Medical College of Wisconsin
CTSICores SearchResearch InformaticsREDCap

Chien-Wei Lin PhD

Chien-Wei Lin PhD profile photo picture

Associate Professor

Institution: Medical College of Wisconsin
Department: Data Science Institute
Division: Biostatistics
Program: Research

Member of the Institute for Health & Equity
Member of the Mellowes Center for Genomic Sciences and Precision Medicine

View Curriculum Vitae

Publications (53)

  • Temporally resolved early bone morphogenetic protein-driven transcriptional cascade during human amnion specification. (Sekulovski N, Wettstein JC, Carleton AE, Juga LN, Taniguchi LE, Ma X, Rao S, Schmidt JK, Golos TG, Lin CW, Taniguchi K) Elife 2024 Jul 25;12 PMID: 39051990 PMCID: PMC11272160 SCOPUS ID: 2-s2.0-85170502786 07/26/2024    
  • Temporally resolved single cell transcriptomics in a human model of amniogenesis. (Sekulovski N, Carleton AE, Rengarajan AA, Lin CW, Juga LN, Whorton AE, Schmidt JK, Golos TG, Taniguchi K) bioRxiv 2024 Aug 22 PMID: 39026707 PMCID: PMC11257495 07/19/2024    
  • Estrogen-related receptor alpha promotes thyroid tumor cell survival via a tumor subtype-specific regulation of target gene networks. (Chen W, Song YS, Lee HS, Lin CW, Lee J, Kang YE, Kim SK, Kim SY, Park YJ, Park JI) Oncogene 2024 Jul;43(31):2431-2446 PMID: 38937602 SCOPUS ID: 2-s2.0-85197858420 06/28/2024    
  • Meta-Analytic Gene-Clustering Algorithm for Integrating Multi-Omics and Multi-Study Data. (Kemmo Tsafack U, Ahn KW, Kwitek AE, Lin CW) Bioengineering (Basel) 2024 Jun 08;11(6) PMID: 38927823 PMCID: PMC11201102 SCOPUS ID: 2-s2.0-85197927921 06/27/2024    
  • Monocytes in type 1 diabetes families exhibit high cytolytic activity and subset abundances that correlate with clinical progression. (Pant T, Lin CW, Bedrat A, Jia S, Roethle MF, Truchan NA, Ciecko AE, Chen YG, Hessner MJ) Sci Adv 2024 May 17;10(20):eadn2136 PMID: 38758799 PMCID: PMC11100571 SCOPUS ID: 2-s2.0-85193631768 05/17/2024       2 Citations
  • Temporally resolved early BMP-driven transcriptional cascade during human amnion specification. (Sekulovski N, Wettstein JC, Carleton AE, Juga LN, Taniguchi LE, Ma X, Rao S, Schmidt JK, Golos TG, Lin CW, Taniguchi K) bioRxiv 2024 Mar 06 PMID: 38496419 PMCID: PMC10942271 03/18/2024    
  • Using a centered general linear model for detection of interactions among biomarkers. (Wang T, Lin CW) Stat Methods Med Res 2024 Mar;33(3):414-432 PMID: 38320800 SCOPUS ID: 2-s2.0-85184390679 02/07/2024    
  • IL-13 promotes functional recovery after myocardial infarction via direct signaling to macrophages. (Alvarez-Argote S, Paddock SJ, Flinn MA, Moreno CW, Knas MC, Almeida VA, Buday SL, Bakhshian Nik A, Patterson M, Chen YG, Lin CW, O'Meara CC) JCI Insight 2024 Jan 23;9(2) PMID: 38051583 PMCID: PMC10906228 SCOPUS ID: 2-s2.0-85183312687 12/06/2023       4 Citations
