisher: ASM Press Country of Publication: United States NLM ID: 101634614 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 2165-0497 (Electronic) Linking ISSN: 21650497 NLM ISO Abbreviation: Microbiol Spectr Subsets: MEDLINE

مواضيع طبية MeSH: Coccidioides*/growth & development , Coccidioides*/drug effects , Gastrointestinal Microbiome*/drug effects , Trachea*/microbiology, Animals ; Mice ; Coccidioidomycosis/microbiology ; Microbiota/drug effects ; Bacteria/drug effects ; Bacteria/isolation & purification ; Bacteria/classification ; Bacteria/genetics ; Bacteria/growth & development ; Female ; Anti-Bacterial Agents/pharmacology ; RNA, Ribosomal, 16S/genetics

المؤلفون: Tejeda-Garibay S; Quantitative and Systems Biology, Graduate Program, University of California Merced, CA.; Biosciences and Biotechnology Division, Lawrence Livermore National Laboratories, Livermore CA., Zhao L; Department of Applied Mathematics, University of California, Merced, CA.; Health Sciences Research Institute, University of California Merced, Merced, CA., Hum NR; Biosciences and Biotechnology Division, Lawrence Livermore National Laboratories, Livermore CA., Pimentel M; Department of Molecular and Cell Biology, School of Natural Sciences, University of California Merced, CA., Diep AL; Quantitative and Systems Biology, Graduate Program, University of California Merced, CA., Amiri B; Biosciences and Biotechnology Division, Lawrence Livermore National Laboratories, Livermore CA., Sindi SS; Department of Applied Mathematics, University of California, Merced, CA.; Health Sciences Research Institute, University of California Merced, Merced, CA., Weilhammer DR; Biosciences and Biotechnology Division, Lawrence Livermore National Laboratories, Livermore CA., Loots GG; Biosciences and Biotechnology Division, Lawrence Livermore National Laboratories, Livermore CA.; University of California Davis Health, Department of Orthopaedic Surgery, Lawrence J. Ellison Musculo-skeletal Research Center, 2700 Stockton Blvd, Sacramento, CA 95817, CA., Hoyer KK; Quantitative and Systems Biology, Graduate Program, University of California Merced, CA.; Department of Molecular and Cell Biology, School of Natural Sciences, University of California Merced, CA.; Biosciences and Biotechnology Division, Lawrence Livermore National Laboratories, Livermore CA.; Health Sciences Research Institute, University of California Merced, Merced, CA.

المصدر: BioRxiv : the preprint server for biology [bioRxiv] 2023 Oct 23. Date of Electronic Publication: 2023 Oct 23.

نوع المنشور: Preprint

بيانات الدورية: Country of Publication: United States NLM ID: 101680187 Publication Model: Electronic Cited Medium: Internet ISSN: 2692-8205 (Electronic) Linking ISSN: 26928205 NLM ISO Abbreviation: bioRxiv Subsets: PubMed not MEDLINE

المؤلفون: Li R; Quantitative and Systems Biology Graduate Program, University of California, Merced, Merced, California, United States of America., Rozum JC; Department of Systems Science and Industrial Engineering, Binghamton University (State University of New York), Binghamton, New York, United States of America., Quail MM; Quantitative and Systems Biology Graduate Program, University of California, Merced, Merced, California, United States of America., Qasim MN; Quantitative and Systems Biology Graduate Program, University of California, Merced, Merced, California, United States of America., Sindi SS; Department of Applied Mathematics, University of California, Merced, Merced, California, United States of America., Nobile CJ; Department of Molecular Cell Biology, University of California, Merced, Merced, California, United States of America.; Health Sciences Research Institute, University of California, Merced, Merced, California, United States of America., Albert R; Department of Physics, Pennsylvania State University, University Park, University Park, Pennsylvania, United States of America.; Department of Biology, Pennsylvania State University, University Park, University Park, Pennsylvania, United States of America., Hernday AD; Department of Molecular Cell Biology, University of California, Merced, Merced, California, United States of America.; Health Sciences Research Institute, University of California, Merced, Merced, California, United States of America.

المصدر: PLoS computational biology [PLoS Comput Biol] 2023 Aug 22; Vol. 19 (8), pp. e1010991. Date of Electronic Publication: 2023 Aug 22 (Print Publication: 2023).

نوع المنشور: Journal Article; Research Support, N.I.H., Extramural; Research Support, U.S. Gov't, Non-P.H.S.

