Literature DB >> 30379619

Systems-Wide Approaches in Induced Pluripotent Stem Cell Models.

Edward Lau1, David T Paik1, Joseph C Wu1,2.   

Abstract

Human induced pluripotent stem cells (iPSCs) provide a renewable supply of patient-specific and tissue-specific cells for cellular and molecular studies of disease mechanisms. Combined with advances in various omics technologies, iPSC models can be used to profile the expression of genes, transcripts, proteins, and metabolites in relevant tissues. In the past 2 years, large panels of iPSC lines have been derived from hundreds of genetically heterogeneous individuals, further enabling genome-wide mapping to identify coexpression networks and elucidate gene regulatory networks. Here, we review recent developments in omics profiling of various molecular phenotypes and the emergence of human iPSCs as a systems biology model of human diseases.

Entities:  

Keywords:  disease modeling; induced pluripotent stem cells; proteomics; systems biology; transcriptomics

Year:  2018        PMID: 30379619      PMCID: PMC6450651          DOI: 10.1146/annurev-pathmechdis-012418-013046

Source DB:  PubMed          Journal:  Annu Rev Pathol        ISSN: 1553-4006            Impact factor:   23.472


  180 in total

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2.  The large-scale organization of metabolic networks.

Authors:  H Jeong; B Tombor; R Albert; Z N Oltvai; A L Barabási
Journal:  Nature       Date:  2000-10-05       Impact factor: 49.962

3.  Error and attack tolerance of complex networks

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Journal:  Nature       Date:  2000-07-27       Impact factor: 49.962

Review 4.  Network medicine: a network-based approach to human disease.

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5.  Directed differentiation of human-induced pluripotent stem cells generates active motor neurons.

Authors:  Saravanan Karumbayaram; Bennett G Novitch; Michaela Patterson; Joy A Umbach; Laura Richter; Anne Lindgren; Anne E Conway; Amander T Clark; Steve A Goldman; Kathrin Plath; Martina Wiedau-Pazos; Harley I Kornblum; William E Lowry
Journal:  Stem Cells       Date:  2009-04       Impact factor: 6.277

6.  Using iPSC-derived neurons to uncover cellular phenotypes associated with Timothy syndrome.

Authors:  Sergiu P Paşca; Thomas Portmann; Irina Voineagu; Masayuki Yazawa; Aleksandr Shcheglovitov; Anca M Paşca; Branden Cord; Theo D Palmer; Sachiko Chikahisa; Seiji Nishino; Jonathan A Bernstein; Joachim Hallmayer; Daniel H Geschwind; Ricardo E Dolmetsch
Journal:  Nat Med       Date:  2011-11-27       Impact factor: 53.440

7.  Chemically defined conditions for human iPSC derivation and culture.

Authors:  Guokai Chen; Daniel R Gulbranson; Zhonggang Hou; Jennifer M Bolin; Victor Ruotti; Mitchell D Probasco; Kimberly Smuga-Otto; Sara E Howden; Nicole R Diol; Nicholas E Propson; Ryan Wagner; Garrett O Lee; Jessica Antosiewicz-Bourget; Joyce M C Teng; James A Thomson
Journal:  Nat Methods       Date:  2011-04-10       Impact factor: 28.547

8.  Gut flora metabolism of phosphatidylcholine promotes cardiovascular disease.

Authors:  Zeneng Wang; Elizabeth Klipfell; Brian J Bennett; Robert Koeth; Bruce S Levison; Brandon Dugar; Ariel E Feldstein; Earl B Britt; Xiaoming Fu; Yoon-Mi Chung; Yuping Wu; Phil Schauer; Jonathan D Smith; Hooman Allayee; W H Wilson Tang; Joseph A DiDonato; Aldons J Lusis; Stanley L Hazen
Journal:  Nature       Date:  2011-04-07       Impact factor: 49.962