  • Cellular Senescence Contributes to the Progression of Hyperoxic Bronchopulmonary Dysplasia. (Jing X, Jia S, Teng M, Day BW, Afolayan AJ, Jarzembowski JA, Lin CW, Hessner MJ, Pritchard KA Jr, Naylor S, Konduri GG, Teng RJ) Am J Respir Cell Mol Biol 2024 Feb;70(2):94-109 PMID: 37874230 SCOPUS ID: 2-s2.0-85184825553 10/24/2023       7 Citations
  • A spatial sequencing atlas of age-induced changes in the lung during influenza infection. (Kasmani MY, Topchyan P, Brown AK, Brown RJ, Wu X, Chen Y, Khatun A, Alson D, Wu Y, Burns R, Lin CW, Kudek MR, Sun J, Cui W) Nat Commun 2023 Oct 18;14(1):6597 PMID: 37852965 PMCID: PMC10584893 SCOPUS ID: 2-s2.0-85174461444 10/19/2023       5 Citations
  • Identification of Amnion Progenitor-Like Cells at the Amnion-Epiblast Boundary in the Primate Peri-Gastrula Sekulovski N, Juga L, Cortez CL, Czerwinski M, Whorton AE, Spence JR, Schmidt JK, Golos TG, Gumucio DL, Lin CW, Taniguchi K (2023) Developmental Cell 09/07/2023    
  • Temporally resolved early BMP-driven transcriptional cascade during human amnion specification (Reviewed Preprint) Sekulovski N, Wettstein JC, Carleton AE, Taniguchi LE, Ma X, Rao S, Schmidt JK, Golos TG, Lin CW, Taniguchi K (2023) eLife 12:RP89367 08/10/2023    
  • Heterogeneity of Islet-Infiltrating IL-21+ CD4 T Cells in a Mouse Model of Type 1 Diabetes. (Ciecko AE, Wang Y, Harleston S, Drewek A, Serreze DV, Geurts AM, Lin CW, Chen YG) J Immunol 2023 Apr 01;210(7):935-946 PMID: 36762954 PMCID: PMC10483376 SCOPUS ID: 2-s2.0-85151043870 02/11/2023       4 Citations
  • A Pilot Clinical Study to Investigate the Hypomethylating Properties of Freeze-dried Black Raspberries in Patients with Myelodysplastic Syndrome or Myeloproliferative Neoplasm. (Dong A, Pan X, Lin CW, Huang YW, Krause H, Pan P, Baim A, Thomas MJ, Chen X, Yu J, Michaelis L, Liu P, Wang LS, Atallah E) J Cancer Prev 2022 Jun 30;27(2):129-138 PMID: 35864858 PMCID: PMC9271408 07/23/2022    
  • A phase 2 trial of a topical antiseptic bundle in head and neck cancer surgery: Effects on surgical site infection and the oral microbiome. (Zenga J, Atkinson S, Yen T, Massey B, Stadler M, Bruening J, Peppard W, Reuben M, Hayward M, Mesich B, Buchan B, Ledeboer N, Sanchez JL, Fraser R, Lin CW, Holtz ML, Awan M, Wong SJ, Puram SV, Salzman N) EBioMedicine 2022 Jul;81:104099 PMID: 35671624 PMCID: PMC9168040 SCOPUS ID: 2-s2.0-85131428877 06/08/2022       6 Citations
  • Protocatechuic Acid, a Gut Bacterial Metabolite of Black Raspberries, Inhibits Adenoma Development and Alters Gut Microbiome Profiles in Apc Min/+ Mice. (Dong A, Lin CW, Echeveste CE, Huang YW, Oshima K, Yearsley M, Chen X, Yu J, Wang LS) J Cancer Prev 2022 Mar 30;27(1):50-57 PMID: 35419306 PMCID: PMC8984655 04/15/2022    
  • MOET: a web-based gene set enrichment tool at the Rat Genome Database for multiontology and multispecies analyses. (Vedi M, Nalabolu HS, Lin CW, Hoffman MJ, Smith JR, Brodie K, De Pons JL, Demos WM, Gibson AC, Hayman GT, Hill ML, Kaldunski ML, Lamers L, Laulederkind SJF, Thorat K, Thota J, Tutaj M, Tutaj MA, Wang SJ, Zacher S, Dwinell MR, Kwitek AE) Genetics 2022 Apr 04;220(4) PMID: 35380657 PMCID: PMC8982048 SCOPUS ID: 2-s2.0-85128160560 04/06/2022       7 Citations
