Table 1 Candidate genes for nsCL/P located near TFAP2A binding sites in HEPM cells.
From: Allele-specific transcription factor binding in a cellular model of orofacial clefting
Hc-peak information | NsCL/P candidate genea | |||||
|---|---|---|---|---|---|---|
Chromosome | Start | End | Gene symbol | Distance peak to TSS (bp) | Reference (PubMed-ID) | Expression in HEPM cells (average no. of 3′RNA-seq reads)b |
1 | 94,787,207 | 94,787,445 | ARHGAP29 | − 84,205 | Beaty et al. 2010 (PMID: 20,436,469) | 1436 |
1 | 94,791,145 | 94,791,437 | − 88,170 | |||
3 | 99,844,546 | 99,844,795 | FILIP1L | − 11,314 | Beaty et al.2013 (PMID: 23,512,105) | 523 |
3 | 99,878,493 | 99,878,721 | 45,250 | |||
3 | 189,281,805 | 189,282,039 | TP63 | − 67,294 | Leslie et al. 2017 (PMID: 28,054,174) | Not expressed |
3 | 189,655,227 | 189,655,963 | 306,379 | |||
4 | 4,860,996 | 4,861,363 | MSX1 | − 213 | Yu et al. 2017 (PMID: 28,232,668) | 537 |
13 | 80,205,476 | 80,205,754 | SPRY2 | 708,179 | Ludwig et al. 2012 (PMID: 22,863,734) | 125 |
13 | 80,604,734 | 80,605,110 | 308,872 | |||
13 | 80,788,600 | 80,788,933 | 125,027 | |||
13 | 80,915,560 | 80,915,801 | − 1887 | |||
15 | 32,962,254 | 32,962,778 | GREM1 | − 47,659 | Ludwig et al. 2016 (PMID: 26,968,009) | 5471 |
15 | 62,898,345 | 62,898,659 | TPM1 | − 436,382 | Ludwig et al. 2012 (PMID: 22,863,734) | 7613 |
15 | 63,233,187 | 63,233,480 | − 101,550 | |||
15 | 74,838,564 | 74,838,823 | ARID3B | 5176 | Ludwig et al. 2017 (PMID: 28,087,736) | 4 |
16 | 4,166,662 | 4,166,962 | ADCY9 | − 626 | Sun et al. 2015 (PMID: 25,775,280) | 126 |
17 | 54,240,701 | 54,240,761 | NOG | − 430,329 | Mangold et al. 2010 (PMID: 20,023,658); Leslie et al. 2015 (PMID:25,704,602) | 60 |
17 | 54,672,130 | 54,672,266 | 1138 | |||