بيانات الدورية: Publisher: Public Library of Science Country of Publication: United States NLM ID: 101238922 Publication Model: eCollection Cited Medium: Internet ISSN: 1553-7358 (Electronic) Linking ISSN: 1553734X NLM ISO Abbreviation: PLoS Comput Biol Subsets: MEDLINE

مواضيع طبية MeSH: Gene Regulatory Networks*/genetics , Algorithms*, Bayes Theorem ; Biological Evolution ; Candida albicans/genetics ; RNA, Messenger

المؤلفون: Davalos OA; Quantitative and Systems Biology Graduate Program, University of California, Merced, CA, USA., Heydari AA; Department of Applied Mathematics, University of California, Merced, CA, USA.; Health Sciences Research Institute, University of California, Merced, CA, USA., Fertig EJ; Department of Oncology, Division of Biostatistics and Bioinformatics, Sidney Kimmel Comprehensive Cancer Center, Johns Hopkins School of Medicine, Baltimore, MD, USA., Sindi SS; Department of Applied Mathematics, University of California, Merced, CA, USA.; Health Sciences Research Institute, University of California, Merced, CA, USA., Hoyer KK; Health Sciences Research Institute, University of California, Merced, CA, USA.; Department of Molecular and Cell Biology, School of Natural Sciences, University of California, Merced, CA, USA.

المصدر: BioRxiv : the preprint server for biology [bioRxiv] 2023 Jun 01. Date of Electronic Publication: 2023 Jun 01.

نوع المنشور: Preprint

بيانات الدورية: Country of Publication: United States NLM ID: 101680187 Publication Model: Electronic Cited Medium: Internet NLM ISO Abbreviation: bioRxiv Subsets: PubMed not MEDLINE

المؤلفون: Heydari AA, Sindi SS

المصدر: Biophysics reviews [Biophys Rev (Melville)] 2023 Feb 07; Vol. 4 (1), pp. 011306. Date of Electronic Publication: 2023 Feb 07 (Print Publication: 2023).

نوع المنشور: Journal Article; Review

بيانات الدورية: Publisher: AIP Publishing LLC Country of Publication: United States NLM ID: 101773785 Publication Model: eCollection Cited Medium: Internet ISSN: 2688-4089 (Electronic) Linking ISSN: 26884089 NLM ISO Abbreviation: Biophys Rev (Melville) Subsets: PubMed not MEDLINE

المؤلفون: Paropkari AD; Quantitative and Systems Biology Graduate Program, University of California, Merced, California.; Department of Molecular and Cell Biology, School of Natural Sciences, University of California, Merced, California., Bapat PS; Quantitative and Systems Biology Graduate Program, University of California, Merced, California.; Department of Molecular and Cell Biology, School of Natural Sciences, University of California, Merced, California., Sindi SS; Department of Applied Mathematics, School of Natural Sciences, University of California, Merced, California., Nobile CJ; Department of Molecular and Cell Biology, School of Natural Sciences, University of California, Merced, California.; Health Science Research Institute, University of California, Merced, California.

المصدر: Current protocols [Curr Protoc] 2023 Feb; Vol. 3 (2), pp. e664.

نوع المنشور: Journal Article

بيانات الدورية: Publisher: John Wiley & Sons Country of Publication: United States NLM ID: 101773894 Publication Model: Print Cited Medium: Internet ISSN: 2691-1299 (Electronic) Linking ISSN: 26911299 NLM ISO Abbreviation: Curr Protoc Subsets: MEDLINE

مواضيع طبية MeSH: Gene Expression Profiling*/methods , Software*, Workflow ; RNA-Seq ; RNA, Messenger

المؤلفون: Zhao L; Department of Applied Mathematics, University of California, Merced, 5200 North Lake Rd., Merced, CA, 95343, USA., Santiago F; Department of Applied Mathematics, University of California, Merced, 5200 North Lake Rd., Merced, CA, 95343, USA., Rutter EM; Department of Applied Mathematics, University of California, Merced, 5200 North Lake Rd., Merced, CA, 95343, USA.; Health Sciences Research Institute, University of California, Merced, 5200 North Lake Rd., Merced, CA, 95343, USA., Khatri S; Department of Applied Mathematics, University of California, Merced, 5200 North Lake Rd., Merced, CA, 95343, USA.; Health Sciences Research Institute, University of California, Merced, 5200 North Lake Rd., Merced, CA, 95343, USA., Sindi SS; Department of Applied Mathematics, University of California, Merced, 5200 North Lake Rd., Merced, CA, 95343, USA. ssindi@ucmerced.edu.; Health Sciences Research Institute, University of California, Merced, 5200 North Lake Rd., Merced, CA, 95343, USA. ssindi@ucmerced.edu.

