Research output per year
Research output per year
Research output
- 39 results
Search results
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2024
Chrom-seq identifies RNAs at chromatin marks
Fan, L. (Co-first Author), Sun, W. (Co-first Author), Lyu, Y., Ju, F., Sun, W., Chen, J., Ma, H., Yang, S., Zhou, X., Wu, N., Yi, W., Chen, E., Villaseñor, R., Baubec, T. & Yan, J., Aug 2024, In: Science Advances. 10, 31, eadn1397.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile2 Citations (Scopus)13 Downloads (CityUHK Scholars) -
Methods Of Tagging Rna Molecules Associated With Epigenetically Modified Chromatin In Living Cells
YAN, J. (Inventor) & FAN, L. (Inventor), 30 Apr 2024, (Accepted/In press/Filed) Priority No. 18/650,149Research output: Patents, Agreements and Assignments › RGC 51 - Patents (CityUHK)
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The emergence of Sox and POU transcription factors predates the origins of animal stem cells
Gao, Y., Tan, D. S., Girbig, M., Hu, H., Zhou, X., Xie, Q., Yeung, S. W., Lee, K. S., Ho, S. Y., Cojocaru, V., Yan, J., Hochberg, G. K. A., de Mendoza, A. & Jauch, R., 2024, In: Nature Communications. 15, 9868.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile4 Citations (Scopus)9 Downloads (CityUHK Scholars) -
標記活細胞中與染色質表觀遺傳修飾相關的RNA 分子的方法
Translated title of the contribution :Chrom-seq: a novel method to identify RNA associated with epigenetically modified chromatin Research output: Patents, Agreements and Assignments › RGC 51 - Patents (CityUHK)
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2023
確定長鏈非編碼核糖核酸相互作用蛋白的新方法
LI, J. (Inventor), YI, W. (Inventor), FAN, L. (Inventor), YAN, J. (Inventor) & ZHANG, L. (Inventor), 27 Jun 2023, Patent No. ZL202010367970.0, Priority No. 202010367970.0Research output: Patents, Agreements and Assignments › RGC 51 - Patents (CityUHK)
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2022
EXPERT OPINION
Yan, J., Sept 2022, In: Nature Methods. 19, 9, p. 1045Research output: Journal Publications and Reviews › Comment/debate
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PELO facilitates PLK1-induced the ubiquitination and degradation of Smad4 and promotes the progression of prostate cancer
Gao, P., Hao, J.-L., Xie, Q.-W., Han, G.-Q., Xu, B.-B., Hu, H., Sa, N.-E., Du, X.-W., Tang, H.-L., Yan, J. & Dong, X.-M., 20 May 2022, In: Oncogene. 41, 21, p. 2945–2957Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
14 Citations (Scopus) -
Simultaneous profiling of histone modifications and DNA methylation via nanopore sequencing
Yue, X., Xie, Z., Li, M., Wang, K., Li, X., Zhang, X., Yan, J. & Yin, Y., 2022, In: Nature Communications. 13, 7939.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile18 Citations (Scopus)65 Downloads (CityUHK Scholars) -
Small Extracellular Vesicles Derived From MSCs Have Immunomodulatory Effects to Enhance Delivery of ASO-210 for Psoriasis Treatment
Zhang, W., Lin, J., Shi, P., Su, D., Cheng, X., Yi, W., Yan, J., Chen, H. & Cheng, F., Mar 2022, In: Frontiers in Cell and Developmental Biology. 10, 842813.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile31 Citations (Scopus)53 Downloads (CityUHK Scholars) -
The highly conserved RNA-binding specificity of nucleocapsid protein facilitates the identification of drugs with broad anti-coronavirus activity
Fan, S., Sun, W., Fan, L., Wu, N., Sun, W., Ma, H., Chen, S., Li, Z., Li, Y., Zhang, J. & Yan, J., 2022, In: Computational and Structural Biotechnology Journal. 20, p. 5040-5044Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile3 Citations (Scopus)65 Downloads (CityUHK Scholars) -
Type 1 diabetes risk genes mediate pancreatic beta cell survival in response to proinflammatory cytokines
Benaglio, P., Zhu, H., Okino, M.-L., Yan, J., Elgamal, R., Nariai, N., Beebe, E., Korgaonkar, K., Qiu, Y., Donovan, M. K. R., Chiou, J., Wang, G., Newsome, J., Kaur, J., Miller, M., Preissl, S., Corban, S., Aylward, A., Taipale, J. & Ren, B. & 3 others, , 14 Dec 2022, In: Cell Genomics. 2, 12, 100214.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile12 Citations (Scopus)66 Downloads (CityUHK Scholars) -
