Castaldi PJ - Search Results

1

Enhanced protein isoform characterization through long-read proteogenomics.

Miller RM, Jordan BT, Mehlferber MM, Jeffery ED, Chatzipantsiou C, Kaur S, Millikin RJ, Dai Y, Tiberi S, Castaldi PJ, Shortreed MR, Luckey CJ, Conesa A, Smith LM, Deslattes Mays A, Sheynkman GM. Miller RM, et al. Among authors: castaldi pj. Genome Biol. 2022 Mar 3;23(1):69. doi: 10.1186/s13059-022-02624-y. Genome Biol. 2022. PMID: 35241129 Free PMC article.

2

Characterization of a COPD-Associated NPNT Functional Splicing Genetic Variant in Human Lung Tissue via Long-Read Sequencing.

Saferali A, Xu Z, Sheynkman GM, Hersh CP, Cho MH, Silverman EK, Laederach A, Vollmers C, Castaldi PJ. Saferali A, et al. Among authors: castaldi pj. medRxiv [Preprint]. 2020 Nov 3:2020.10.20.20203927. doi: 10.1101/2020.10.20.20203927. medRxiv. 2020. PMID: 33173926 Free PMC article. Preprint.

3

Bridging the splicing gap in human genetics with long-read RNA sequencing: finding the protein isoform drivers of disease.

Castaldi PJ, Abood A, Farber CR, Sheynkman GM. Castaldi PJ, et al. Hum Mol Genet. 2022 Oct 20;31(R1):R123-R136. doi: 10.1093/hmg/ddac196. Hum Mol Genet. 2022. PMID: 35960994 Free PMC article. Review.

4

Improved prediction of smoking status via isoform-aware RNA-seq deep learning models.

Wang Z, Masoomi A, Xu Z, Boueiz A, Lee S, Zhao T, Bowler R, Cho M, Silverman EK, Hersh C, Dy J, Castaldi PJ. Wang Z, et al. Among authors: castaldi pj. PLoS Comput Biol. 2021 Oct 11;17(10):e1009433. doi: 10.1371/journal.pcbi.1009433. eCollection 2021 Oct. PLoS Comput Biol. 2021. PMID: 34634029 Free PMC article.

5

Cigarette smoking-associated isoform switching and 3' UTR lengthening via alternative polyadenylation.

Xu Z, Platig J, Lee S, Boueiz A, Chase R, Jain D, Gregory A, Suryadevara R, Berman S, Bowler R, Hersh CP, Laederach A, Castaldi PJ; COPDGene Investigators. Xu Z, et al. Among authors: castaldi pj. Genomics. 2021 Nov;113(6):4184-4195. doi: 10.1016/j.ygeno.2021.11.004. Epub 2021 Nov 8. Genomics. 2021. PMID: 34763026 Free PMC article.

6

Integrated 'Omics in Idiopathic Pulmonary Fibrosis: Where Do We Go from Here?

Castaldi PJ. Castaldi PJ. Am J Respir Cell Mol Biol. 2021 Oct;65(4):343-344. doi: 10.1165/rcmb.2021-0238ED. Am J Respir Cell Mol Biol. 2021. PMID: 34181861 Free PMC article. No abstract available.

7

Lung tissue shows divergent gene expression between chronic obstructive pulmonary disease and idiopathic pulmonary fibrosis.

Ghosh AJ, Hobbs BD, Yun JH, Saferali A, Moll M, Xu Z, Chase RP, Morrow J, Ziniti J, Sciurba F, Barwick L, Limper AH, Flaherty K, Criner G, Brown KK, Wise R, Martinez FJ, McGoldrick D, Cho MH, DeMeo DL, Silverman EK, Castaldi PJ; NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium; Hersh CP. Ghosh AJ, et al. Among authors: castaldi pj. Respir Res. 2022 Apr 21;23(1):97. doi: 10.1186/s12931-022-02013-w. Respir Res. 2022. PMID: 35449067 Free PMC article.

8

Analyzing networks of phenotypes in complex diseases: methodology and applications in COPD.

Chu JH, Hersh CP, Castaldi PJ, Cho MH, Raby BA, Laird N, Bowler R, Rennard S, Loscalzo J, Quackenbush J, Silverman EK. Chu JH, et al. Among authors: castaldi pj. BMC Syst Biol. 2014 Jun 25;8:78. doi: 10.1186/1752-0509-8-78. BMC Syst Biol. 2014. PMID: 24964944 Free PMC article.

9

Hepatitis C and HIV detection by blood RNA-sequencing in cohort of smokers.

Morrow JD, Castaldi PJ, Chase RP, Yun JH, Kinney GL, Silverman EK, Hersh CP. Morrow JD, et al. Among authors: castaldi pj. Sci Rep. 2023 Jan 24;13(1):1357. doi: 10.1038/s41598-023-28156-4. Sci Rep. 2023. PMID: 36693932 Free PMC article.

10

Integrating Genetics, Transcriptomics, and Proteomics in Lung Tissue to Investigate Chronic Obstructive Pulmonary Disease.

Zhang YH, Cho MH, Morrow JD, Castaldi PJ, Hersh CP, Midha MK, Hoopmann MR, Lutz SM, Moritz RL, Silverman EK. Zhang YH, et al. Among authors: castaldi pj. Am J Respir Cell Mol Biol. 2023 Jun;68(6):651-663. doi: 10.1165/rcmb.2022-0302OC. Am J Respir Cell Mol Biol. 2023. PMID: 36780661 Free PMC article.

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