Abundance of female-biased and paucity of male-biased somatically expressed genes on the mouse X-chromosome

Reinius, Björn; Johansson, Martin M; Radomska, Katarzyna J; Morrow, Edward H; Pandey, Gaurav K; Kanduri, Chandrasekhar; Sandberg, Rickard; Williams, Robert W; Jazin, Elena

doi:10.1186/1471-2164-13-607

BMC Genomics

Table 2 Genes with sex-bias in multiple tissues

From: Abundance of female-biased and paucity of male-biased somatically expressed genes on the mouse X-chromosome

A. Female-biased genes
ProbeSet ID	Start align	Stop align	Ki	Li	Lu	St	Ey	Hi	Gene symbol
1426269_at	Rnd 10740	Rnd 39163	ns	1.15	1.16	ns	1.31	ns	Vamp7	1
1452007_at	Rnd 10740	Rnd 39163	ns	1.21	ns	ns	1.32	ns	Vamp7	1
1436778_at	9012379	9015421	ns	1.65	1.19	ns	ns	ns	Cybb	2
1436779_at	9012379	9015421	ns	1.25	1.16	ns	ns	ns	Cybb	2
1448737_at	10062241	10173728	1.66	1.29	ns	ns	ns	ns	Tspan7	3
1433867_at	12232009	12232793	1.08	1.14	ns	ns	1.05	ns	1810030O07Rik*	4
1416467_at	12858147	12870179	1.21	1.18	1.22	ns	1.26	1.16	Ddx3x*	5
1423042_at	12868948	12871177	1.35	1.21	1.19	1.35	1.24	1.18	Ddx3x*	5
1423043_s_at	12868948	12871177	1.37	1.32	1.14	ns	1.21	1.18	Ddx3x*	5
1428667_at	16196827	16262870	1.47	1.36	ns	ns	ns	ns	Maoa	6
1442676_at	16262773	16263384	1.05	1.14	ns	ns	ns	ns	Maoa	6
1424215_at	17133689	17149423	1.14	1.17	1.10	ns	1.06	ns	Fundc1	7
1427672_a_at	17740544	17855992	1.94	1.45	1.32	ns	1.64	1.32	Kdm6a*	8
1446278_at	17804913	17805592	1.18	1.18	1.36	ns	1.46	1.15	--- (Kdm6a intron)	8i
1446234_at	17805383	17806066	1.53	1.32	1.33	ns	1.76	1.38	--- (Kdm6a intron)	8i
1427235_at	17818825	17856644	2.05	1.60	1.31	1.38	1.80	1.43	Kdm6a*	8
1445198_at	17854669	17855386	1.09	1.25	1.26	ns	1.49	1.13	Kdm6a*	8
1434061_at	19976041	19977980	1.19	1.19	ns	ns	ns	ns	Rp2h	9
1454816_at	19976041	19977980	1.11	1.10	ns	ns	ns	ns	Rp2h	9
1448852_at	20126913	20139212	1.82	1.20	ns	ns	ns	ns	Rgn	10
1440764_at	^20430444	^20432638	ns	1.18	ns	1.29	ns	ns	Araf	11
1452279_at	20502657	20508661	ns	1.66	1.21	1.20	ns	ns	Cfp	12	a
1447537_at	20508977	20509301	1.15	ns	ns	1.50	ns	ns	1500032P08Rik	13	a
1416242_at	22796396	22942189	1.08	1.09	ns	ns	ns	ns	Klhl13	14
1448269_a_at	22796396	22942189	1.26	1.94	ns	ns	ns	ns	Klhl13	14
1429028_at	33584857	33616555	1.11	1.18	ns	ns	ns	ns	Dock11	15
1457265_at	34148177	34149112	1.14	ns	ns	1.15	ns	ns	Sfrs17b	16
1417609_at	34413894	34424221	1.25	1.16	ns	ns	ns	ns	Ube2a	17
1449393_at	39855741	39875274	ns	1.05	1.24	ns	ns	ns	Sh2d1a	18
1438916_x_at	47908927	47909357	1.06	1.12	ns	1.32	ns	ns	6720401G13Rik*	19