2021
An atlas of the binding specificities of transcription factors in Pseudomonas aeruginosa directs prediction of novel regulators in virulence
Wang, T., Sun, W., Fan, L., Hua, C., Wu, N., Fan, S., Zhang, J., Deng, X. & Yan, J., 2021, In: eLife. 10, e61885.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile26 Citations (Scopus)97 Downloads (CityUHK Scholars) -
Author Correction: CRISPR-assisted detection of RNA–protein interactions in living cells
Yi, W., Li, J., Zhu, X., Wang, X., Fan, L., Sun, W., Liao, L., Zhang, J., Li, X., Ye, J., Chen, F., Taipale, J., Chan, K. M., Zhang, L. & Yan, J., Feb 2021, In: Nature Methods. 18, 2, p. 219Research output: Journal Publications and Reviews › Erratum
Open Access1 Citation (Scopus) -
Directed Evolution of an Enhanced POU Reprogramming Factor for Cell Fate Engineering
Tan, D. S., Chen, Y., Gao, Y., Bednarz, A., Wei, Y., Malik, V., Ho, D.H.-H., Weng, M., Ho, S. Y., Srivastava, Y., Velychko, S., Yang, X., Fan, L., Kim, J., Graumann, J., Stormo, G. D., Braun, T., Yan, J., Schöler, H. R. & Jauch, R., Jul 2021, In: Molecular Biology and Evolution. 38, 7, p. 2854-2868 15 p., msab075.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile14 Citations (Scopus)75 Downloads (CityUHK Scholars) -
Method for Determining Long Non-Coding Ribonucleic Acid Interaction Proteins
LI, J. (Inventor), YI, W. (Inventor), FAN, L. (Inventor), YAN, J. (Inventor) & ZHANG, L. (Inventor), 26 Apr 2021, (Accepted/In press/Filed) Priority No. 17/240,009Research output: Patents, Agreements and Assignments › RGC 51 - Patents (CityUHK)
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Pancreatic progenitor epigenome maps prioritize type 2 diabetes risk genes with roles in development
Geusz, R. J., Wang, A., Chiou, J., Lancman, J. J., Wetton, N., Kefalopoulou, S., Wang, J., Qiu, Y., Yan, J., Aylward, A., Ren, B., Dong, P. D. S., Gaulton, K. J. & Sander, M., 2021, In: eLife. 10, e59067.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile16 Citations (Scopus)55 Downloads (CityUHK Scholars) -
Systematic analysis of binding of transcription factors to noncoding variants
Yan, J., Qiu, Y., Ribeiro dos Santos, A. M., Yin, Y., Li, Y. E., Vinckier, N., Nariai, N., Benaglio, P., Raman, A., Li, X., Fan, S., Chiou, J., Chen, F., Frazer, K. A., Gaulton, K. J., Sander, M., Taipale, J. & Ren, B., 4 Mar 2021, In: Nature. 591, 7849, p. 147–151Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
89 Citations (Scopus) -
2020
A compendium of DNA-binding specificities of transcription factors in Pseudomonas syringae
Fan, L., Wang, T., Hua, C., Sun, W., Li, X., Grunwald, L., Liu, J., Wu, N., Shao, X., Yin, Y., Yan, J. & Deng, X., 2020, In: Nature Communications. 11, 4947.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile24 Citations (Scopus)64 Downloads (CityUHK Scholars) -
An array of 60,000 antibodies for proteome-scale antibody generation and target discovery
Wang, Z. (Co-first Author), Li, Y. (Co-first Author), Hou, B. (Co-first Author), Pronobis, M. I. (Co-first Author), Wang, M., Wang, Y., Cheng, G., Weng, W., Wang, Y., Tang, Y., Xu, X., Pan, R., Lin, F., Wang, N., Chen, Z., Wang, S., Ma, L. Z., Li, Y., Huang, D. & Jiang, L. & 23 others, , Mar 2020, In: Science Advances. 6, 11, p. eaax2271Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile24 Citations (Scopus)61 Downloads (CityUHK Scholars) -
CRISPR-assisted detection of RNA–protein interactions in living cells
Yi, W., Li, J., Zhu, X., Wang, X., Fan, L., Sun, W., Liao, L., Zhang, J., Li, X., Ye, J., Chen, F., Taipale, J., Chan, K. M., Zhang, L. & Yan, J., Jul 2020, In: Nature Methods. 17, 7, p. 685–688 4 p.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
87 Citations (Scopus) -
Detection of Disease-associated Mutations and Biomarkers Using Next-generation Sequencing
