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Resource: High-quality sika deer omics data and integrative analysis reveal genic and cellular regulation of antler regeneration
- Zihe Li,
- Ziyu Xu,
- Lei Zhu,
- Tao Qin,
- Jinrui Ma,
- Zhanying Feng,
- Huishan Yue,
- Qing Guan,
- Botong Zhou,
- Ge Han,
- Guokun Zhang,
- Chunyi Li,
- Shuaijun Jia,
- Qiang Qiu,
- Dingjun Hao,
- Yong Wang,
- and Wen Wang
Genome Res. January 2025 35: 188-201; Published in Advance November 14, 2024, doi:10.1101/gr.279448.124
...that these TFs played important roles in the corresponding organs of model organisms, such as HNF4A in the liver (Radi et al. 2023) and MEF2s in the muscle (Taylor and Hughes 2017). The regulatory pattern of PP tissues was similar to that of skin and rumen, contrasting with the results of ATAC-seq and RNA...
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Method: Evidence of widespread, independent sequence signature for transcription factor cobinding
- Manqi Zhou,
- Hongyang Li,
- Xueqing Wang,
- and Yuanfang Guan
Genome Res. February 2021 31: 265-278; Published in Advance December 10, 2020, doi:10.1101/gr.267310.120
...interval sliding every 50 bp in the human , we defined three types of binding labels—“bound” (B); “unbound” (U); and “ambiguous” (A)—by overlapping 200-bp intervals with peaks generated from SPP peak caller (Kharchenko et al. 2008) at the irreproducible discovery rate (IDR) cutoff of 5% (Li et al. 2011...

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