1435744_at	47916296	47922553	1.19	ns	ns	1.34	ns	ns	6720401G13Rik*	19
1419033_at	48194223	48246471	1.22	ns	ns	1.21	ns	ns	2610018G03Rik	20
1434678_at	48466677	48468296	1.11	1.14	ns	ns	ns	ns	Mbnl3 ^&	21
1426832_at	53752788	53761020	1.34	1.13	1.05	1.41	ns	ns	Ddx26b	22
1454760_at	54307208	54320357	1.14	ns	ns	1.15	ns	ns	Htatsf1	23
1455635_at	54630061	54630758	ns	1.09	ns	1.23	ns	ns	4732460I02Rik	24	b
1426863_at	54636524	54646143	1.15	ns	ns	1.37	ns	ns	Rbmx	25	b
1423369_at	65931756	65971138	1.18	1.23	ns	ns	ns	ns	Fmr1	26
1451302_at	67639051	67642592	1.18	1.34	ns	ns	ns	ns	1110012L19Rik	27
1435228_at	67712927	67713571	1.18	1.27	ns	ns	ns	ns	BC023829	28
1418397_at	70587973	70604418	1.25	1.06	ns	ns	ns	ns	Zfp275	29
1448323_a_at	70728980	70741722	1.30	1.17	ns	ns	ns	ns	Bgn*	30
1437889_x_at	70740822	70741271	1.17	1.09	ns	ns	ns	ns	Bgn*	30
1426677_at	71468799	71481154	1.24	ns	ns	1.16	ns	ns	Flna	31
1448354_at	71654824	71674529	1.08	1.09	1.07	ns	ns	ns	G6pdx	32
1455724_at	75694953	75696134	1.16	1.07	ns	ns	ns	ns	Prrg1	33
1420514_at	78316031	78343314	1.13	1.21	ns	ns	ns	ns	Tmem47	34
1417307_at	80194208	82450389	1.20	1.24	ns	ns	ns	ns	Dmd	35
1448665_at	80194208	82450389	1.20	1.39	ns	ns	ns	ns	Dmd	35
1423744_x_at	91434045	91435976	1.53	1.37	1.34	1.38	1.41	1.37	Eif2s3x*	36
1451090_a_at	91434045	91435976	1.55	1.45	1.32	1.43	1.39	1.39	Eif2s3x*	36
1421895_at	91435260	91457988	1.48	1.60	1.34	ns	1.71	1.58	Eif2s3x*	36
1435818_at	91522460	91523059	1.08	1.06	ns	ns	ns	ns	Klhl15	37
1434729_at	92834534	92835231	1.06	1.07	ns	ns	ns	ns	Zc4h2	38
1437064_at	95514880	95516618	1.22	1.56	ns	ns	ns	ns	Ar	39
1455647_at	95517026	95518558	1.29	1.62	ns	ns	ns	ns	Ar	39
1419108_at	95752847	96086120	1.06	ns	ns	1.10	ns	ns	Ophn1	40
1427072_at	96265193	96270067	1.47	1.22	ns	ns	ns	ns	Stard8	41
1416918_at	97963090	98013749	1.23	1.10	ns	ns	ns	ns	Dlg3	42
1455465_at	98394381	98395191	ns	1.15	ns	1.15	ns	ns	--- (Snx12 intron)	i
1416295_a_at	98459719	98463545	1.21	1.62	ns	ns	ns	ns	Il2rg ^&	43
1460631_at	98878217	98879690	1.19	1.20	ns	ns	ns	ns	Ogt	44
1440522_at	100590759	100591430	ns	2.02	ns	1.17	ns	ns	Chic1	45
1427262_at	100655713	100678556	128	114	55	7.9	65	33	Xist*	46
1427263_at	100655713	100678556	1.9	16.7	5.1	3.3	5.1	2.5	Xist*	47
1436936_s_at	100677542	100678588	22	67	6.5	26	22	11	Xist*	47	c
1442137_at	^100689134	^100701764	ns	ns	1.13	1.07	1.16	ns	2010000I03Rik (Jpx)*	48	c
1438838_at	100764844	100765429	1.05	1.12	ns	1.70	1.40	ns	B230206F22Rik (Ftx)*	49	c
1439305_at	100772965	100773674	1.32	1.20	ns	ns	1.46	1.09	--- (Ftx intron)	49i	c