YAN, J. & WANG, X., 14 Dec 2020, Detection Methods in Precision Medicine. Yang, M. & Thompson, M. (eds.). Royal Society of Chemistry, p. 119-136 (Detection Science Series; no. 18).Research output: Chapters, Conference Papers, Creative and Literary Works › RGC 12 - Chapter in an edited book (Author) › peer-review
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2019
Pancreatic islet chromatin accessibility and conformation reveals distal enhancer networks of type 2 diabetes risk
Greenwald, W. W., Chiou, J., Yan, J., Qiu, Y., Dai, N., Wang, A., Nariai, N., Aylward, A., Han, J. Y., Kadakia, N., Regue, L., Okino, M.-L., Drees, F., Kramer, D., Vinckier, N., Minichiello, L., Gorkin, D., Avruch, J., Frazer, K. A. & Sander, M. & 2 others, , 7 May 2019, In: Nature Communications. 10, 12 p., 2078.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile70 Citations (Scopus)46 Downloads (CityUHK Scholars) -
Super-enhancers in transcriptional regulation and genome organization
Wang, X., Cairns, M. J. & Yan, J., 16 Dec 2019, In: Nucleic Acids Research. 47, 22, p. 11481–11496Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile114 Citations (Scopus)64 Downloads (CityUHK Scholars) -
2018
CORRIGENDUM: Histone H3 lysine 4 monomethylation modulates long-range chromatin interactions at enhancers
Yan, J., Chen, S.-A. A., Local, A., Liu, T., Qiu, Y., Dorighi, K. M., Preissl, S., Rivera, C. M., Wang, C., Ye, Z., Ge, K., Hu, M., Wysocka, J. & Ren, B., Mar 2018, In: Cell Research. 28, 3, 387.Research output: Journal Publications and Reviews › Erratum
15 Citations (Scopus) -
Histone H3 lysine 4 monomethylation modulates long-range chromatin interactions at enhancers
Yan, J., Chen, S.-A. A., Local, A., Liu, T., Qiu, Y., Dorighi, K. M., Preissl, S., Rivera, C. M., Wang, C., Ye, Z., Ge, K., Hu, M., Wysocka, J. & Ren, B., Feb 2018, In: Cell Research. 28, 2, p. 204-220Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
113 Citations (Scopus) -
2017
A Scalable Epitope Tagging Approach for High Throughput ChIP-Seq Analysis
Xiong, X., Zhang, Y., Yan, J., Jain, S., Chee, S., Ren, B. & Zhao, H., 16 Jun 2017, In: ACS Synthetic Biology. 6, 6, p. 1034-1042Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
15 Citations (Scopus) -
Impact of cytosine methylation on DNA binding specificities of human transcription factors
Yin, Y., Morgunova, E., Jolma, A., Kaasinen, E., Sahu, B., Khund-Sayeed, S., Das, P. K., Kivioja, T., Dave, K., Zhong, F., Nitta, K. R., Taipale, M., Popov, A., Ginno, P. A., Domcke, S., Yan, J., Schübeler, D., Vinson, C. & Taipale, J., 5 May 2017, In: Science. 356, 6337, eaaj2239.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
848 Citations (Scopus) -
Mice deficient of Myc super-enhancer region reveal differential control mechanism between normal and pathological growth
Dave, K., Sur, I., Yan, J., Zhang, J., Kaasinen, E., Zhong, F., Blaas, L., Li, X., Kharazi, S., Gustafsson, C., De Paepe, A., Månsson, R. & Taipale, J., 2017, In: eLife. 6, e23382.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile51 Citations (Scopus)44 Downloads (CityUHK Scholars) -
The non-coding variant rs1800734 enhances DCLK3 expression through long-range interaction and promotes colorectal cancer progression
Liu, N. Q., ter Huurne, M., Nguyen, L. N., Peng, T., Wang, S.-Y., Studd, J. B., Joshi, O., Ongen, H., Bramsen, J. B., Yan, J., Andersen, C. L., Taipale, J., Dermitzakis, E. T., Houlston, R. S., Hubner, N. C. & Stunnenberg, H. G., 2017, In: Nature Communications. 8, 14418.Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile51 Citations (Scopus)52 Downloads (CityUHK Scholars) -
2016
ERBB3-rs2292239 as primary type 1 diabetes association locus among non-HLA genes in Chinese
Sun, C., Wei, H., Chen, X., Zhao, Z., Du, H., Song, W., Yang, Y., Zhang, M., Lu, W., Pei, Z., Xi, L., Yan, J., Zhi, D., Cheng, R. & Luo, F., Sept 2016, In: Meta Gene. 9, p. 120-123Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open AccessFile14 Citations (Scopus)9 Downloads (CityUHK Scholars) -
2014
A prostate cancer susceptibility allele at 6q22 increases RFX6 expression by modulating HOXB13 chromatin binding