  • RhoBTB1 reverses established arterial stiffness in angiotensin II-induced hypertension by promoting actin depolymerization. (Fang S, Wu J, Reho JJ, Lu KT, Brozoski DT, Kumar G, Werthman AM, Silva SD Jr, Muskus Veitia PC, Wackman KK, Mathison AJ, Teng BQ, Lin CW, Quelle FW, Sigmund CD) JCI Insight 2022 May 09;7(9) PMID: 35358093 PMCID: PMC9090250 SCOPUS ID: 2-s2.0-85129954550 04/01/2022       10 Citations
  • Black raspberries attenuate colonic adenoma development in Apc Min mice: Relationship to hypomethylation of promoters and gene bodies. (Huang YW, Mo YY, Echeveste CE, Oshima K, Zhang J, Yearsley M, Lin CW, Yu J, Liu P, Du M, Sun C, Xiao J, Wang LS) Food Front 2020 Sep;1(3):234-242 PMID: 34557678 PMCID: PMC8457619 SCOPUS ID: 2-s2.0-85098235761 09/25/2021       7 Citations
  • Self-Renewing Islet TCF1+ CD8 T Cells Undergo IL-27-Controlled Differentiation to Become TCF1- Terminal Effectors during the Progression of Type 1 Diabetes. (Ciecko AE, Schauder DM, Foda B, Petrova G, Kasmani MY, Burns R, Lin CW, Drobyski WR, Cui W, Chen YG) J Immunol 2021 Oct 15;207(8):1990-2004 PMID: 34507949 PMCID: PMC8492517 SCOPUS ID: 2-s2.0-85116529072 09/12/2021       17 Citations
  • Transplanting fecal material from wild-type mice fed black raspberries alters the immune system of recipient mice. (Huang YW, Pan P, Echeveste CE, Wang HT, Oshima K, Lin CW, Yearsley M, Xiao J, Chen J, Sun C, Yu J, Wang LS) Food Front 2020 Sep;1(3):253-259 PMID: 34308364 PMCID: PMC8301209 SCOPUS ID: 2-s2.0-85098284758 07/27/2021       5 Citations
  • Spatially resolved cell polarity proteomics of a human epiblast model. (Wang S, Lin CW, Carleton AE, Cortez CL, Johnson C, Taniguchi LE, Sekulovski N, Townshend RF, Basrur V, Nesvizhskii AI, Zou P, Fu J, Gumucio DL, Duncan MC, Taniguchi K) Sci Adv 2021 Apr;7(17) PMID: 33893097 PMCID: PMC8064645 SCOPUS ID: 2-s2.0-85105042876 04/25/2021       13 Citations
  • Dysregulated Free Fatty Acid Receptor 2 Exacerbates Colonic Adenoma Formation in Apc Min/+ Mice: Relation to Metabolism and Gut Microbiota Composition. (Huang YW, Lin CW, Pan P, Echeveste CE, Dong A, Oshima K, Yearsley M, Yu J, Wang LS) J Cancer Prev 2021 Mar 30;26(1):32-40 PMID: 33842404 PMCID: PMC8020170 04/13/2021    
  • Simultaneous estimation of cluster number and feature sparsity in high-dimensional cluster analysis. (Li Y, Zeng X, Lin CW, Tseng GC) Biometrics 2022 Jun;78(2):574-585 PMID: 33621349 SCOPUS ID: 2-s2.0-85102645202 02/24/2021       3 Citations
  • Targeting PIM1-Mediated Metabolism in Myeloid Suppressor Cells to Treat Cancer. (Xin G, Chen Y, Topchyan P, Kasmani MY, Burns R, Volberding PJ, Wu X, Cohn A, Chen Y, Lin CW, Ho PC, Silverstein R, Dwinell MB, Cui W) Cancer Immunol Res 2021 Apr;9(4):454-469 PMID: 33579728 PMCID: PMC8137571 SCOPUS ID: 2-s2.0-85104420312 02/14/2021       25 Citations
