Feasibility of RNA and DNA Extraction from Fresh Pipelle and Archival Endometrial Tissues for Use in Gene Expression and SNP Arrays

Table 1

(a) Benign hysterectomy specimens: RNA and DNA yield for FF pipelle samples preserved in MEM, FF curettage samples preserved either in MEM or in RNAlater, and FFPE hysterectomy samples. (b) Archived FFPE Specimens: RNA and DNA yield and year of collection for normal and involved tissue samples, for complex hyperplasia and atypical hyperplasia. (c) Archived FFPE Specimens: RNA and DNA yield and year of collection for endometrial carcinomas and normal myometrium.

(a)

Study ID	Specimen collection date	Age	Menopause; status		Pipelle, MEM				Curettage, MEM				Curettage,; RNAlater		Hysterectomy, FFPE
					DNA; yield; (𝜇g)	Weight of RNA tissue; (mg)	RNA; yield; (𝜇g)		DNA; yield; (𝜇g)	Weight of RNA tissue; (mg)	RNA yield; (𝜇g)		DNA; yield; (𝜇g)		Weight of; RNA tissue; (mg)	RNA yield; (𝜇g)
1	2009	46	Pre		24	31	62		26.6	26	50.1		35		20	13.4
2	2009	50	Peri		n/a*	29	23		8.5	29	32.8		28.1		21	16.8
3	2009	70	Post		101.9	n/a*	n/a*		23.4	n/a^§	0^†		X^‡		21	7.8
4	2009	45	Pre		20.8	19	25.4		40.3	30	11.8		21		24	18.2
5	2009	51	Pre		37.7	31	20.9		17.5	n/a^§	0.5^†		X^‡		25	2.7
6	2009	52	Peri		69	32	27.9		35.8	18	25.1		X^‡		21	3.2
7	2009	47	Peri		25.3	27	44		48.7	20	34		49		21	4.4
8	2009	48	Pre		46.3	23	44.6		17.2	26	42.2		137.5		37	26
			Average yield		46.4	27.4	35.4		27.3	24.8	32.7		54.1		23.8	11.6

∗Not enough tissue remaining for nucleic acid extraction.
†Not enough yield to use tissue on downstream applications; <1.2 𝜇g. These are not included in the average yield.
‡No tissue available.
§Too little tissue to weigh accurately.

(b)

Complex hyperplasia, 𝑛=6
Study ID	Specimen collection date	Age	Menopause status		Involved			Uninvolved
					Weight of RNA tissue (mg)	RNA yield (𝜇g)		Weight of RNA tissue (mg)	RNA yield (𝜇g)
9	2000	65	Post		16	12.6		11	24.9
10	2001	53	Post		23	16.1		28	18.3
11	2003	38	Pre		27	20.9		27	0.2^†
12	2005	38	Pre		36	1.6		32	14
13	2008	55	Post		24	48.5		25	19.1
14	2008	62	Post		25	3.1		17	5.7
			Average yield		25.2	17.1		23.3	16.4
15	2001	32	Pre		21	10.8		28	18.6
16	2003	54	Pre		29	8.2		27	18.2
17	2003	69	Post		24	17.8		26	12.1
18	2005	43	Peri		27	9.9		26	9.7
19	2005	54	Pre/Peri		25	8		25	6.9
20	2008	72	Post		29	11.8		26	21.4
			Average yield		25.8	11.1		26.3	14.5

(c)

		Endometrial carcinoma, 𝑛=12
Study ID	Specimen collection date	Age	Menopause status		Involved				Uninvolved
					DNA; yield; (𝜇g)	Weight of RNA; tissue; (mg)	RNA; yield; (𝜇g)		DNA; yield; (𝜇g)	Weight of RNA; tissue; (mg)	RNA; yield; (ng/ul)
21	1999	70	Post		14.7	16	30		40.2	23	43.1
22	1999	84	Post		89.7	32	36.4		18.3	24	6.8
23	1999	80	Post		8.7	26	20.9		36.8	28	13.7
24	2004	77	Post		12.5	25	29.6		51.3	29	6.1
25	2004	70	Post		33.2	30	14.7		57.3	34	11
26	2004	55	Post		83.04	21	27.4		X^‡	X^‡	X^‡
27	2007	81	Post		40.9	23	19.4		X^‡	X^‡	X^‡
28	2007	59	Post		17.38	35	27.1		39.4	28	6.4
29	2007	63	Post		9.6	31	11.1		X^‡	X^‡	X^‡
30	2009	56	Peri		81.5	24	32.1		35.2	24	10.1
31	2009	44	Pre		49.2	32	18.1		X^‡	X^‡	X^‡
32	2009	52	Post		44.6	32	39.7		X^‡	X^‡	X^‡
			Average yield		40.4	27.3	25.5		39.8	27.1	13.9

∗Not enough tissue remaining for nucleic acid extraction.
†Not enough yield to use tissue on downstream applications; <1.2 𝜇g. These are not included in the average yield.
‡No tissue available.
§Too little tissue to weigh accurately.