Qiu P - Search Results

1

Data-analysis strategies for image-based cell profiling.

Caicedo JC, Cooper S, Heigwer F, Warchal S, Qiu P, Molnar C, Vasilevich AS, Barry JD, Bansal HS, Kraus O, Wawer M, Paavolainen L, Herrmann MD, Rohban M, Hung J, Hennig H, Concannon J, Smith I, Clemons PA, Singh S, Rees P, Horvath P, Linington RG, Carpenter AE. Caicedo JC, et al. Among authors: qiu p. Nat Methods. 2017 Aug 31;14(9):849-863. doi: 10.1038/nmeth.4397. Nat Methods. 2017. PMID: 28858338 Free PMC article.

2

Critical assessment of automated flow cytometry data analysis techniques.

Aghaeepour N, Finak G; FlowCAP Consortium; DREAM Consortium; Hoos H, Mosmann TR, Brinkman R, Gottardo R, Scheuermann RH. Aghaeepour N, et al. Nat Methods. 2013 Mar;10(3):228-38. doi: 10.1038/nmeth.2365. Epub 2013 Feb 10. Nat Methods. 2013. PMID: 23396282 Free PMC article.

3

Visualization and cellular hierarchy inference of single-cell data using SPADE.

Anchang B, Hart TD, Bendall SC, Qiu P, Bjornson Z, Linderman M, Nolan GP, Plevritis SK. Anchang B, et al. Among authors: qiu p. Nat Protoc. 2016 Jul;11(7):1264-79. doi: 10.1038/nprot.2016.066. Epub 2016 Jun 16. Nat Protoc. 2016. PMID: 27310265

4

scDisInFact: disentangled learning for integration and prediction of multi-batch multi-condition single-cell RNA-sequencing data.

Zhang Z, Zhao X, Bindra M, Qiu P, Zhang X. Zhang Z, et al. Among authors: qiu p. Nat Commun. 2024 Jan 30;15(1):912. doi: 10.1038/s41467-024-45227-w. Nat Commun. 2024. PMID: 38291052 Free PMC article.

5

A community effort to assess and improve drug sensitivity prediction algorithms.

Costello JC, Heiser LM, Georgii E, Gönen M, Menden MP, Wang NJ, Bansal M, Ammad-ud-din M, Hintsanen P, Khan SA, Mpindi JP, Kallioniemi O, Honkela A, Aittokallio T, Wennerberg K; NCI DREAM Community; Collins JJ, Gallahan D, Singer D, Saez-Rodriguez J, Kaski S, Gray JW, Stolovitzky G. Costello JC, et al. Nat Biotechnol. 2014 Dec;32(12):1202-12. doi: 10.1038/nbt.2877. Epub 2014 Jun 1. Nat Biotechnol. 2014. PMID: 24880487 Free PMC article.

6

3D material cytometry (3DMaC): a very high-replicate, high-throughput analytical method using microfabricated, shape-specific, cell-material niches.

Parratt K, Jeong J, Qiu P, Roy K. Parratt K, et al. Among authors: qiu p. Lab Chip. 2017 Aug 8;17(16):2861-2872. doi: 10.1039/c7lc00451f. Lab Chip. 2017. PMID: 28726912 Free PMC article.

7

Embracing the dropouts in single-cell RNA-seq analysis.

Qiu P. Qiu P. Nat Commun. 2020 Mar 3;11(1):1169. doi: 10.1038/s41467-020-14976-9. Nat Commun. 2020. PMID: 32127540 Free PMC article.

8

Shape-to-graph mapping method for efficient characterization and classification of complex geometries in biological images.

Pilcher W, Yang X, Zhurikhina A, Chernaya O, Xu Y, Qiu P, Tsygankov D. Pilcher W, et al. Among authors: qiu p. PLoS Comput Biol. 2020 Sep 3;16(9):e1007758. doi: 10.1371/journal.pcbi.1007758. eCollection 2020 Sep. PLoS Comput Biol. 2020. PMID: 32881897 Free PMC article.

9

JSOM: Jointly-evolving self-organizing maps for alignment of biological datasets and identification of related clusters.

Lim HS, Qiu P. Lim HS, et al. Among authors: qiu p. PLoS Comput Biol. 2021 Mar 16;17(3):e1008804. doi: 10.1371/journal.pcbi.1008804. eCollection 2021 Mar. PLoS Comput Biol. 2021. PMID: 33724985 Free PMC article.

10

Polynomial model approach for resynchronization analysis of cell-cycle gene expression data.

Qiu P, Wang ZJ, Liu KJ. Qiu P, et al. Bioinformatics. 2006 Apr 15;22(8):959-66. doi: 10.1093/bioinformatics/btl017. Epub 2006 Jan 24. Bioinformatics. 2006. PMID: 16434439

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