  • Black Raspberries Suppress Colorectal Cancer by Enhancing Smad4 Expression in Colonic Epithelium and Natural Killer Cells. (Huang YW, Lin CW, Pan P, Shan T, Echeveste CE, Mo YY, Wang HT, Aldakkak M, Tsai S, Oshima K, Yearsley M, Xiao J, Cao H, Sun C, Du M, Bai W, Yu J, Wang LS) Front Immunol 2020;11:570683 PMID: 33424832 PMCID: PMC7793748 SCOPUS ID: 2-s2.0-85098236353 01/12/2021       16 Citations
  • Single-cell lineage mapping of a diverse virus-specific naive CD4 T cell repertoire. (Khatun A, Kasmani MY, Zander R, Schauder DM, Snook JP, Shen J, Wu X, Burns R, Chen YG, Lin CW, Williams MA, Cui W) J Exp Med 2021 Mar 01;218(3) PMID: 33201171 PMCID: PMC7676493 SCOPUS ID: 2-s2.0-85096353007 11/18/2020       35 Citations
  • Duchenne muscular dystrophy (DMD) cardiomyocyte-secreted exosomes promote the pathogenesis of DMD-associated cardiomyopathy. (Gartz M, Lin CW, Sussman MA, Lawlor MW, Strande JL) Dis Model Mech 2020 Nov 13;13(11) PMID: 33188007 PMCID: PMC7673361 SCOPUS ID: 2-s2.0-85096154674 11/15/2020       21 Citations
  • Older molecular brain age in severe mental illness. (Lin CW, Chang LC, Ma T, Oh H, French B, Puralewski R, Mathews F, Fang Y, Lewis DA, Kennedy JL, Mueller D, Marshe VS, Jaffe A, Chen Q, Ursini G, Weinberger D, Newman AB, Lenze EJ, Nikolova YS, Tseng GC, Sibille E) Mol Psychiatry 2021 Jul;26(7):3646-3656 PMID: 32632206 PMCID: PMC7785531 SCOPUS ID: 2-s2.0-85087558680 07/08/2020       25 Citations
  • Comparative Pathway Integrator: A Framework of Meta-Analytic Integration of Multiple Transcriptomic Studies for Consensual and Differential Pathway Analysis. (Zeng X, Zong W, Lin CW, Fang Z, Ma T, Lewis DA, Enwright JF, Tseng GC) Genes (Basel) 2020 Jun 24;11(6) PMID: 32599927 PMCID: PMC7348908 SCOPUS ID: 2-s2.0-85086845830 07/01/2020       6 Citations
  • Black raspberries suppress pancreatic cancer through modulation of NKp46+, CD8+, and CD11b+ immune cells. (Pan P, Zhu Z, Oshima K, Aldakkak M, Tsai S, Huang YW, Dong W, Zhang J, Lin CW, Wang Y, Yearsley M, Yu J, Wang LS) Food Front 2020 Mar;1(1):70-82 PMID: 32368735 PMCID: PMC7197210 SCOPUS ID: 2-s2.0-85098260756 05/06/2020       10 Citations
  • Mortalin (HSPA9) facilitates BRAF-mutant tumor cell survival by suppressing ANT3-mediated mitochondrial membrane permeability. (Wu PK, Hong SK, Chen W, Becker AE, Gundry RL, Lin CW, Shao H, Gestwicki JE, Park JI) Sci Signal 2020 Mar 10;13(622) PMID: 32156782 PMCID: PMC7099430 SCOPUS ID: 2-s2.0-85081677231 03/12/2020       25 Citations
  • Novel KLHL26 variant associated with a familial case of Ebstein's anomaly and left ventricular noncompaction. (Samudrala SSK, North LM, Stamm KD, Earing MG, Frommelt MA, Willes R, Tripathi S, Dsouza NR, Zimmermann MT, Mahnke DK, Liang HL, Lund M, Lin CW, Geddes GC, Mitchell ME, Tomita-Mitchell A) Mol Genet Genomic Med 2020 Apr;8(4):e1152 PMID: 31985165 PMCID: PMC7196453 SCOPUS ID: 2-s2.0-85078673520 01/28/2020       9 Citations
  • MethylSeqDesign: a framework for Methyl-Seq genome-wide power calculation and study design issues. (Liu P, Lin CW, Park Y, Tseng G) Biostatistics 2021 Jan 28;22(1):35-50 PMID: 31107532 PMCID: PMC7846147 SCOPUS ID: 2-s2.0-85100925016 05/21/2019       1 Citation
