Vanderbilt University
Jean-Philippe Cartailler
9465 MRB-IV
213 Garland Ave
Nashville, TN 37027
https://cds.vanderbilt.edu
RRID: RRID:SCR_022366
10x Genomics
2D & 3D Illustration
3D Visualization
ATAC-Seq
Bioimage Informatics
Biorepository
ChIP-Seq
CITE-seq
Clinical Genomics
Computational - Bioinformatics
Computational - High Performance Computing
Computational - Interactive Compute/storage
Consultation
Consultations
Data Analysis
Data Analysis And Interpretation
Data Processing
Data Processing And Interpretation
Data Visualization
Deconvolution
DNA Analysis
Gene Expression Arrays
Genomics
Genotyping-by-sequencing
High Performance Computing
Image Data Management
Image Processing And Analysis
Methylation Analysis
Multimedia Production
Proteomics
R Shiny App Development
Repository
RNA analysis
RNA Modification Analysis
RNAseq
Single-Cell Analysis
Training
Whole Exome Sequencing
Whole Genome Sequencing
1.) Trinh LT, Finnel RR, Osipovich AB, Musselman JR, Sampson LL, Wright CV, Magnuson MA (2025 Jan 16). Positive autoregulation of Sox17 is necessary for gallbladder and extrahepatic bile duct formation Development (Cambridge, England), 152(2), dev203033. . PMCID: 11829758.
2.) Cox OH, Gianonni-Guzmán MA, Cartailler JP, Cottam MA, McMahon DG (2024 Oct). Transcriptomic Plasticity of the Circadian Clock in Response to Photoperiod: A Study in Male Melatonin-Competent Mice. Journal of biological rhythms, 39(5), 423-439. . ID: 39096022.
3.) Robertson KV, Rodriguez AS, Cartailler JP, Shrestha S, Schleh MW, Schroeder KR, Valenti AM, Kramer AT, Harrison FE, Hasty AH (2024 Sep 27). Knockdown of microglial iron import gene, Slc11a2, worsens cognitive function and alters microglial transcriptional landscape in a sex-specific manner in the APP/PS1 model of Alzheimer Journal of neuroinflammation, 21(1), 238. . ID: 39334471.
4.) Pinette JA, Myers JW, Park WY, Bryant HG, Eddie AM, Wilson GA, Montufar C, Shaikh Z, Vue Z, Nunn ER, Bessho R, Cottam MA, Haase VH, Hinton AO, Spinelli JB, Cartailler JP, Zaganjor E (2024 Sep 6). Disruption of nucleotide biosynthesis reprograms mitochondrial metabolism to inhibit adipogenesis. Journal of lipid research, (), 100641. doi: 10.1016/j.jlr.2024.100641. ID: 39245323.
5.) Tao Y, Feng F, Luo X, Reihsmann CV, Hopkirk AL, Cartailler JP, Brissova M, Parker SCJ, Saunders DC, Liu J (2024 Aug). CNTools: A computational toolbox for cellular neighborhood analysis from multiplexed images. PLoS computational biology, 20(8), e1012344. . ID: 39196899.
6.) Robertson KV, Rodriguez AS, Cartailler JP, Shrestha S, Schroeder KR, Valenti AM, Harrison FE, Hasty AH (2024 Jun 27). Knockdown of microglial iron import gene, DMT1, worsens cognitive function and alters microglial transcriptional landscape in a sex-specific manner in the APP/PS1 model of Alzheimer Research square, (), . . ID: 38978579.
7.) Brown JA, Faley SL, Judge M, Ward P, Ihrie RA, Carson R, Armstrong L, Sahin M, Wikswo JP, Ess KC, Neely MD (2024 May 23). Rescue of impaired blood-brain barrier in tuberous sclerosis complex patient derived neurovascular unit. Journal of neurodevelopmental disorders, 16(1), 27. . PMID: 38783199.
