SRP126677 Track Settings

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Genome-wide profiling at single-nucleotide resolution of brain cell types in schizophrenia [WGBS] [NeuN, Olig2] (Human methylome studies)

This track is part of a parent called 'Human methylome studies'. To show other tracks of this parent, go to the Human methylome studies configuration page.

Maximum display mode: Reset to defaults Subtracks⇓ Description⇓

Select views (help):

CpG reads ▾

CpG methylation ▾

AMR

PMD

HMR

Select subtracks by views and experiment:

All	*views*	CpG reads	CpG methylation	AMR	PMD	HMR
*experiment*
SRX3468746
SRX3468747
SRX3468748
SRX3468749
SRX3468750
SRX3468751
SRX3468752
SRX3468753
SRX3468754
SRX3468755
SRX3468756
SRX3468757
SRX3468758
SRX3468759
SRX3468760
SRX3468761
SRX3468762
SRX3468763
SRX3468764
SRX3468765
SRX3468766
SRX3468767
SRX3468768
SRX3468769
SRX3468774
SRX3468775
SRX3468776
SRX3468777
SRX3468778
SRX3468779
SRX3468780
SRX3468781
SRX3468782
SRX3468783
SRX3468784
SRX3468785
SRX3468786
SRX3468787
SRX3468788
SRX3468789
SRX3468790
SRX3468791
SRX3468792
SRX3468793
SRX3468794
SRX3468796
SRX3468797
SRX3468798
SRX3468799
SRX3468800
SRX3468801
SRX3468802
SRX3468803
SRX3468804
SRX3468805
SRX3468807
SRX3468808
SRX3468809
SRX3468810
SRX3468811
SRX3468812
SRX3468813
SRX3468814
SRX3468815
SRX3468816
SRX3468817
SRX3468818
SRX3468819
SRX3468820
SRX3468821
SRX3468822
SRX3468823
SRX3468824
SRX3468825
SRX3468826
SRX3468827
SRX3468828
SRX3468829
SRX3468830
SRX3468832
SRX3468833
SRX3468834
SRX3468835
SRX3468836
*experiment*
All	*views*	CpG reads	CpG methylation	AMR	PMD	HMR

List subtracks: only selected/visible all ()