  • RNASeqDesign: A framework for RNA-Seq genome-wide power calculation and study design issues. (Lin CW, Liao SG, Liu P, Park YS, Lee MT, Tseng GC) J R Stat Soc Ser C Appl Stat 2019 Apr;68(3):683-704 PMID: 33692596 PMCID: PMC7941184 SCOPUS ID: 2-s2.0-85058068597 04/01/2019       1 Citation
  • DNA methylation in the human frontal cortex reveals a putative mechanism for age-by-disease interactions. (McKinney BC, Lin CW, Rahman T, Oh H, Lewis DA, Tseng G, Sibille E) Transl Psychiatry 2019 Jan 29;9(1):39 PMID: 30696804 PMCID: PMC6351569 SCOPUS ID: 2-s2.0-85060778899 01/31/2019       13 Citations
  • MetaOmics: analysis pipeline and browser-based software suite for transcriptomic meta-analysis. (Ma T, Huo Z, Kuo A, Zhu L, Fang Z, Zeng X, Lin CW, Liu S, Wang L, Liu P, Rahman T, Chang LC, Kim S, Li J, Park Y, Song C, Oesterreich S, Sibille E, Tseng GC) Bioinformatics 2019 May 01;35(9):1597-1599 PMID: 30304367 PMCID: PMC6499246 SCOPUS ID: 2-s2.0-85065663763 10/12/2018       19 Citations
  • Temporal and Spatial Post-Transcriptional Regulation of Zebrafish tie1 mRNA by Long Noncoding RNA During Brain Vascular Assembly. (Chowdhury TA, Koceja C, Eisa-Beygi S, Kleinstiver BP, Kumar SN, Lin CW, Li K, Prabhudesai S, Joung JK, Ramchandran R) Arterioscler Thromb Vasc Biol 2018 Jul;38(7):1562-1575 PMID: 29724820 PMCID: PMC6023729 SCOPUS ID: 2-s2.0-85054442764 05/05/2018       18 Citations
  • Enhanced Molecular Aging in Late-Life Depression: the Senescent-Associated Secretory Phenotype. (Diniz BS, Reynolds CF 3rd, Sibille E, Lin CW, Tseng G, Lotrich F, Aizenstein HJ, Butters MA) Am J Geriatr Psychiatry 2017 Jan;25(1):64-72 PMID: 27856124 PMCID: PMC5164865 SCOPUS ID: 2-s2.0-85003955410 11/20/2016       44 Citations
  • Age-dependent increase in Kalirin-9 and Kalirin-12 transcripts in human orbitofrontal cortex. (Grubisha MJ, Lin CW, Tseng GC, Penzes P, Sibille E, Sweet RA) Eur J Neurosci 2016 Oct;44(7):2483-2492 PMID: 27471199 PMCID: PMC5048532 SCOPUS ID: 2-s2.0-84982306466 07/30/2016       6 Citations
  • Circulating biosignatures of late-life depression (LLD): Towards a comprehensive, data-driven approach to understanding LLD pathophysiology. (Diniz BS, Lin CW, Sibille E, Tseng G, Lotrich F, Aizenstein HJ, Reynolds CF, Butters MA) J Psychiatr Res 2016 Nov;82:1-7 PMID: 27447786 PMCID: PMC9344393 SCOPUS ID: 2-s2.0-84978670364 07/23/2016       39 Citations
  • Predisposition to treatment response in major depressive episode: A peripheral blood gene coexpression network analysis. (Belzeaux R, Lin CW, Ding Y, Bergon A, Ibrahim EC, Turecki G, Tseng G, Sibille E) J Psychiatr Res 2016 Oct;81:119-26 PMID: 27438688 SCOPUS ID: 2-s2.0-84978484144 07/21/2016       26 Citations
  • SMART: Statistical Metabolomics Analysis-An R Tool. (Liang YJ, Lin YT, Chen CW, Lin CW, Chao KM, Pan WH, Yang HC) Anal Chem 2016 Jun 21;88(12):6334-41 PMID: 27248514 SCOPUS ID: 2-s2.0-84975883580 06/02/2016       22 Citations
