U24 CA264027/CA/NCI NIH HHS/United States[Grants and Funding] - Search Results

Year	Number of Results
2020	1
2021	1
2022	3
2023	7
2024	2

1

Comprehensive Analysis of Genetic Ancestry and Its Molecular Correlates in Cancer.

Carrot-Zhang J, Chambwe N, Damrauer JS, Knijnenburg TA, Robertson AG, Yau C, Zhou W, Berger AC, Huang KL, Newberg JY, Mashl RJ, Romanel A, Sayaman RW, Demichelis F, Felau I, Frampton GM, Han S, Hoadley KA, Kemal A, Laird PW, Lazar AJ, Le X, Oak N, Shen H, Wong CK, Zenklusen JC, Ziv E; Cancer Genome Atlas Analysis Network; Cherniack AD, Beroukhim R. Carrot-Zhang J, et al. Cancer Cell. 2020 May 11;37(5):639-654.e6. doi: 10.1016/j.ccell.2020.04.012. Cancer Cell. 2020. PMID: 32396860 Free PMC article.

2

SuperDendrix algorithm integrates genetic dependencies and genomic alterations across pathways and cancer types.

Park TY, Leiserson MDM, Klau GW, Raphael BJ. Park TY, et al. Cell Genom. 2022 Feb 9;2(2):100099. doi: 10.1016/j.xgen.2022.100099. Cell Genom. 2022. PMID: 35382456 Free PMC article.

3

NetMix2: A Principled Network Propagation Algorithm for Identifying Altered Subnetworks.

Chitra U, Park TY, Raphael BJ. Chitra U, et al. J Comput Biol. 2022 Dec;29(12):1305-1323. doi: 10.1089/cmb.2022.0336. J Comput Biol. 2022. PMID: 36525308 Free PMC article.

4

Belayer: Modeling discrete and continuous spatial variation in gene expression from spatially resolved transcriptomics.

Ma C, Chitra U, Zhang S, Raphael BJ. Ma C, et al. Cell Syst. 2022 Oct 19;13(10):786-797.e13. doi: 10.1016/j.cels.2022.09.002. Cell Syst. 2022. PMID: 36265465 Free PMC article.

5

Partial alignment of multislice spatially resolved transcriptomics data.

Liu X, Zeira R, Raphael BJ. Liu X, et al. Genome Res. 2023 Jul;33(7):1124-1132. doi: 10.1101/gr.277670.123. Epub 2023 Aug 8. Genome Res. 2023. PMID: 37553263 Free PMC article.

6

Startle: A star homoplasy approach for CRISPR-Cas9 lineage tracing.

Sashittal P, Schmidt H, Chan M, Raphael BJ. Sashittal P, et al. Cell Syst. 2023 Dec 20;14(12):1113-1121.e9. doi: 10.1016/j.cels.2023.11.005. Cell Syst. 2023. PMID: 38128483

7

Mapping the topography of spatial gene expression with interpretable deep learning.

Chitra U, Arnold BJ, Sarkar H, Ma C, Lopez-Darwin S, Sanno K, Raphael BJ. Chitra U, et al. bioRxiv [Preprint]. 2023 Oct 13:2023.10.10.561757. doi: 10.1101/2023.10.10.561757. bioRxiv. 2023. PMID: 37873258 Free PMC article. Preprint.

8

PASTE2: Partial Alignment of Multi-slice Spatially Resolved Transcriptomics Data.

Liu X, Zeira R, Raphael BJ. Liu X, et al. bioRxiv [Preprint]. 2023 Jan 8:2023.01.08.523162. doi: 10.1101/2023.01.08.523162. bioRxiv. 2023. PMID: 36711750 Free PMC article. Updated. Preprint.

9

A zero-agnostic model for copy number evolution in cancer.

Schmidt H, Sashittal P, Raphael BJ. Schmidt H, et al. PLoS Comput Biol. 2023 Nov 9;19(11):e1011590. doi: 10.1371/journal.pcbi.1011590. eCollection 2023 Nov. PLoS Comput Biol. 2023. PMID: 37943952 Free PMC article.

10

HATCHet2: clone- and haplotype-specific copy number inference from bulk tumor sequencing data.

Myers MA, Arnold BJ, Bansal V, Mullen KM, Zaccaria S, Raphael BJ. Myers MA, et al. bioRxiv [Preprint]. 2023 Jul 15:2023.07.13.548855. doi: 10.1101/2023.07.13.548855. bioRxiv. 2023. PMID: 37502835 Free PMC article. Preprint.

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