المصدر: Bulletin of mathematical biology [Bull Math Biol] 2023 Jan 13; Vol. 85 (2), pp. 13. Date of Electronic Publication: 2023 Jan 13.

نوع المنشور: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.

بيانات الدورية: Publisher: Springer Country of Publication: United States NLM ID: 0401404 Publication Model: Electronic Cited Medium: Internet ISSN: 1522-9602 (Electronic) Linking ISSN: 00928240 NLM ISO Abbreviation: Bull Math Biol Subsets: MEDLINE

مواضيع طبية MeSH: COVID-19*/epidemiology , COVID-19*/prevention & control, Humans ; Pandemics/prevention & control ; SARS-CoV-2 ; Mathematical Concepts ; Models, Biological

المؤلفون: Heydari AA; Department of Applied Mathematics, University of California, Merced, CA 95343, USA.; Health Sciences Research Institute, University of California, Merced, CA 95343, USA., Davalos OA; Health Sciences Research Institute, University of California, Merced, CA 95343, USA.; Quantitative and Systems Biology Graduate Program, University of California, Merced, CA 95343, USA., Zhao L; Department of Applied Mathematics, University of California, Merced, CA 95343, USA., Hoyer KK; Health Sciences Research Institute, University of California, Merced, CA 95343, USA.; Department of Molecular and Cell Biology, University of California, Merced, CA 95343, USA., Sindi SS; Department of Applied Mathematics, University of California, Merced, CA 95343, USA.; Health Sciences Research Institute, University of California, Merced, CA 95343, USA.

المصدر: Bioinformatics (Oxford, England) [Bioinformatics] 2022 Apr 12; Vol. 38 (8), pp. 2194-2201.

نوع المنشور: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.

بيانات الدورية: Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print Cited Medium: Internet ISSN: 1367-4811 (Electronic) Linking ISSN: 13674803 NLM ISO Abbreviation: Bioinformatics Subsets: MEDLINE

مواضيع طبية MeSH: Single-Cell Gene Expression Analysis* , Single-Cell Analysis*, Animals ; Algorithms ; Exome Sequencing ; Benchmarking

المؤلفون: Qasim MN; Department of Molecular and Cell Biology, University of California, Merced; Quantitative and Systems Biology Graduate Program, University of California, Merced., Valle Arevalo A; Department of Molecular and Cell Biology, University of California, Merced; Quantitative and Systems Biology Graduate Program, University of California, Merced., Paropkari AD; Department of Molecular and Cell Biology, University of California, Merced; Quantitative and Systems Biology Graduate Program, University of California, Merced., Ennis CL; Department of Molecular and Cell Biology, University of California, Merced; Quantitative and Systems Biology Graduate Program, University of California, Merced; Health Sciences Research Institute, University of California, Merced., Sindi SS; Department of Applied Mathematics, University of California, Merced., Nobile CJ; Department of Molecular and Cell Biology, University of California, Merced; Health Sciences Research Institute, University of California, Merced; cnobile@ucmerced.edu., Hernday AD; Department of Molecular and Cell Biology, University of California, Merced; Health Sciences Research Institute, University of California, Merced; ahernday@ucmerced.edu.

المصدر: Journal of visualized experiments : JoVE [J Vis Exp] 2022 Apr 01 (182). Date of Electronic Publication: 2022 Apr 01.

نوع المنشور: Journal Article; Video-Audio Media; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't

بيانات الدورية: Publisher: MYJoVE Corporation Country of Publication: United States NLM ID: 101313252 Publication Model: Electronic Cited Medium: Internet ISSN: 1940-087X (Electronic) Linking ISSN: 1940087X NLM ISO Abbreviation: J Vis Exp Subsets: MEDLINE

مواضيع طبية MeSH: Candida albicans*/genetics , Candida albicans*/metabolism , Transcription Factors*/genetics , Transcription Factors*/metabolism, DNA/metabolism ; Data Analysis ; Endonucleases ; High-Throughput Nucleotide Sequencing ; Humans ; Workflow