KEY RESOURCES TABLE.
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Chemicals, Peptides, and Recombinant Proteins | ||
| Estradiol | Sigma | E8875 |
| TRIM24 inhibitor MD9571 | (Palmer et al., 2016) | MD9571 |
| Deposited Data | ||
| 3e Hi-C | this paper | GSE121443 |
| MCF7 scRNA-seq | GEO | GSE52716 |
| Small Intestine scRNA-seq | GEO | GSE92332 |
| MCF7 Half-lives | GEO | GSE49831 |
| TFF1, small intestine | (Uhlen et al., 2015) | www.proteinatlas.org/images/2170/5769_A_6_2.jpg |
| TFF1, duodenum | (Uhlen et al., 2015) | www.proteinatlas.org/images/2170/5769_A_9_2.jpg |
| TFF1, Breast cancer |
(Uhlen et al., 2015) | www.proteinatlas.org/images/2170/5766_A_5_5.jpg |
| Experimental Models: Cell Lines | ||
| MCF7 | ATCC | RRID: CVCL_0031 |
| TFF1-MS2 | this paper | N/A |
| TFF1-MS2-D12 enhancer deletion | this paper | N/A |
| Oligonucleotides | ||
| PCR screening, see Table S3 | IDT | N/A |
| smFISH probes, see Table S3 | Biosearch Stellaris | N/A |
| Recombinant DNA | ||
| pX330-U6-Chimeric_BB-CBh-hSpCas9 | (Cong et al., 2013) | addgene:42230 |
| M04–24XMS2 Donor plasmid | this paper | M04–24XMS2 |
| Software and Algorithms | ||
| Cellprofiler | (Carpenter et al., 2006) | cellprofiler.org |
| FIJI | (Schindelin et al., 2012) | imagej.net/Fiji |
| Localize | (Larson et al., 2013) | www.larsonlab.net |
| FishAuxiliary | (Larson et al., 2013) | www.larsonlab.net |
| R | R Core Team. 2017 | www.r-project.org |
| small intestine scRNA-seq R code | (Haber et al., 2017) | github.com/adamh-broad/single_cell_intestine |
| DAVID | (Huang da et al., 2009) | david.ncifcrf.gov |
| Bowtie 2–2.3.4 | ( Langmead and Salzberg, 2012) |
bowtie-bio.sourceforge.net/bowtie2/index.shtml |
| HOMER 4.8.2 | (Heinz et al., 2010) | homer.ucsd.edu/homer/interactions |
| Generalized Telegraph Model | this paper | github.com/ccc1685/transcription-model |