8.) Nakhe AY, Dadi PK, Kim J, Dickerson MT, Behera S, Dobson JR, Shrestha S, Cartailler JP, Sampson L, Magnuson MA, Jacobson DA (2024 May 3). The MODY-associated KCNK16 L114P mutation increases islet glucagon secretion and limits insulin secretion resulting in transient neonatal diabetes and glucose dyshomeostasis in adults. eLife, 12(), . . ID: 38700926.
9.) Pourquoi A, Miller MR, Koch SR, Boyle K, Surratt V, Nguyen H, Panja S, Cartailler JP, Shrestha S, Stark RJ (2024 Apr 1). DIFFERENTIAL SIGNALING EFFECTS OF ESCHERICHIA COLI AND STAPHYLOCOCCUS AUREUS IN HUMAN WHOLE BLOOD INDICATE DISTINCT REGULATION OF THE NRF2 PATHWAY. Shock (Augusta, Ga.), 61(4), 557-563. . ID: 38604133.
10.) Cox OH, Gianonni-Guzmán MA, Cartailler JP, Cottam MA, McMahon DG (2024 Mar 25). Gene expression plasticity of the mammalian brain circadian clock in response to photoperiod. bioRxiv : the preprint server for biology, (), . . ID: 38586021.
11.) Farahbakhsh ZZ, Holleran KM, Sens JP, Fordahl SC, Mauterer MI, López AJ, Cuzon Carlson VC, Kiraly DD, Grant KA, Jones SR, Siciliano CA (2024 Mar 17). Synchrony between midbrain gene transcription and dopamine terminal regulation is modulated by chronic alcohol drinking. bioRxiv : the preprint server for biology, (), . . PMID: 38559169.
12.) Brown JA, Faley SL, Judge M, Ward P, Ihrie RA, Carson R, Armstrong L, Sahin M, Wikswo JP, Ess KC, Neely MD (2023 Dec 16). Rescue of Impaired Blood-Brain Barrier in Tuberous Sclerosis Complex Patient Derived Neurovascular Unit bioRxiv, (), 2023.12.15.571738. . PMCID: 10760190.
13.) Brown AM, Meyers LC, Varadarajan J, Ward NJ, Cartailler JP, Chalkley RG, Gould KL, Petrie KA (2023 Nov). From goal to outcome: Analyzing the progression of biomedical sciences PhD careers in a longitudinal study using an expanded taxonomy. FASEB bioAdvances, 5(11), 427-452. . ID: 37936923.
14.) Osipovich AB, Zhou FY, Chong JJ, Trinh LT, Cottam MA, Shrestha S, Cartailler JP, Magnuson MA (2023 Sep 26). Deletion of Ascl1 in pancreatic β-cells improves insulin secretion, promotes parasympathetic innervation, and attenuates dedifferentiation during metabolic stress Molecular Metabolism, 78(), 101811. . PMCID: 10570713.
15.) Dos Santos C, Shrestha S, Cottam M, Perkins G, Lev-Ram V, Roy B, Acree C, Kim KY, Deerinck T, Cutler M, Dean D, Cartailler JP, MacDonald PE, Hetzer M, Ellisman M, Drigo RAE (2023 Sep 20). Caloric restriction promotes beta cell longevity and delays aging and senescence by enhancing cell identity and homeostasis mechanisms. Research square, (), . . ID: 37790446.
16.) Pettway YD, Saunders DC, Brissova M (2023 Jun 19). The human α cell in health and disease The Journal of endocrinology, 258(1), e220298. . PMCID: 10428003.
17.) Osipovich AB, Dudek KD, Trinh LT, Kim LH, Shrestha S, Cartailler JP, Magnuson MA (2023 May 8). ZFP92, a KRAB domain zinc finger protein enriched in pancreatic islets, binds to B1/Alu SINE transposable elements and regulates retroelements and genes PLOS Genetics, 19(5), e1010729. . PMCID: 10166502.
18.) Romero-Morales AI, Robertson GL, Rastogi A, Rasmussen ML, Temuri H, McElroy GS, Chakrabarty RP, Hsu L, Almonacid PM, Millis BA, Chandel NS, Cartailler JP, Gama V (2022 Oct 15). Human iPSC-derived cerebral organoids model features of Leigh syndrome and reveal abnormal corticogenesis. Development (Cambridge, England), 149(20), . . ID: 35792828.