1435822_at	101705781	101707391	1.19	1.28	ns	1.16	ns	ns	D830012I24Rik	50
1438893_at	102237486	102238144	ns	ns	1.22	ns	1.28	1.06	5530601H04Rik*	51
1436347_a_at	102238820	102265435	1.06	1.24	1.41	1.18	1.63	1.24	5530601H04Rik*	51
1452750_at	^102232689	^102265463	1.20	1.33	1.33	1.34	1.58	1.27	5530601H04Rik*	51	d
1417921_at	102275115	102278930	1.27	1.40	1.30	1.16	1.48	1.15	2610029G23Rik*	52	d
1433537_at	102992735	102993644	1.30	ns	ns	1.23	ns	ns	Atrx	53
1453734_at	102993154	102995719	1.14	1.13	ns	ns	ns	ns	Atrx	53
1418774_a_at	103222614	103320808	1.19	1.09	ns	ns	ns	ns	Atp7a	54
1436921_at	103321257	103323499	1.21	1.17	ns	ns	ns	ns	Atp7a	54
1457753_at	103354989	103355829	ns	1.11	1.14	ns	ns	ns	Tlr13	55
1435584_at	104368242	104369000	1.03	1.07	ns	ns	ns	ns	A630033H20Rik	56
1453078_at	104978092	104980504	1.11	1.26	ns	ns	ns	ns	2610002M06Rik	57
1421871_at	106290703	106357275	1.43	1.22	ns	ns	ns	ns	Sh3bgrl	58
1459571_at	106306845	106307385	1.06	1.15	ns	ns	ns	ns	--- (Sh3bgrl intron)	58i
1428107_at	106356680	106357810	1.64	1.14	ns	ns	ns	ns	Sh3bgrl	58
1442003_at	126999308	127000367	ns	1.18	ns	1.17	ns	ns	Diap2	59
1416807_at	131120240	131122656	1.23	ns	1.06	ns	ns	ns	Rpl36a	60
1425914_a_at	131252558	131256449	1.08	1.08	ns	ns	ns	ns	Armcx1	61
1456739_x_at	131338685	131338978	1.64	1.41	ns	ns	ns	ns	Armcx2	62
1435829_at	131505913	131506643	1.16	1.35	ns	ns	ns	ns	Zmat1	63
1428512_at	132424218	132425617	1.69	1.21	ns	1.14	ns	ns	Bhlhb9	64
1428209_at	132673583	132674982	1.84	1.08	ns	ns	ns	ns	Bex4	65	e
1418171_at	132704620	132706881	1.37	2.04	ns	ns	ns	ns	Tceal8	66	e
1451230_a_at	132779633	132781675	1.59	1.11	ns	ns	ns	ns	Wbp5	67
1439413_x_at	133267489	133267797	1.14	1.14	ns	ns	ns	ns	Morf4l2	68
1418318_at	136145158	136207908	1.08	1.22	ns	ns	ns	ns	Rnf128	69
1449036_at	136145158	136207908	1.10	1.15	ns	ns	ns	ns	Rnf128	69
1456027_at	136476076	136477767	1.06	ns	ns	1.10	1.05	ns	Rbm41	70
1416052_at	136991147	137010679	1.11	1.30	ns	ns	ns	ns	Prps1	71
1425476_at	137909933	138123778	1.19	1.15	ns	ns	ns	ns	Col4a5	72
1460016_at	139118850	139119428	1.08	1.09	ns	1.22	ns	ns	Tmem164	73
1441195_at	139127416	139128111	1.05	ns	ns	1.22	ns	ns	--- (Tmem164 intron)	73i
1454741_s_at	139269949	139272918	1.25	1.16	ns	ns	ns	ns	Tmem164	73
1428930_at	146843122	146893683	1.10	ns	1.14	ns	1.29	ns	Tmem29	74
1426306_a_at	147240996	147247504	ns	1.12	1.08	ns	ns	ns	Maged2	75
1426497_at	148667784	148708632	ns	ns	1.26	ns	1.25	1.13	Kdm5c*	76
1426498_at	148667784	148708632	ns	ns	1.18	ns	1.23	1.07	Kdm5c*	76
1441449_at	148679626	148681294	ns	ns	1.08	1.11	1.15	ns	Kdm5c*	76
