Enhancer hijacking activates oncogenic transcription factor NR4A3 in Acinic Cell Carcinomas of the salivary glands (datasets)
| Main Authors: | Florian Haller, Matthias Bieg, Rainer Will, Cindy Körner, Dieter Weichenhan, Alexander Bott, Naveed Ishaque, Pavlo Lutsik, Evgeny A. Moskalev, Sarina K. Mueller, Marion Bähr, Angelika Woerner, Birgit Kaiser, Claudia Scherl, Marlen Haderlein, Kortine Kleinheinz, Rainer Fietkau, Heinrich Iro, Roland Eils, Arndt Hartmann, Christoph Plass, Stefan Wiemann, Abbas Agaimy |
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| Format: | Article Journal |
| Bahasa: | eng |
| Terbitan: |
, 2021
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| Subjects: | |
| Online Access: |
https://zenodo.org/record/4557352 |
Daftar Isi:
- This dataset consists of processed data from CHIP-Seq experiments (peaks as bed files, and signals as bigWig files), as well as whole genome bisulfite experiments (methlyation calls as bedGraph files). Here, we profiled histone modifications (H3K27ac, H3K27me3, and H3K4me3), as well as two transcription factors (CTCF, and NR4A3), from 3 acinar cell carcinoma, as well as one normal parotid gland sample. Furthermore, we profiled DNA methylation for three acinar cell carcinoma, as well as three normal parotid gland samples. In addition you find RNA-Seq count-, and fpkm tables for 13 human samples (10 tumor samples, 3 normal samples), as well as RNA-Seq count-, and fpkm tables for 6 mouse samples (3 NR4A3 ORF transfected mouse cell lines, as well as 3 control mouse cell lines with transfected redFF construct). The following files make up the dataset: ChIP-Seq peak files (bed format) AciCC1_CTCF_peaks_2167aeb49f637ea6a124e3679ce1722d.bed AciCC1_H3K27Ac_peaks_8e63eed24d0cc6cb362aa8c8da6f74ed.bed AciCC1_H3K27me3_peaks_7ba6a30bdabbf46f6e67deab447f5f98.bed AciCC1_H3K4me3_peaks_88cdce01aeededcdae869c5a68657d89.bed AciCC1_NR4A3_peaks_02be26bf1e905bcbdbb222cba4c13133.bed AciCC1_super_enhancer_peaks_3c3622d06160797a049f1e5b35efb068.bed AciCC2_CTCF_peaks_3b0fde69ad4c01f71d4a5ef07f1a8daf.bed AciCC2_H3K27Ac_peaks_36d1d3116fa41220ea57494961972245.bed AciCC2_H3K27me3_peaks_7f8f1745a20638c9db7f24c101556d12.bed AciCC2_H3K4me3_peaks_838e68c7c58e69ff02c6a9cea9bdfda9.bed AciCC2_NR4A3_peaks_9a5244e979b51e870b16fd2f072370ec.bed AciCC2_super_enhancer_peaks_5714ac0f2fd6ef3cf59d69d5114356e4.bed AciCC3_CTCF_peaks_c611c1d548f65c802f4f88aedba9f768.bed AciCC3_H3K27Ac_peaks_97e804349bba944e7d5d1b8ede631466.bed AciCC3_H3K27me3_peaks_fb2e726ae020cdbe2aa9512e31ea0d41.bed AciCC3_H3K4me3_peaks_f783774d435cce4e7b412c68ec40939d.bed AciCC3_NR4A3_peaks_af3ec0dea8c10b071a58b348f9148080.bed AciCC3_super_enhancer_peaks_ff95672c1b911065d69046579a65992d.bed Parotid_Gland3_CTCF_peaks_651723dd871e8a81ca6890e05137880b.bed Parotid_Gland3_H3K27Ac_peaks_126438a74560e776bcf8ec776cdd4640.bed Parotid_Gland3_H3K27me3_peaks_a3930e0c6493f6297169e80148ae8fef.bed Parotid_Gland3_H3K4me3_peaks_186fc855845537c54dc14bd16821f812.bed Parotid_Gland3_NR4A3_peaks_05be8421f1989fd1a9b0a0bbf7cd6a6f.bed Parotid_Gland3_super_enhancer_peaks_35c87c26ee2f9666ae6e24b3dd376e68.bed ChIP-Seq signal files (bigWig format) AciCC1_CTCF_chip_signal_7d1b78e4c5ce944e24440dbdfd5b908b.bw AciCC1_H3K27Ac_chip_signal_f2cfdda403ecfcf67c0b6045f490137b.bw AciCC1_H3K27me3_chip_signal_dfa1a91a9bef6c9b456615e62aa2f951.bw AciCC1_H3K4me3_chip_signal_17c9ebe6f38bd5c7d54487752e29c3f5.bw AciCC1_NR4A3_chip_signal_c2e112bf5926f70e21d0b278e5f45635.bw AciCC2_CTCF_chip_signal_0f3bcab38c4608acd7bd65e39898dae7.bw AciCC2_H3K27Ac_chip_signal_f6e037d33b45d599748edd5c8b129e91.bw AciCC2_H3K27me3_chip_signal_b4393172fc7b35d55075d61d42b1a429.bw AciCC2_H3K4me3_chip_signal_fd7ac24b019113f4947acaf4bd53f12f.bw AciCC2_NR4A3_chip_signal_34d46d654f7c7c10856e1a200a9177a4.bw AciCC3_CTCF_chip_signal_fb5252020f1773654d5e56a849f2efe3.bw AciCC3_H3K27Ac_chip_signal_2ee96af07c5d1e02147b174e6001e462.bw AciCC3_H3K27me3_chip_signal_ce6b1014eacea2638df00b35bf0bc9e0.bw AciCC3_H3K4me3_chip_signal_382fc8cab2110bff6909a155562e5c2e.bw AciCC3_NR4A3_chip_signal_23e1c3d61c68d7b669dab45a545eb5c0.bw Parotid_Gland3_CTCF_chip_signal_0a669d678c6a83b7b1cda7ecd6e1fc5b.bw Parotid_Gland3_H3K27Ac_chip_signal_a19976272ce5927c945a480276abd635.bw Parotid_Gland3_H3K27me3_chip_signal_3090f6a3a4248ad3c80d93e5b3324c37.bw Parotid_Gland3_H3K4me3_chip_signal_5392b73b61eb11051b11d4e0a8267221.bw Parotid_Gland3_NR4A3_chip_signal_024f8f668cbf06ca7d33763ed17da42a.bw Methylation call files (bedGraph format) AciCC1_methylationCalls_8906b27a616fa5b11eee438f79858517.bedGraph.gz AciCC2_methylationCalls_b5e7cd8f983ccd7e8b3655707f49fe79.bedGraph.gz AciCC3_methylationCalls_7808c8dc9dc49587e228b0f6171fc91c.bedGraph.gz Parotid_Gland1_methylationCalls_966b8f202b698a9ef90d2c6d22621056.bedGraph.gz Parotid_Gland2_methylationCalls_cc1afa52f36543bbf82c2776cbffde08.bedGraph.gz Parotid_Gland3_methylationCalls_5d74b8d198561823791b010427261a22.bedGraph.gz RNA-Seq tables Mouse count_matrix_mouse.csv fpkm_matrix_mouse.csv RNA-Seq tables Human count_matrix_human.csv fpkm_matrix_human.csv