	experiment^↓1	views^↓2	Track Name^↓3
hide	SRX3468746	CpG reads	NeuN / SRX3468746 (CpG reads)	schema
hide	SRX3468746	CpG methylation	NeuN / SRX3468746 (CpG methylation)	schema
hide	SRX3468746	AMR	NeuN / SRX3468746 (AMR)	schema
hide	SRX3468746	PMD	NeuN / SRX3468746 (PMD)	schema
hide	SRX3468746	HMR	NeuN / SRX3468746 (HMR)	schema
hide	SRX3468747	AMR	NeuN / SRX3468747 (AMR)	schema
hide	SRX3468747	HMR	NeuN / SRX3468747 (HMR)	schema
hide	SRX3468747	CpG reads	NeuN / SRX3468747 (CpG reads)	schema
hide	SRX3468747	CpG methylation	NeuN / SRX3468747 (CpG methylation)	schema
hide	SRX3468747	PMD	NeuN / SRX3468747 (PMD)	schema
hide	SRX3468748	CpG reads	NeuN / SRX3468748 (CpG reads)	schema
hide	SRX3468748	CpG methylation	NeuN / SRX3468748 (CpG methylation)	schema
hide	SRX3468748	AMR	NeuN / SRX3468748 (AMR)	schema
hide	SRX3468748	PMD	NeuN / SRX3468748 (PMD)	schema
hide	SRX3468748	HMR	NeuN / SRX3468748 (HMR)	schema
hide	SRX3468749	CpG reads	NeuN / SRX3468749 (CpG reads)	schema
hide	SRX3468749	CpG methylation	NeuN / SRX3468749 (CpG methylation)	schema
hide	SRX3468749	AMR	NeuN / SRX3468749 (AMR)	schema
hide	SRX3468749	PMD	NeuN / SRX3468749 (PMD)	schema
hide	SRX3468749	HMR	NeuN / SRX3468749 (HMR)	schema
hide	SRX3468750	CpG reads	NeuN / SRX3468750 (CpG reads)	schema
hide	SRX3468750	CpG methylation	NeuN / SRX3468750 (CpG methylation)	schema
hide	SRX3468750	AMR	NeuN / SRX3468750 (AMR)	schema
hide	SRX3468750	PMD	NeuN / SRX3468750 (PMD)	schema
hide	SRX3468750	HMR	NeuN / SRX3468750 (HMR)	schema
hide	SRX3468751	CpG reads	NeuN / SRX3468751 (CpG reads)	schema
hide	SRX3468751	CpG methylation	NeuN / SRX3468751 (CpG methylation)	schema
hide	SRX3468751	AMR	NeuN / SRX3468751 (AMR)	schema
hide	SRX3468751	PMD	NeuN / SRX3468751 (PMD)	schema
hide	SRX3468751	HMR	NeuN / SRX3468751 (HMR)	schema
hide	SRX3468752	CpG reads	NeuN / SRX3468752 (CpG reads)	schema
hide	SRX3468752	CpG methylation	NeuN / SRX3468752 (CpG methylation)	schema
hide	SRX3468752	AMR	NeuN / SRX3468752 (AMR)	schema
hide	SRX3468752	PMD	NeuN / SRX3468752 (PMD)	schema
hide	SRX3468752	HMR	NeuN / SRX3468752 (HMR)	schema
hide	SRX3468753	CpG reads	NeuN / SRX3468753 (CpG reads)	schema
hide	SRX3468753	CpG methylation	NeuN / SRX3468753 (CpG methylation)	schema
hide	SRX3468753	AMR	NeuN / SRX3468753 (AMR)	schema
hide	SRX3468753	PMD	NeuN / SRX3468753 (PMD)	schema
hide	SRX3468753	HMR	NeuN / SRX3468753 (HMR)	schema
hide	SRX3468754	CpG reads	NeuN / SRX3468754 (CpG reads)	schema
hide	SRX3468754	CpG methylation	NeuN / SRX3468754 (CpG methylation)	schema
hide	SRX3468754	AMR	NeuN / SRX3468754 (AMR)	schema
hide	SRX3468754	PMD	NeuN / SRX3468754 (PMD)	schema
hide	SRX3468754	HMR	NeuN / SRX3468754 (HMR)	schema
hide	SRX3468755	AMR	NeuN / SRX3468755 (AMR)	schema
hide	SRX3468755	PMD	NeuN / SRX3468755 (PMD)	schema
hide	SRX3468755	HMR	NeuN / SRX3468755 (HMR)	schema
hide	SRX3468755	CpG reads	NeuN / SRX3468755 (CpG reads)	schema
hide	SRX3468755	CpG methylation	NeuN / SRX3468755 (CpG methylation)	schema
hide	SRX3468756	CpG reads	Olig2 / SRX3468756 (CpG reads)	schema
hide	SRX3468756	CpG methylation	Olig2 / SRX3468756 (CpG methylation)	schema
hide	SRX3468756	AMR	Olig2 / SRX3468756 (AMR)	schema
hide	SRX3468756	PMD	Olig2 / SRX3468756 (PMD)	schema
hide	SRX3468756	HMR	Olig2 / SRX3468756 (HMR)	schema
hide	SRX3468757	CpG reads	Olig2 / SRX3468757 (CpG reads)	schema
hide	SRX3468757	CpG methylation	Olig2 / SRX3468757 (CpG methylation)	schema
hide	SRX3468757	AMR	Olig2 / SRX3468757 (AMR)	schema
hide	SRX3468757	PMD	Olig2 / SRX3468757 (PMD)	schema
hide	SRX3468757	HMR	Olig2 / SRX3468757 (HMR)	schema