  • MetaKTSP: a meta-analytic top scoring pair method for robust cross-study validation of omics prediction analysis. (Kim S, Lin CW, Tseng GC) Bioinformatics 2016 Jul 01;32(13):1966-73 PMID: 27153719 PMCID: PMC6280887 SCOPUS ID: 2-s2.0-85007227258 05/07/2016       32 Citations
  • FRAS1-related extracellular matrix 3 (FREM3) single-nucleotide polymorphism effects on gene expression, amygdala reactivity and perceptual processing speed: An accelerated aging pathway of depression risk. (Nikolova YS, Iruku SP, Lin CW, Conley ED, Puralewski R, French B, Hariri AR, Sibille E) Front Psychol 2015;6:1377 PMID: 26441752 PMCID: PMC4584966 SCOPUS ID: 2-s2.0-85048752585 10/07/2015       13 Citations
  • Hypermethylation of BDNF and SST Genes in the Orbital Frontal Cortex of Older Individuals: A Putative Mechanism for Declining Gene Expression with Age. (McKinney BC, Lin CW, Oh H, Tseng GC, Lewis DA, Sibille E) Neuropsychopharmacology 2015 Oct;40(11):2604-13 PMID: 25881116 PMCID: PMC4569950 SCOPUS ID: 2-s2.0-84941313544 04/17/2015       23 Citations
  • VSNL1 Co-Expression Networks in Aging Include Calcium Signaling, Synaptic Plasticity, and Alzheimer's Disease Pathways. (Lin CW, Chang LC, Tseng GC, Kirkwood CM, Sibille EL, Sweet RA) Front Psychiatry 2015;6:30 PMID: 25806004 PMCID: PMC4353182 SCOPUS ID: 2-s2.0-84926656550 03/26/2015       17 Citations
  • Applying genome-wide gene-based expression quantitative trait locus mapping to study population ancestry and pharmacogenetics. (Yang HC, Lin CW, Chen CW, Chen JJ) BMC Genomics 2014 Apr 29;15:319 PMID: 24779372 PMCID: PMC4236814 SCOPUS ID: 2-s2.0-84899937080 05/02/2014       6 Citations
  • A conserved BDNF, glutamate- and GABA-enriched gene module related to human depression identified by coexpression meta-analysis and DNA variant genome-wide association studies. (Chang LC, Jamain S, Lin CW, Rujescu D, Tseng GC, Sibille E) PLoS One 2014;9(3):e90980 PMID: 24608543 PMCID: PMC3946570 SCOPUS ID: 2-s2.0-84897414615 03/13/2014       77 Citations
  • An analytical model for generalized ESP games (Wang, B. C., Lin, C. W., Chen, K. T., & Chen, L. J. ) Knowledge-based systems 10/01/2012    
  • Integrative analysis of single nucleotide polymorphisms and gene expression efficiently distinguishes samples from closely related ethnic populations. (Yang HC, Wang PL, Lin CW, Chen CH, Chen CH) BMC Genomics 2012 Jul 28;13:346 PMID: 22839760 PMCID: PMC3453505 SCOPUS ID: 2-s2.0-84864259760 07/31/2012       10 Citations
  • SAQC: SNP array quality control. (Yang HC, Lin HC, Kang M, Chen CH, Lin CW, Li LH, Wu JY, Chen YT, Pan WH) BMC Bioinformatics 2011 Apr 18;12:100 PMID: 21501472 PMCID: PMC3101186 SCOPUS ID: 2-s2.0-79955110841 04/20/2011       5 Citations
  • A goodness-of-fit test for Archimedean copula models in the presence of right censoring (Emura, T., Lin, C. W., & Wang, W.) Computational Statistics and Data Analysis 04/02/2010    
    • Last update: 09/03/2024