Single cell RNA sequencing of colorectal cancer patients (KUL3/KUL5)

Libraries for scRNA-seq were generated using the Chromium Single Cell 3′ or 5′ library and Gel Bead & Multiplex Kit from 10x Genomics. Aimed to profile 5000 cells per library (if sufficient cells were retained during dissociation).

Type: Other
Archiver: European Genome-Phenome Archive (EGA)

2 Datasets 2 Publications

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD00001008584	All libraries were sequenced on Illumina HiSeq4000 until sufficient saturation was reached.	Illumina HiSeq 4000	9
EGAD00001008585	All libraries were sequenced on Illumina NextSeq or NovaSeq6000 until sufficient saturation was reached.	unspecified	26

Publications	Citations
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. Nat Genet 54: 2022 963-975	121
Metastasis of colon cancer requires Dickkopf-2 to generate cancer cells with Paneth cell properties. Shin JH, Park J, Lim J, Jeong J, Dinesh RK, Maher SE, Kim J, Park S, Hong JY, Wysolmerski J, Choi J, Bothwell ALM. Elife 13: 2024 RP97279	1

Publications

Citations

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. Nat Genet 54: 2022 963-975

121

Metastasis of colon cancer requires Dickkopf-2 to generate cancer cells with Paneth cell properties.
Shin JH, Park J, Lim J, Jeong J, Dinesh RK, Maher SE, Kim J, Park S, Hong JY, Wysolmerski J, Choi J, Bothwell ALM. Elife 13: 2024 RP97279