1441450_s_at	148679626	148681294	ns	ns	1.18	1.12	1.19	ns	Kdm5c*	76
1457930_at	148691371	148692025	1.14	1.18	1.24	ns	1.47	1.21	Kdm5c*	76
1440123_at	148699256	148700276	1.10	1.24	1.29	ns	1.51	1.09	--- (Kdm5c intron)	76i
1444157_a_at	148708371	148709078	1.09	1.26	1.28	1.26	1.46	1.18	Kdm5c*	76
1444158_at	148708371	148709078	1.28	1.31	1.24	1.19	1.44	1.18	Kdm5c*	76	f
1435348_at	148712014	148713640	1.24	1.32	1.33	1.38	1.53	1.28	D930009K15Rik	77	f
1428499_at	148729448	148730847	1.08	ns	ns	1.10	ns	ns	2810454L23Rik	78	f
1441020_at	148742556	148743349	1.07	1.14	ns	1.29	ns	ns	--- (Intergenic)	79	f
1441816_at	148749758	148750124	ns	ns	1.12	1.32	ns	ns	2900056M20Rik	80	f
1433992_at	149044532	149046561	1.15	1.08	ns	ns	ns	ns	Shroom2	81
1422498_at	149470708	149472081	1.13	1.29	ns	ns	ns	ns	Mageh1	82
1430538_at	150158096	150175958	1.29	1.36	ns	ns	ns	ns	2210013O21Rik	83
1416167_at	151758460	151773001	1.50	1.17	ns	ns	ns	ns	Prdx4	84
1441360_at	155711288	155712253	ns	1.09	ns	1.43	ns	ns	--- (Rps6ka3 intron)	85i
1455206_at	155803349	155806175	ns	1.32	ns	1.20	ns	ns	Rps6ka3	85
1452358_at	158154967	158217429	1.10	1.11	ns	ns	ns	ns	Rai2	86
1448111_at	159340115	159469264	1.18	1.32	1.06	ns	ns	ns	Ctps2	87
1452657_at	160346948	160371598	1.12	1.15	ns	ns	ns	ns	Ap1s2	88
1438953_at	160838594	160838901	1.18	ns	ns	1.10	ns	ns	Figf	89
1438954_x_at	160838594	160838901	1.20	ns	ns	1.11	ns	ns	Figf	89
1424124_at	161374107	161418260	1.20	1.26	ns	ns	ns	ns	Mospd2	90
1423091_a_at	162676903	162826964	1.21	1.12	ns	ns	ns	ns	Gpm6b	91
1415906_at	163645025	163645984	1.35	1.33	ns	ns	ns	ns	Tmsb4x	92
1454843_at	163784253	163785400	1.46	1.13	ns	ns	ns	ns	Prps2	93
1417704_a_at	165233904	165742756	1.09	1.14	ns	ns	ns	ns	Arhgap6	94
1451867_x_at	165233904	165742367	1.14	1.32	ns	ns	ns	ns	Arhgap6	94
B. Male-biased genes
ProbeSet ID	Start align	Stop align	Ki	Li	Lu	St	Ey	Hi	Gene symbol
1422827_x_at	7461369	7471588	1.08	ns	ns	1.11	ns	ns	Slc35a2	1
1432533_a_at	7462961	7471586	1.10	1.10	ns	ns	ns	ns	Slc35a2	1
1436664_a_at	7470132	7471590	1.10	1.10	ns	ns	ns	ns	Slc35a2	1
1425490_a_at	7700426	7709678	1.04	1.11	ns	ns	ns	ns	Wdr13	2
1422660_at	7719484	7722860	ns	ns	ns	ns	1.08	1.18	Rbm3	3
1457519_at	7729990	7730655	1.08	1.09	ns	ns	ns	ns	Tbc1d25	4
1438753_at	7779325	7780137	1.07	1.10	ns	ns	ns	ns	--- (Porcn intron)	i
1451939_a_at	9616032	9694713	ns	ns	1.11	ns	1.15	ns	Srpx	5
1450039_at	12648662	12749154	1.22	1.18	ns	ns	ns	ns	Usp9x	6
1431955_at	20783706	20798793	1.05	ns	ns	1.07	ns	ns	4930453H23Rik	7
