Dr.seq2: A quality control and analysis pipeline for parallel single cell transcriptome and epigenome data

Por Zhao, Chengchen, Hu, Sheng’en, Huo, Xiao, Zhang, Yong
Publicado no PLoS One (2017)

CAM: A quality control pipeline for MNase-seq data

Por Hu, Sheng’en, Chen, Xiaolan, Liao, Ji, Chen, Yiqing, Zhao, Chengchen, Zhang, Yong
Publicado no PLoS One (2017)

Analysis of optimized DNase-seq reveals intrinsic bias in transcription factor footprint identification

Por He, Housheng Hansen, Meyer, Clifford A., Hu, Sheng'en Shawn, Chen, Mei-Wei, Zang, Chongzhi, Liu, Yin, Rao, Prakash K., Fei, Teng, Xu, Han, Long, Henry, Liu, X. Shirley, Brown, Myles
Publicado em 2013

CistromeMap: a knowledgebase and web server for ChIP-Seq and DNase-Seq studies in mouse and human

Por Qin, Bo, Zhou, Meng, Ge, Ying, Taing, Len, Liu, Tao, Wang, Qian, Wang, Su, Chen, Junsheng, Shen, Lingling, Duan, Xikun, Hu, Sheng'en, Li, Wei, Long, Henry, Zhang, Yong, Liu, X. Shirley
Publicado em 2012

High-dimensional genomic data bias correction and data integration using MANCIE

Por Zang, Chongzhi, Wang, Tao, Deng, Ke, Li, Bo, Hu, Sheng'en, Qin, Qian, Xiao, Tengfei, Zhang, Shihua, Meyer, Clifford A., He, Housheng Hansen, Brown, Myles, Liu, Jun S., Xie, Yang, Liu, X. Shirley
Publicado no Nat Commun (2016)

Comparative analysis of metazoan chromatin organization

Por Ho, Joshua W. K., Jung, Youngsook L., Liu, Tao, Alver, Burak H., Lee, Soohyun, Ikegami, Kohta, Sohn, Kyung-Ah, Minoda, Aki, Tolstorukov, Michael Y., Appert, Alex, Parker, Stephen C. J., Gu, Tingting, Kundaje, Anshul, Riddle, Nicole C., Bishop, Eric, Egelhofer, Thea A., Hu, Sheng’en Shawn, Alekseyenko, Artyom A., Rechtsteiner, Andreas, Asker, Dalal, Belsky, Jason A., Bowman, Sarah K., Chen, Q. Brent, Chen, Ron A-J, Day, Daniel S., Dong, Yan, Dose, Andrea C., Duan, Xikun, Epstein, Charles B., Ercan, Sevinc, Feingold, Elise A., Ferrari, Francesco, Garrigues, Jacob M., Gehlenborg, Nils, Good, Peter J., Haseley, Psalm, He, Daniel, Herrmann, Moritz, Hoffman, Michael M., Jeffers, Tess E., Kharchenko, Peter V., Kolasinska-Zwierz, Paulina, Kotwaliwale, Chitra V., Kumar, Nischay, Langley, Sasha A., Larschan, Erica N., Latorre, Isabel, Libbrecht, Maxwell W., Lin, Xueqiu, Park, Richard, Pazin, Michael J., Pham, Hoang N., Plachetka, Annette, Qin, Bo, Schwartz, Yuri B., Shoresh, Noam, Stempor, Przemyslaw, Vielle, Anne, Wang, Chengyang, Whittle, Christina M., Xue, Huiling, Kingston, Robert E., Kim, Ju Han, Bernstein, Bradley E., Dernburg, Abby F., Pirrotta, Vincenzo, Kuroda, Mitzi I., Noble, William S., Tullius, Thomas D., Kellis, Manolis, MacAlpine, David M., Strome, Susan, Elgin, Sarah C. R., Liu, Xiaole Shirley, Lieb, Jason D., Ahringer, Julie, Karpen, Gary H., Park, Peter J.
Publicado no Nature (2014)