9.  Astrocytes from familial and sporadic ALS patients are toxic to motor neurons.

Authors:  Amanda M Haidet-Phillips; Mark E Hester; Carlos J Miranda; Kathrin Meyer; Lyndsey Braun; Ashley Frakes; SungWon Song; Shibi Likhite; Matthew J Murtha; Kevin D Foust; Meghan Rao; Amy Eagle; Anja Kammesheidt; Ashley Christensen; Jerry R Mendell; Arthur H M Burghes; Brian K Kaspar
Journal:  Nat Biotechnol       Date:  2011-08-10       Impact factor: 54.908

10.  WGCNA: an R package for weighted correlation network analysis.

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Journal:  BMC Bioinformatics       Date:  2008-12-29       Impact factor: 3.169

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  13 in total

1.  Cardiopoietic stem cell therapy restores infarction-altered cardiac proteome.

Authors:  D Kent Arrell; Christian S Rosenow; Satsuki Yamada; Atta Behfar; Andre Terzic
Journal:  NPJ Regen Med       Date:  2020-03-12

2.  High-throughput Preparation of DNA, RNA, and Protein from Cryopreserved Human iPSCs for Multi-omics Analysis.

Authors:  Jeffrey X Zhang; Edward Lau; David T Paik; Yan Zhuge; Joseph C Wu
Journal:  Curr Protoc Stem Cell Biol       Date:  2020-09

3.  Multi-Omic Approaches to Identify Genetic Factors in Metabolic Syndrome.

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Journal:  Compr Physiol       Date:  2021-12-29       Impact factor: 8.915

4.  Cannabinoid receptor 1 antagonist genistein attenuates marijuana-induced vascular inflammation.

Authors:  Tzu-Tang Wei; Mark Chandy; Masataka Nishiga; Angela Zhang; Kaavya Krishna Kumar; Dilip Thomas; Amit Manhas; Siyeon Rhee; Johanne Marie Justesen; Ian Y Chen; Hung-Ta Wo; Saereh Khanamiri; Johnson Y Yang; Frederick J Seidl; Noah Z Burns; Chun Liu; Nazish Sayed; Jiun-Jie Shie; Chih-Fan Yeh; Kai-Chien Yang; Edward Lau; Kara L Lynch; Manuel Rivas; Brian K Kobilka; Joseph C Wu
Journal:  Cell       Date:  2022-04-29       Impact factor: 66.850

Review 5.  Induced pluripotent stem cells as a platform to understand patient-specific responses to opioids and anaesthetics.

Authors:  Detlef Obal; Joseph C Wu
Journal:  Br J Pharmacol       Date:  2020-08-27       Impact factor: 8.739

Review 6.  Use of Human Induced Pluripotent Stem Cell-Derived Cardiomyocytes in Preclinical Cancer Drug Cardiotoxicity Testing: A Scientific Statement From the American Heart Association.

Authors:  Gary Gintant; Paul Burridge; Lior Gepstein; Sian Harding; Todd Herron; Charles Hong; José Jalife; Joseph C Wu
Journal:  Circ Res       Date:  2019-09-19       Impact factor: 17.367

Review 7.  Considerations for using isolated cell systems to understand cardiac metabolism and biology.

Authors:  Lindsey A McNally; Tariq R Altamimi; Kyle Fulghum; Bradford G Hill
Journal:  J Mol Cell Cardiol       Date:  2020-12-21       Impact factor: 5.000

Review 8.  Deciphering pathogenicity of variants of uncertain significance with CRISPR-edited iPSCs.

Authors:  Hongchao Guo; Lichao Liu; Masataka Nishiga; Le Cong; Joseph C Wu
Journal:  Trends Genet       Date:  2021-09-08       Impact factor: 11.639

9.  Molecular neuroanatomy of anorexia nervosa.

Authors:  Derek Howard; Priscilla Negraes; Aristotle N Voineskos; Allan S Kaplan; Alysson R Muotri; Vikas Duvvuri; Leon French
Journal:  Sci Rep       Date:  2020-07-10       Impact factor: 4.379

10.  Cardiopoietic stem cell therapy restores infarction-altered cardiac proteome.

Authors:  D Kent Arrell; Christian S Rosenow; Satsuki Yamada; Atta Behfar; Andre Terzic
Journal:  NPJ Regen Med       Date:  2020-03-12
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