hide	SRX3468758	HMR	NeuN / SRX3468758 (HMR)	schema
hide	SRX3468758	CpG reads	NeuN / SRX3468758 (CpG reads)	schema
hide	SRX3468758	CpG methylation	NeuN / SRX3468758 (CpG methylation)	schema
hide	SRX3468758	AMR	NeuN / SRX3468758 (AMR)	schema
hide	SRX3468758	PMD	NeuN / SRX3468758 (PMD)	schema
hide	SRX3468759	CpG reads	NeuN / SRX3468759 (CpG reads)	schema
hide	SRX3468759	CpG methylation	NeuN / SRX3468759 (CpG methylation)	schema
hide	SRX3468759	AMR	NeuN / SRX3468759 (AMR)	schema
hide	SRX3468759	PMD	NeuN / SRX3468759 (PMD)	schema
hide	SRX3468759	HMR	NeuN / SRX3468759 (HMR)	schema
hide	SRX3468760	CpG reads	NeuN / SRX3468760 (CpG reads)	schema
hide	SRX3468760	CpG methylation	NeuN / SRX3468760 (CpG methylation)	schema
hide	SRX3468760	AMR	NeuN / SRX3468760 (AMR)	schema
hide	SRX3468760	PMD	NeuN / SRX3468760 (PMD)	schema
hide	SRX3468760	HMR	NeuN / SRX3468760 (HMR)	schema
hide	SRX3468761	CpG reads	Olig2 / SRX3468761 (CpG reads)	schema
hide	SRX3468761	CpG methylation	Olig2 / SRX3468761 (CpG methylation)	schema
hide	SRX3468761	AMR	Olig2 / SRX3468761 (AMR)	schema
hide	SRX3468761	PMD	Olig2 / SRX3468761 (PMD)	schema
hide	SRX3468761	HMR	Olig2 / SRX3468761 (HMR)	schema
hide	SRX3468762	CpG reads	NeuN / SRX3468762 (CpG reads)	schema
hide	SRX3468762	CpG methylation	NeuN / SRX3468762 (CpG methylation)	schema
hide	SRX3468762	AMR	NeuN / SRX3468762 (AMR)	schema
hide	SRX3468762	PMD	NeuN / SRX3468762 (PMD)	schema
hide	SRX3468762	HMR	NeuN / SRX3468762 (HMR)	schema
hide	SRX3468763	CpG methylation	NeuN / SRX3468763 (CpG methylation)	schema
hide	SRX3468763	AMR	NeuN / SRX3468763 (AMR)	schema
hide	SRX3468763	PMD	NeuN / SRX3468763 (PMD)	schema
hide	SRX3468763	HMR	NeuN / SRX3468763 (HMR)	schema
hide	SRX3468763	CpG reads	NeuN / SRX3468763 (CpG reads)	schema
hide	SRX3468764	CpG reads	Olig2 / SRX3468764 (CpG reads)	schema
hide	SRX3468764	CpG methylation	Olig2 / SRX3468764 (CpG methylation)	schema
hide	SRX3468764	AMR	Olig2 / SRX3468764 (AMR)	schema
hide	SRX3468764	PMD	Olig2 / SRX3468764 (PMD)	schema
hide	SRX3468764	HMR	Olig2 / SRX3468764 (HMR)	schema
hide	SRX3468765	CpG reads	NeuN / SRX3468765 (CpG reads)	schema
hide	SRX3468765	CpG methylation	NeuN / SRX3468765 (CpG methylation)	schema
hide	SRX3468765	AMR	NeuN / SRX3468765 (AMR)	schema
hide	SRX3468765	PMD	NeuN / SRX3468765 (PMD)	schema
hide	SRX3468765	HMR	NeuN / SRX3468765 (HMR)	schema
hide	SRX3468766	AMR	Olig2 / SRX3468766 (AMR)	schema
hide	SRX3468766	HMR	Olig2 / SRX3468766 (HMR)	schema
hide	SRX3468766	CpG reads	Olig2 / SRX3468766 (CpG reads)	schema
hide	SRX3468766	CpG methylation	Olig2 / SRX3468766 (CpG methylation)	schema
hide	SRX3468766	PMD	Olig2 / SRX3468766 (PMD)	schema
hide	SRX3468767	CpG reads	Olig2 / SRX3468767 (CpG reads)	schema
hide	SRX3468767	CpG methylation	Olig2 / SRX3468767 (CpG methylation)	schema
hide	SRX3468767	AMR	Olig2 / SRX3468767 (AMR)	schema
hide	SRX3468767	PMD	Olig2 / SRX3468767 (PMD)	schema
hide	SRX3468767	HMR	Olig2 / SRX3468767 (HMR)	schema
hide	SRX3468768	CpG reads	Olig2 / SRX3468768 (CpG reads)	schema
hide	SRX3468768	CpG methylation	Olig2 / SRX3468768 (CpG methylation)	schema
hide	SRX3468768	AMR	Olig2 / SRX3468768 (AMR)	schema
hide	SRX3468768	PMD	Olig2 / SRX3468768 (PMD)	schema
hide	SRX3468768	HMR	Olig2 / SRX3468768 (HMR)	schema
hide	SRX3468769	CpG reads	NeuN / SRX3468769 (CpG reads)	schema
hide	SRX3468769	CpG methylation	NeuN / SRX3468769 (CpG methylation)	schema
hide	SRX3468769	AMR	NeuN / SRX3468769 (AMR)	schema
hide	SRX3468769	PMD	NeuN / SRX3468769 (PMD)	schema
hide	SRX3468769	HMR	NeuN / SRX3468769 (HMR)	schema
hide	SRX3468774	CpG reads	Olig2 / SRX3468774 (CpG reads)	schema
