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Single-cell and bulk transcriptome sequencing identifies two epithelial tumor cell states and refines the consensus molecular classification of colorectal cancer.
Joanito I, Wirapati P, Zhao N, Nawaz Z, Yeo G, Lee F, Eng CLP, Macalinao DC, Kahraman M, Srinivasan H, Lakshmanan V, Verbandt S, Tsantoulis P, Gunn N, Venkatesh PN, Poh ZW, Nahar R, Oh HLJ, Loo JM, Chia S, Cheow LF, Cheruba E, Wong MT, Kua L, Chua C, Nguyen A, Golovan J, Gan A, Lim WJ, Guo YA, Yap CK, Tay B, Hong Y, Chong DQ, Chok AY, Park WY, Han S, Chang MH, Seow-En I, Fu C, Mathew R, Toh EL, Hong LZ, Skanderup AJ, DasGupta R, Ong CJ, Lim KH, Tan EKW, Koo SL, Leow WQ, Tejpar S, Prabhakar S, Tan IB. Joanito I, et al. Among authors: prabhakar s. Nat Genet. 2022 Jul;54(7):963-975. doi: 10.1038/s41588-022-01100-4. Epub 2022 Jun 30. Nat Genet. 2022. PMID: 35773407 Free PMC article.
A single-cell atlas identifies pretreatment features of primary imatinib resistance in chronic myeloid leukemia.
Krishnan V, Schmidt F, Nawaz Z, Venkatesh PN, Lee KL, Ren X, Chan ZE, Yu M, Makheja M, Rayan NA, Lim MGL, Cheung AMS, Bari S, Chng WJ, Than H, Ouyang J, Rackham O, Tan TZ, Hwang WYK, Chuah C, Prabhakar S, Ong ST. Krishnan V, et al. Among authors: prabhakar s. Blood. 2023 Jun 1;141(22):2738-2755. doi: 10.1182/blood.2022017295. Blood. 2023. PMID: 36857629 Free article.
Longitudinal single cell atlas identifies complex temporal relationship between type I interferon response and COVID-19 severity.
Lin QXX, Rajagopalan D, Gamage AM, Tan LM, Venkatesh PN, Chan WOY, Kumar D, Agrawal R, Chen Y, Fong SW, Singh A, Sun LJ, Tan SY, Chai LYA, Somani J, Lee B, Renia L, Ng LFP, Ramanathan K, Wang LF, Young B, Lye D, Singhal A, Prabhakar S. Lin QXX, et al. Among authors: prabhakar s. Nat Commun. 2024 Jan 18;15(1):567. doi: 10.1038/s41467-023-44524-0. Nat Commun. 2024. PMID: 38238298 Free PMC article.
A functional SNP associated with atopic dermatitis controls cell type-specific methylation of the VSTM1 gene locus.
Kumar D, Puan KJ, Andiappan AK, Lee B, Westerlaken GH, Haase D, Melchiotti R, Li Z, Yusof N, Lum J, Koh G, Foo S, Yeong J, Alves AC, Pekkanen J, Sun LD, Irwanto A, Fairfax BP, Naranbhai V, Common JE, Tang M, Chuang CK, Jarvelin MR, Knight JC, Zhang X, Chew FT, Prabhakar S, Jianjun L, Wang Y, Zolezzi F, Poidinger M, Lane EB, Meyaard L, Rötzschke O. Kumar D, et al. Among authors: prabhakar s. Genome Med. 2017 Feb 20;9(1):18. doi: 10.1186/s13073-017-0404-6. Genome Med. 2017. PMID: 28219444 Free PMC article.
Single-nucleotide variant calling in single-cell sequencing data with Monopogen.
Dou J, Tan Y, Kock KH, Wang J, Cheng X, Tan LM, Han KY, Hon CC, Park WY, Shin JW, Jin H, Wang Y, Chen H, Ding L, Prabhakar S, Navin N, Chen R, Chen K. Dou J, et al. Among authors: prabhakar s. Nat Biotechnol. 2024 May;42(5):803-812. doi: 10.1038/s41587-023-01873-x. Epub 2023 Aug 17. Nat Biotechnol. 2024. PMID: 37592035 Free PMC article.
TherMos: Estimating protein-DNA binding energies from in vivo binding profiles.
Sun W, Hu X, Lim MH, Ng CK, Choo SH, Castro DS, Drechsel D, Guillemot F, Kolatkar PR, Jauch R, Prabhakar S. Sun W, et al. Among authors: prabhakar s. Nucleic Acids Res. 2013 Jun;41(11):5555-68. doi: 10.1093/nar/gkt250. Epub 2013 Apr 16. Nucleic Acids Res. 2013. PMID: 23595148 Free PMC article.
Uniform, optimal signal processing of mapped deep-sequencing data.
Kumar V, Muratani M, Rayan NA, Kraus P, Lufkin T, Ng HH, Prabhakar S. Kumar V, et al. Among authors: prabhakar s. Nat Biotechnol. 2013 Jul;31(7):615-22. doi: 10.1038/nbt.2596. Epub 2013 Jun 16. Nat Biotechnol. 2013. PMID: 23770639
741 results