Huang, Q., Whitington, T., Gao, P., Lindberg, J. F., Yang, Y., Sun, J., Väisänen, M.-R., Szulkin, R., Annala, M., Yan, J., Egevad, L. A., Zhang, K., Lin, R., Jolma, A., Nykter, M., Manninen, A., Wiklund, F., Vaarala, M. H., Visakorpi, T. & Xu, J. & 2 others, , Feb 2014, In: Nature Genetics. 46, 2, p. 126-135Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
172 Citations (Scopus) -
2013
DNA-binding specificities of human transcription factors
Jolma, A., Yan, J., Whitington, T., Toivonen, J., Nitta, K. R., Rastas, P., Morgunova, E., Enge, M., Taipale, M., Wei, G., Palin, K., Vaquerizas, J. M., Vincentelli, R., Luscombe, N. M., Hughes, T. R., Lemaire, P., Ukkonen, E., Kivioja, T. & Taipale, J., 17 Jan 2013, In: Cell. 152, 1-2, p. 327-339Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open Access926 Citations (Scopus) -
Transcription factor binding in human cells occurs in dense clusters formed around cohesin anchor sites
Yan, J., Enge, M., Whitington, T., Dave, K., Liu, J., Sur, I., Schmierer, B., Jolma, A., Kivioja, T., Taipale, M. & Taipale, J., 15 Aug 2013, In: Cell. 154, 4, p. 801-813Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open Access290 Citations (Scopus) -
2012
Characterization of the colorectal cancer-associated enhancer MYC-335 at 8q24: the role of rs67491583
Tuupanen, S., Yan, J., Turunen, M., Gylfe, A. E., Kaasinen, E., Li, L., Eng, C., Culver, D. A., Kalady, M. F., Pennison, M. J., Pasche, B., Manne, U., de la Chapelle, A., Hampel, H., Henderson, B. E., Le Marchand, L., Hautaniemi, S., Askhtorab, H., Smoot, D. & Sandler, R. S. & 6 others, , Jan 2012, In: Cancer genetics. 205, 1-2, p. 25-33Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
20 Citations (Scopus) -
Mice lacking a Myc enhancer that includes human SNP rs6983267 are resistant to intestinal tumors
Sur, I. K., Hallikas, O., Vähärautio, A., Yan, J., Turunen, M., Enge, M., Taipale, M., Karhu, A., Aaltonen, L. A. & Taipale, J., 7 Dec 2012, In: Science. 338, 6112, p. 1360-1363Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
175 Citations (Scopus) -
2011
MED12, the Mediator Complex Subunit 12 Gene, Is Mutated at High Frequency in Uterine Leiomyomas
Mäkinen, N., Mehine, M., Tolvanen, J., Kaasinen, E., Li, Y., Lehtonen, H. J., Gentile, M., Yan, J., Enge, M., Taipale, M., Aavikko, M., Katainen, R., Virolainen, E., Böhling, T., Koski, T. A., Launonen, V., Sjöberg, J., Taipale, J., Vahteristo, P. & Aaltonen, L. A., 14 Oct 2011, In: Science. 334, 6053, p. 252-255Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
544 Citations (Scopus) -
2010
Genome-wide analysis of ETS-family DNA-binding in vitro and in vivo
Wei, G.-H., Badis, G., Berger, M. F., Kivioja, T., Palin, K., Enge, M., Bonke, M., Jolma, A., Varjosalo, M., Gehrke, A. R., Yan, J., Talukder, S., Turunen, M., Taipale, M., Stunnenberg, H. G., Ukkonen, E., Hughes, T. R., Bulyk, M. L. & Taipale, J., 7 Jul 2010, In: EMBO Journal. 29, 13, p. 2147-2160Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
454 Citations (Scopus) -
Multiplexed massively parallel SELEX for characterization of human transcription factor binding specificities
Jolma, A., Kivioja, T., Toivonen, J., Cheng, L., Wei, G., Enge, M., Taipale, M., Vaquerizas, J. M., Yan, J., Sillanpää, M. J., Bonke, M., Palin, K., Talukder, S., Hughes, T. R., Luscombe, N. M., Ukkonen, E. & Taipale, J., Jun 2010, In: Genome Research. 20, 6, p. 861-873Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
Open Access345 Citations (Scopus) -
2009
The common colorectal cancer predisposition SNP rs6983267 at chromosome 8q24 confers potential to enhanced Wnt signaling
Tuupanen, S., Turunen, M., Lehtonen, R., Hallikas, O., Vanharanta, S., Kivioja, T., Björklund, M., Wei, G., Yan, J., Niittymäki, I., Mecklin, J.-P., Järvinen, H., Ristimäki, A., Di-Bernardo, M., East, P., Carvajal-Carmona, L., Houlston, R. S., Tomlinson, I., Palin, K. & Ukkonen, E. & 3 others, , Aug 2009, In: Nature Genetics. 41, 8, p. 885-890Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review
441 Citations (Scopus)