hide	SRX3468774	CpG methylation	Olig2 / SRX3468774 (CpG methylation)	schema
hide	SRX3468774	AMR	Olig2 / SRX3468774 (AMR)	schema
hide	SRX3468774	PMD	Olig2 / SRX3468774 (PMD)	schema
hide	SRX3468774	HMR	Olig2 / SRX3468774 (HMR)	schema
hide	SRX3468775	CpG reads	NeuN / SRX3468775 (CpG reads)	schema
hide	SRX3468775	CpG methylation	NeuN / SRX3468775 (CpG methylation)	schema
hide	SRX3468775	AMR	NeuN / SRX3468775 (AMR)	schema
hide	SRX3468775	PMD	NeuN / SRX3468775 (PMD)	schema
hide	SRX3468775	HMR	NeuN / SRX3468775 (HMR)	schema
hide	SRX3468776	CpG reads	NeuN / SRX3468776 (CpG reads)	schema
hide	SRX3468776	CpG methylation	NeuN / SRX3468776 (CpG methylation)	schema
hide	SRX3468776	AMR	NeuN / SRX3468776 (AMR)	schema
hide	SRX3468776	PMD	NeuN / SRX3468776 (PMD)	schema
hide	SRX3468776	HMR	NeuN / SRX3468776 (HMR)	schema
hide	SRX3468777	CpG reads	NeuN / SRX3468777 (CpG reads)	schema
hide	SRX3468777	CpG methylation	NeuN / SRX3468777 (CpG methylation)	schema
hide	SRX3468777	AMR	NeuN / SRX3468777 (AMR)	schema
hide	SRX3468777	PMD	NeuN / SRX3468777 (PMD)	schema
hide	SRX3468777	HMR	NeuN / SRX3468777 (HMR)	schema
hide	SRX3468778	AMR	NeuN / SRX3468778 (AMR)	schema
hide	SRX3468778	PMD	NeuN / SRX3468778 (PMD)	schema
hide	SRX3468778	HMR	NeuN / SRX3468778 (HMR)	schema
hide	SRX3468778	CpG reads	NeuN / SRX3468778 (CpG reads)	schema
hide	SRX3468778	CpG methylation	NeuN / SRX3468778 (CpG methylation)	schema
hide	SRX3468779	CpG reads	NeuN / SRX3468779 (CpG reads)	schema
hide	SRX3468779	CpG methylation	NeuN / SRX3468779 (CpG methylation)	schema
hide	SRX3468779	AMR	NeuN / SRX3468779 (AMR)	schema
hide	SRX3468779	PMD	NeuN / SRX3468779 (PMD)	schema
hide	SRX3468779	HMR	NeuN / SRX3468779 (HMR)	schema
hide	SRX3468780	CpG reads	NeuN / SRX3468780 (CpG reads)	schema
hide	SRX3468780	CpG methylation	NeuN / SRX3468780 (CpG methylation)	schema
hide	SRX3468780	AMR	NeuN / SRX3468780 (AMR)	schema
hide	SRX3468780	PMD	NeuN / SRX3468780 (PMD)	schema
hide	SRX3468780	HMR	NeuN / SRX3468780 (HMR)	schema
hide	SRX3468781	HMR	NeuN / SRX3468781 (HMR)	schema
hide	SRX3468781	CpG reads	NeuN / SRX3468781 (CpG reads)	schema
hide	SRX3468781	CpG methylation	NeuN / SRX3468781 (CpG methylation)	schema
hide	SRX3468781	AMR	NeuN / SRX3468781 (AMR)	schema
hide	SRX3468781	PMD	NeuN / SRX3468781 (PMD)	schema
hide	SRX3468782	CpG reads	NeuN / SRX3468782 (CpG reads)	schema
hide	SRX3468782	CpG methylation	NeuN / SRX3468782 (CpG methylation)	schema
hide	SRX3468782	AMR	NeuN / SRX3468782 (AMR)	schema
hide	SRX3468782	PMD	NeuN / SRX3468782 (PMD)	schema
hide	SRX3468782	HMR	NeuN / SRX3468782 (HMR)	schema
hide	SRX3468783	CpG reads	Olig2 / SRX3468783 (CpG reads)	schema
hide	SRX3468783	CpG methylation	Olig2 / SRX3468783 (CpG methylation)	schema
hide	SRX3468783	AMR	Olig2 / SRX3468783 (AMR)	schema
hide	SRX3468783	PMD	Olig2 / SRX3468783 (PMD)	schema
hide	SRX3468783	HMR	Olig2 / SRX3468783 (HMR)	schema
hide	SRX3468784	CpG reads	NeuN / SRX3468784 (CpG reads)	schema
hide	SRX3468784	CpG methylation	NeuN / SRX3468784 (CpG methylation)	schema
hide	SRX3468784	AMR	NeuN / SRX3468784 (AMR)	schema
hide	SRX3468784	PMD	NeuN / SRX3468784 (PMD)	schema
hide	SRX3468784	HMR	NeuN / SRX3468784 (HMR)	schema
hide	SRX3468785	CpG reads	NeuN / SRX3468785 (CpG reads)	schema
hide	SRX3468785	CpG methylation	NeuN / SRX3468785 (CpG methylation)	schema
hide	SRX3468785	AMR	NeuN / SRX3468785 (AMR)	schema
hide	SRX3468785	PMD	NeuN / SRX3468785 (PMD)	schema
hide	SRX3468785	HMR	NeuN / SRX3468785 (HMR)	schema
hide	SRX3468786	CpG methylation	NeuN / SRX3468786 (CpG methylation)	schema
hide	SRX3468786	AMR	NeuN / SRX3468786 (AMR)	schema