1422241_a_at	34727595	34731158	1.08	1.11	ns	ns	ns	ns	Ndufa1	8
1416344_at	35758238	35809556	1.24	ns	1.03	1.14	ns	ns	Lamp2	9
1439298_at	39437302	39438087	1.09	1.14	ns	ns	ns	ns	--- (Xiap intron)	i
1449825_at	43682183	43683528	1.05	1.08	ns	ns	ns	ns	Actrt1	10
1433652_at	47135712	47137009	ns	1.09	ns	1.55	ns	ns	Igsf1	11
1442549_at	48470442	48471160	ns	1.10	1.19	ns	ns	ns	Mbnl3 ^&	12
1453453_at	49321871	49325949	1.03	1.08	ns	ns	ns	ns	1700080O16Rik	13
1443620_at	49403554	49404019	1.21	ns	1.14	ns	ns	ns	Gpc4	14
1448736_a_at	50341268	50374837	1.17	1.32	ns	ns	ns	ns	Hprt	15
1435815_at	58963393	58964128	ns	1.16	ns	ns	ns	1.10	Ldoc1	16
1434739_at	66015028	66057768	1.07	1.21	ns	ns	ns	ns	Fmr1nb	17
1458014_at	67115572	67116574	ns	1.06	ns	1.05	ns	ns	Aff2	18
1421536_at	70070608	70083883	1.03	1.05	ns	ns	ns	ns	Gabrq	19
1417412_at	70473356	70475147	1.06	ns	ns	1.10	ns	ns	F8a	20
1422711_a_at	70901332	70905177	ns	1.14	ns	1.19	ns	ns	Pnck	21
1451049_at	70931516	70961761	1.13	ns	ns	1.13	ns	ns	Bcap31	22
1438120_x_at	71260144	71260313	1.19	1.11	ns	ns	ns	ns	Irak1	23
1450161_at	71669950	71694950	1.07	1.11	ns	ns	ns	ns	Ikbkg	24
1437553_at	72698339	72699357	1.06	1.07	ns	ns	ns	ns	Brcc3	25
1429793_at	82514833	82515627	1.06	1.09	ns	ns	ns	ns	1600014K23Rik	26
1458481_at	98456711	98459331	1.04	1.10	ns	ns	ns	ns	Il2rg ^&	27
1447725_at	100211276	100211547	1.06	1.11	ns	ns	ns	ns	C030034E14Rik	28
1437355_at	104032421	104033595	1.04	1.08	ns	ns	ns	ns	Zcchc5	29
1422164_at	108009755	108012520	1.06	1.17	ns	ns	ns	ns	Pou3f4	30
1444668_at	120324027	120326909	1.13	1.25	1.15	ns	ns	ns	Astx	31
1417979_at	130385542	130400116	1.03	ns	ns	ns	1.17	ns	Tnmd	32
1425954_a_at	147018680	147022624	1.05	1.14	ns	ns	ns	ns	Apex2	33

The female-biased (A) and male-biased (B) genes with the same direction of sex-bias in more than one tissue are listed. The mean fold-changes for significant differences are given for each tissue. Fold-changes in Italic font denote the significance level p<0.01, and fold-changes in bold font denote the significance level p<0.001. The letters “a-f”, to the right in the table, indicate female-biased gene clusters as described in the main text. The additional notation used in the table is as follows. i: intronic transcript. ^: the exact probe mapping coordinates was not specified in the array annotation file, and gene start/stop locations are therefore given according to the NCBI37/mm9 genome assembly. ^&: these genes showed opposing sex-bias for different probes. *: known XCI escapee gene.

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