19.) Shrestha S, Erikson G, Lyon J, Spigelman AF, Bautista A, Manning Fox JE, Dos Santos C, Shokhirev M, Cartailler JP, Hetzer MW, MacDonald PE, Arrojo E Drigo R (2022 Oct 7). Aging compromises human islet beta cell function and identity by decreasing transcription factor activity and inducing ER stress. Science advances, 8(40), eabo3932. . ID: 36197983.
20.) Guess T, Potts CR, Bhat P, Cartailler JA, Brooks A, Holt C, Yenamandra A, Wheeler FC, Savona MR, Cartailler JP, Ferrell PB (2022 Jul 6). Distinct Patterns of Clonal Evolution Drive Myelodysplastic Syndrome Progression to Secondary Acute Myeloid Leukemia. Blood cancer discovery, 3(4), 316-329. doi: 10.1158/2643-3230.BCD-21-0128. ID: 35522837.
21.) Dudek KD, Osipovich AB, Cartailler JP, Gu G, Magnuson MA (2021 Oct 19). Insm1, Neurod1, and Pax6 promote murine pancreatic endocrine cell development through overlapping yet distinct RNA transcription and splicing programs. G3 (Bethesda, Md.), 11(11), . . ID: 34534285.
22.) Shrestha S, Saunders DC, Walker JT, Camunas-Soler J, Dai XQ, Haliyur R, Aramandla R, Poffenberger G, Prasad N, Bottino R, Stein R, Cartailler JP, Parker SC, MacDonald PE, Levy SE, Powers AC, Brissova M (2021 Sep 22). Combinatorial transcription factor profiles predict mature and functional human islet α and β cells. JCI insight, 6(18), . . ID: 34428183.
23.) Osipovich AB, Dudek KD, Greenfest-Allen E, Cartailler JP, Manduchi E, Potter Case L, Choi E, Chapman AG, Clayton HW, Gu G, Stoeckert CJ Jr, Magnuson MA (2021 Mar 21). A developmental lineage-based gene co-expression network for mouse pancreatic β-cells reveals a role for Zfp800 in pancreas development. Development (Cambridge, England), 148(6), . . ID: 33653874.
24.) Malik TN, Cartailler JP, Emeson RB (2021). Quantitative Analysis of Adenosine-to-Inosine RNA Editing. Methods in molecular biology (Clifton, N.J.), 2181(), 97-111. . ID: 32729077.
25.) Saunders DC, Messmer J, Kusmartseva I, Beery ML, Yang M, Atkinson MA, Powers AC, Cartailler JP, Brissova M (2020 Nov 13). Pancreatlas: Applying an Adaptable Framework to Map the Human Pancreas in Health and Disease. Patterns (New York, N.Y.), 1(8), 100120. . ID: 33294866.
26.) Stancill JS, Osipovich AB, Cartailler JP, Magnuson MA (2019 Feb 1). Transgene-associated human growth hormone expression in pancreatic β-cells impairs identification of sex-based gene expression differences. American journal of physiology. Endocrinology and metabolism, 316(2), E196-E209. . ID: 30532991.
27.) Stancill JS, Cartailler JP, Clayton HW, O (2017 Aug). Chronic β-Cell Depolarization Impairs β-Cell Identity by Disrupting a Network of Ca(2+)-Regulated Genes. Diabetes, 66(8), 2175-2187. . ID: 28550109.
28.) McKenna NJ, Howard CL, Aufiero M, Easton-Marks J, Steffen DL, Becnel LB, Magnuson MA, McIndoe RA, Cartailler JP (2012 Oct). Research resource: dkCOIN, the National Institute of Diabetes, Digestive and Kidney Diseases (NIDDK) consortium interconnectivity network: a pilot program to aggregate research resources generated by multiple research consortia. Molecular endocrinology (Baltimore, Md.), 26(10), 1675-81. . ID: 22734043.
Creative Data Solutions (CDS) is a Vanderbilt University Shared Resource that offers bioinformatics and informatics services for basic research and clinical projects.