hide	SRX3468786	PMD	NeuN / SRX3468786 (PMD)	schema
hide	SRX3468786	HMR	NeuN / SRX3468786 (HMR)	schema
hide	SRX3468786	CpG reads	NeuN / SRX3468786 (CpG reads)	schema
hide	SRX3468787	CpG reads	NeuN / SRX3468787 (CpG reads)	schema
hide	SRX3468787	CpG methylation	NeuN / SRX3468787 (CpG methylation)	schema
hide	SRX3468787	AMR	NeuN / SRX3468787 (AMR)	schema
hide	SRX3468787	PMD	NeuN / SRX3468787 (PMD)	schema
hide	SRX3468787	HMR	NeuN / SRX3468787 (HMR)	schema
hide	SRX3468788	CpG reads	NeuN / SRX3468788 (CpG reads)	schema
hide	SRX3468788	CpG methylation	NeuN / SRX3468788 (CpG methylation)	schema
hide	SRX3468788	AMR	NeuN / SRX3468788 (AMR)	schema
hide	SRX3468788	PMD	NeuN / SRX3468788 (PMD)	schema
hide	SRX3468788	HMR	NeuN / SRX3468788 (HMR)	schema
hide	SRX3468789	AMR	NeuN / SRX3468789 (AMR)	schema
hide	SRX3468789	HMR	NeuN / SRX3468789 (HMR)	schema
hide	SRX3468789	CpG reads	NeuN / SRX3468789 (CpG reads)	schema
hide	SRX3468789	CpG methylation	NeuN / SRX3468789 (CpG methylation)	schema
hide	SRX3468789	PMD	NeuN / SRX3468789 (PMD)	schema
hide	SRX3468790	CpG reads	NeuN / SRX3468790 (CpG reads)	schema
hide	SRX3468790	CpG methylation	NeuN / SRX3468790 (CpG methylation)	schema
hide	SRX3468790	AMR	NeuN / SRX3468790 (AMR)	schema
hide	SRX3468790	PMD	NeuN / SRX3468790 (PMD)	schema
hide	SRX3468790	HMR	NeuN / SRX3468790 (HMR)	schema
hide	SRX3468791	CpG reads	NeuN / SRX3468791 (CpG reads)	schema
hide	SRX3468791	CpG methylation	NeuN / SRX3468791 (CpG methylation)	schema
hide	SRX3468791	AMR	NeuN / SRX3468791 (AMR)	schema
hide	SRX3468791	PMD	NeuN / SRX3468791 (PMD)	schema
hide	SRX3468791	HMR	NeuN / SRX3468791 (HMR)	schema
hide	SRX3468792	CpG reads	NeuN / SRX3468792 (CpG reads)	schema
hide	SRX3468792	CpG methylation	NeuN / SRX3468792 (CpG methylation)	schema
hide	SRX3468792	AMR	NeuN / SRX3468792 (AMR)	schema
hide	SRX3468792	PMD	NeuN / SRX3468792 (PMD)	schema
hide	SRX3468792	HMR	NeuN / SRX3468792 (HMR)	schema
hide	SRX3468793	CpG reads	NeuN / SRX3468793 (CpG reads)	schema
hide	SRX3468793	CpG methylation	NeuN / SRX3468793 (CpG methylation)	schema
hide	SRX3468793	AMR	NeuN / SRX3468793 (AMR)	schema
hide	SRX3468793	PMD	NeuN / SRX3468793 (PMD)	schema
hide	SRX3468793	HMR	NeuN / SRX3468793 (HMR)	schema
hide	SRX3468794	CpG reads	NeuN / SRX3468794 (CpG reads)	schema
hide	SRX3468794	CpG methylation	NeuN / SRX3468794 (CpG methylation)	schema
hide	SRX3468794	AMR	NeuN / SRX3468794 (AMR)	schema
hide	SRX3468794	PMD	NeuN / SRX3468794 (PMD)	schema
hide	SRX3468794	HMR	NeuN / SRX3468794 (HMR)	schema
hide	SRX3468796	CpG reads	Olig2 / SRX3468796 (CpG reads)	schema
hide	SRX3468796	CpG methylation	Olig2 / SRX3468796 (CpG methylation)	schema
hide	SRX3468796	AMR	Olig2 / SRX3468796 (AMR)	schema
hide	SRX3468796	PMD	Olig2 / SRX3468796 (PMD)	schema
hide	SRX3468796	HMR	Olig2 / SRX3468796 (HMR)	schema
hide	SRX3468797	CpG reads	NeuN / SRX3468797 (CpG reads)	schema
hide	SRX3468797	CpG methylation	NeuN / SRX3468797 (CpG methylation)	schema
hide	SRX3468797	AMR	NeuN / SRX3468797 (AMR)	schema
hide	SRX3468797	PMD	NeuN / SRX3468797 (PMD)	schema
hide	SRX3468797	HMR	NeuN / SRX3468797 (HMR)	schema
hide	SRX3468798	AMR	Olig2 / SRX3468798 (AMR)	schema
hide	SRX3468798	PMD	Olig2 / SRX3468798 (PMD)	schema
hide	SRX3468798	HMR	Olig2 / SRX3468798 (HMR)	schema
hide	SRX3468798	CpG reads	Olig2 / SRX3468798 (CpG reads)	schema
hide	SRX3468798	CpG methylation	Olig2 / SRX3468798 (CpG methylation)	schema
hide	SRX3468799	CpG reads	NeuN / SRX3468799 (CpG reads)	schema
hide	SRX3468799	CpG methylation	NeuN / SRX3468799 (CpG methylation)	schema
hide	SRX3468799	AMR	NeuN / SRX3468799 (AMR)	schema
hide	SRX3468799	PMD	NeuN / SRX3468799 (PMD)	schema
hide	SRX3468799	HMR	NeuN / SRX3468799 (HMR)	schema
hide	SRX3468800	CpG reads	Olig2 / SRX3468800 (CpG reads)	schema
hide	SRX3468800	CpG methylation	Olig2 / SRX3468800 (CpG methylation)	schema
hide	SRX3468800	AMR	Olig2 / SRX3468800 (AMR)	schema
hide	SRX3468800	PMD	Olig2 / SRX3468800 (PMD)	schema
hide	SRX3468800	HMR	Olig2 / SRX3468800 (HMR)	schema
hide	SRX3468801	HMR	Olig2 / SRX3468801 (HMR)	schema
hide	SRX3468801	CpG reads	Olig2 / SRX3468801 (CpG reads)	schema
hide	SRX3468801	CpG methylation	Olig2 / SRX3468801 (CpG methylation)	schema
hide	SRX3468801	AMR	Olig2 / SRX3468801 (AMR)	schema
hide	SRX3468801	PMD	Olig2 / SRX3468801 (PMD)	schema
hide	SRX3468802	CpG reads	Olig2 / SRX3468802 (CpG reads)	schema
hide	SRX3468802	CpG methylation	Olig2 / SRX3468802 (CpG methylation)	schema
hide	SRX3468802	AMR	Olig2 / SRX3468802 (AMR)	schema
hide	SRX3468802	PMD	Olig2 / SRX3468802 (PMD)	schema
hide	SRX3468802	HMR	Olig2 / SRX3468802 (HMR)	schema
hide	SRX3468803	CpG reads	Olig2 / SRX3468803 (CpG reads)	schema
hide	SRX3468803	CpG methylation	Olig2 / SRX3468803 (CpG methylation)	schema
hide	SRX3468803	AMR	Olig2 / SRX3468803 (AMR)	schema
hide	SRX3468803	PMD	Olig2 / SRX3468803 (PMD)	schema
hide	SRX3468803	HMR	Olig2 / SRX3468803 (HMR)	schema
hide	SRX3468804	CpG reads	Olig2 / SRX3468804 (CpG reads)	schema
hide	SRX3468804	CpG methylation	Olig2 / SRX3468804 (CpG methylation)	schema
hide	SRX3468804	AMR	Olig2 / SRX3468804 (AMR)	schema
hide	SRX3468804	PMD	Olig2 / SRX3468804 (PMD)	schema
hide	SRX3468804	HMR	Olig2 / SRX3468804 (HMR)	schema
hide	SRX3468805	CpG reads	Olig2 / SRX3468805 (CpG reads)	schema
hide	SRX3468805	CpG methylation	Olig2 / SRX3468805 (CpG methylation)	schema
hide	SRX3468805	AMR	Olig2 / SRX3468805 (AMR)	schema
hide	SRX3468805	PMD	Olig2 / SRX3468805 (PMD)	schema
hide	SRX3468805	HMR	Olig2 / SRX3468805 (HMR)	schema
hide	SRX3468807	CpG methylation	NeuN / SRX3468807 (CpG methylation)	schema
hide	SRX3468807	AMR	NeuN / SRX3468807 (AMR)	schema
hide	SRX3468807	PMD	NeuN / SRX3468807 (PMD)	schema
hide	SRX3468807	HMR	NeuN / SRX3468807 (HMR)	schema
hide	SRX3468807	CpG reads	NeuN / SRX3468807 (CpG reads)	schema
hide	SRX3468808	CpG reads	Olig2 / SRX3468808 (CpG reads)	schema
hide	SRX3468808	CpG methylation	Olig2 / SRX3468808 (CpG methylation)	schema
hide	SRX3468808	AMR	Olig2 / SRX3468808 (AMR)	schema
hide	SRX3468808	PMD	Olig2 / SRX3468808 (PMD)	schema
hide	SRX3468808	HMR	Olig2 / SRX3468808 (HMR)	schema
hide	SRX3468809	CpG reads	NeuN / SRX3468809 (CpG reads)	schema
hide	SRX3468809	CpG methylation	NeuN / SRX3468809 (CpG methylation)	schema
hide	SRX3468809	AMR	NeuN / SRX3468809 (AMR)	schema
hide	SRX3468809	PMD	NeuN / SRX3468809 (PMD)	schema
hide	SRX3468809	HMR	NeuN / SRX3468809 (HMR)	schema
hide	SRX3468810	AMR	Olig2 / SRX3468810 (AMR)	schema
hide	SRX3468810	HMR	Olig2 / SRX3468810 (HMR)	schema
hide	SRX3468810	CpG reads	Olig2 / SRX3468810 (CpG reads)	schema
hide	SRX3468810	CpG methylation	Olig2 / SRX3468810 (CpG methylation)	schema
hide	SRX3468810	PMD	Olig2 / SRX3468810 (PMD)	schema
hide	SRX3468811	CpG reads	NeuN / SRX3468811 (CpG reads)	schema
hide	SRX3468811	CpG methylation	NeuN / SRX3468811 (CpG methylation)	schema
hide	SRX3468811	AMR	NeuN / SRX3468811 (AMR)	schema
hide	SRX3468811	PMD	NeuN / SRX3468811 (PMD)	schema
hide	SRX3468811	HMR	NeuN / SRX3468811 (HMR)	schema
hide	SRX3468812	CpG reads	NeuN / SRX3468812 (CpG reads)	schema
hide	SRX3468812	CpG methylation	NeuN / SRX3468812 (CpG methylation)	schema
hide	SRX3468812	AMR	NeuN / SRX3468812 (AMR)	schema
hide	SRX3468812	PMD	NeuN / SRX3468812 (PMD)	schema
hide	SRX3468812	HMR	NeuN / SRX3468812 (HMR)	schema
hide	SRX3468813	CpG reads	Olig2 / SRX3468813 (CpG reads)	schema
hide	SRX3468813	CpG methylation	Olig2 / SRX3468813 (CpG methylation)	schema
hide	SRX3468813	AMR	Olig2 / SRX3468813 (AMR)	schema
hide	SRX3468813	PMD	Olig2 / SRX3468813 (PMD)	schema
hide	SRX3468813	HMR	Olig2 / SRX3468813 (HMR)	schema
hide	SRX3468814	CpG reads	Olig2 / SRX3468814 (CpG reads)	schema
hide	SRX3468814	CpG methylation	Olig2 / SRX3468814 (CpG methylation)	schema
hide	SRX3468814	AMR	Olig2 / SRX3468814 (AMR)	schema
hide	SRX3468814	PMD	Olig2 / SRX3468814 (PMD)	schema
hide	SRX3468814	HMR	Olig2 / SRX3468814 (HMR)	schema
hide	SRX3468815	CpG reads	Olig2 / SRX3468815 (CpG reads)	schema
hide	SRX3468815	CpG methylation	Olig2 / SRX3468815 (CpG methylation)	schema
hide	SRX3468815	AMR	Olig2 / SRX3468815 (AMR)	schema
hide	SRX3468815	PMD	Olig2 / SRX3468815 (PMD)	schema
hide	SRX3468815	HMR	Olig2 / SRX3468815 (HMR)	schema
hide	SRX3468816	CpG reads	NeuN / SRX3468816 (CpG reads)	schema
hide	SRX3468816	CpG methylation	NeuN / SRX3468816 (CpG methylation)	schema
hide	SRX3468816	AMR	NeuN / SRX3468816 (AMR)	schema
hide	SRX3468816	PMD	NeuN / SRX3468816 (PMD)	schema
hide	SRX3468816	HMR	NeuN / SRX3468816 (HMR)	schema
hide	SRX3468817	CpG reads	Olig2 / SRX3468817 (CpG reads)	schema
hide	SRX3468817	CpG methylation	Olig2 / SRX3468817 (CpG methylation)	schema
hide	SRX3468817	AMR	Olig2 / SRX3468817 (AMR)	schema
hide	SRX3468817	PMD	Olig2 / SRX3468817 (PMD)	schema
hide	SRX3468817	HMR	Olig2 / SRX3468817 (HMR)	schema
hide	SRX3468818	AMR	Olig2 / SRX3468818 (AMR)	schema
hide	SRX3468818	PMD	Olig2 / SRX3468818 (PMD)	schema
hide	SRX3468818	HMR	Olig2 / SRX3468818 (HMR)	schema
hide	SRX3468818	CpG reads	Olig2 / SRX3468818 (CpG reads)	schema
hide	SRX3468818	CpG methylation	Olig2 / SRX3468818 (CpG methylation)	schema
hide	SRX3468819	CpG reads	Olig2 / SRX3468819 (CpG reads)	schema
hide	SRX3468819	CpG methylation	Olig2 / SRX3468819 (CpG methylation)	schema
hide	SRX3468819	AMR	Olig2 / SRX3468819 (AMR)	schema
hide	SRX3468819	PMD	Olig2 / SRX3468819 (PMD)	schema
hide	SRX3468819	HMR	Olig2 / SRX3468819 (HMR)	schema
hide	SRX3468820	CpG reads	Olig2 / SRX3468820 (CpG reads)	schema
hide	SRX3468820	CpG methylation	Olig2 / SRX3468820 (CpG methylation)	schema
hide	SRX3468820	AMR	Olig2 / SRX3468820 (AMR)	schema
hide	SRX3468820	PMD	Olig2 / SRX3468820 (PMD)	schema
hide	SRX3468820	HMR	Olig2 / SRX3468820 (HMR)	schema
hide	SRX3468821	HMR	Olig2 / SRX3468821 (HMR)	schema
hide	SRX3468821	CpG reads	Olig2 / SRX3468821 (CpG reads)	schema
hide	SRX3468821	CpG methylation	Olig2 / SRX3468821 (CpG methylation)	schema
hide	SRX3468821	AMR	Olig2 / SRX3468821 (AMR)	schema
hide	SRX3468821	PMD	Olig2 / SRX3468821 (PMD)	schema
hide	SRX3468822	CpG reads	Olig2 / SRX3468822 (CpG reads)	schema
hide	SRX3468822	CpG methylation	Olig2 / SRX3468822 (CpG methylation)	schema
hide	SRX3468822	AMR	Olig2 / SRX3468822 (AMR)	schema
hide	SRX3468822	PMD	Olig2 / SRX3468822 (PMD)	schema
hide	SRX3468822	HMR	Olig2 / SRX3468822 (HMR)	schema
hide	SRX3468823	CpG reads	Olig2 / SRX3468823 (CpG reads)	schema
hide	SRX3468823	CpG methylation	Olig2 / SRX3468823 (CpG methylation)	schema
hide	SRX3468823	AMR	Olig2 / SRX3468823 (AMR)	schema
hide	SRX3468823	PMD	Olig2 / SRX3468823 (PMD)	schema
hide	SRX3468823	HMR	Olig2 / SRX3468823 (HMR)	schema
hide	SRX3468824	CpG reads	Olig2 / SRX3468824 (CpG reads)	schema
hide	SRX3468824	CpG methylation	Olig2 / SRX3468824 (CpG methylation)	schema
hide	SRX3468824	AMR	Olig2 / SRX3468824 (AMR)	schema
hide	SRX3468824	PMD	Olig2 / SRX3468824 (PMD)	schema
hide	SRX3468824	HMR	Olig2 / SRX3468824 (HMR)	schema
hide	SRX3468825	CpG reads	NeuN / SRX3468825 (CpG reads)	schema
hide	SRX3468825	CpG methylation	NeuN / SRX3468825 (CpG methylation)	schema
hide	SRX3468825	AMR	NeuN / SRX3468825 (AMR)	schema
hide	SRX3468825	PMD	NeuN / SRX3468825 (PMD)	schema
hide	SRX3468825	HMR	NeuN / SRX3468825 (HMR)	schema
hide	SRX3468826	CpG methylation	Olig2 / SRX3468826 (CpG methylation)	schema
hide	SRX3468826	AMR	Olig2 / SRX3468826 (AMR)	schema
hide	SRX3468826	PMD	Olig2 / SRX3468826 (PMD)	schema
hide	SRX3468826	HMR	Olig2 / SRX3468826 (HMR)	schema
hide	SRX3468826	CpG reads	Olig2 / SRX3468826 (CpG reads)	schema
hide	SRX3468827	CpG reads	NeuN / SRX3468827 (CpG reads)	schema
hide	SRX3468827	CpG methylation	NeuN / SRX3468827 (CpG methylation)	schema
hide	SRX3468827	AMR	NeuN / SRX3468827 (AMR)	schema
hide	SRX3468827	PMD	NeuN / SRX3468827 (PMD)	schema
hide	SRX3468827	HMR	NeuN / SRX3468827 (HMR)	schema
hide	SRX3468828	CpG reads	NeuN / SRX3468828 (CpG reads)	schema
hide	SRX3468828	CpG methylation	NeuN / SRX3468828 (CpG methylation)	schema
hide	SRX3468828	AMR	NeuN / SRX3468828 (AMR)	schema
hide	SRX3468828	PMD	NeuN / SRX3468828 (PMD)	schema
hide	SRX3468828	HMR	NeuN / SRX3468828 (HMR)	schema
hide	SRX3468829	AMR	NeuN / SRX3468829 (AMR)	schema
hide	SRX3468829	HMR	NeuN / SRX3468829 (HMR)	schema
hide	SRX3468829	CpG reads	NeuN / SRX3468829 (CpG reads)	schema
hide	SRX3468829	CpG methylation	NeuN / SRX3468829 (CpG methylation)	schema
hide	SRX3468829	PMD	NeuN / SRX3468829 (PMD)	schema
hide	SRX3468830	CpG reads	NeuN / SRX3468830 (CpG reads)	schema
hide	SRX3468830	CpG methylation	NeuN / SRX3468830 (CpG methylation)	schema
hide	SRX3468830	AMR	NeuN / SRX3468830 (AMR)	schema
hide	SRX3468830	PMD	NeuN / SRX3468830 (PMD)	schema
hide	SRX3468830	HMR	NeuN / SRX3468830 (HMR)	schema
hide	SRX3468832	CpG reads	Olig2 / SRX3468832 (CpG reads)	schema
hide	SRX3468832	CpG methylation	Olig2 / SRX3468832 (CpG methylation)	schema
hide	SRX3468832	AMR	Olig2 / SRX3468832 (AMR)	schema
hide	SRX3468832	PMD	Olig2 / SRX3468832 (PMD)	schema
hide	SRX3468832	HMR	Olig2 / SRX3468832 (HMR)	schema
hide	SRX3468833	CpG reads	Olig2 / SRX3468833 (CpG reads)	schema
hide	SRX3468833	CpG methylation	Olig2 / SRX3468833 (CpG methylation)	schema
hide	SRX3468833	AMR	Olig2 / SRX3468833 (AMR)	schema
hide	SRX3468833	PMD	Olig2 / SRX3468833 (PMD)	schema
hide	SRX3468833	HMR	Olig2 / SRX3468833 (HMR)	schema
hide	SRX3468834	CpG reads	Olig2 / SRX3468834 (CpG reads)	schema
hide	SRX3468834	CpG methylation	Olig2 / SRX3468834 (CpG methylation)	schema
hide	SRX3468834	AMR	Olig2 / SRX3468834 (AMR)	schema
hide	SRX3468834	PMD	Olig2 / SRX3468834 (PMD)	schema
hide	SRX3468834	HMR	Olig2 / SRX3468834 (HMR)	schema
hide	SRX3468835	CpG reads	Olig2 / SRX3468835 (CpG reads)	schema
hide	SRX3468835	CpG methylation	Olig2 / SRX3468835 (CpG methylation)	schema
hide	SRX3468835	AMR	Olig2 / SRX3468835 (AMR)	schema
hide	SRX3468835	PMD	Olig2 / SRX3468835 (PMD)	schema
hide	SRX3468835	HMR	Olig2 / SRX3468835 (HMR)	schema
hide	SRX3468836	CpG reads	Olig2 / SRX3468836 (CpG reads)	schema
hide	SRX3468836	CpG methylation	Olig2 / SRX3468836 (CpG methylation)	schema
hide	SRX3468836	AMR	Olig2 / SRX3468836 (AMR)	schema
hide	SRX3468836	PMD	Olig2 / SRX3468836 (PMD)	schema
hide	SRX3468836	HMR	Olig2 / SRX3468836 (HMR)	schema

Study title: Genome-wide profiling at single-nucleotide resolution of brain cell types in schizophrenia [WGBS]
SRA: SRP126677
GEO: GSE107729
Pubmed: 31288836

Experiment	Label	Methylation	Coverage	HMRs	HMR size	AMRs	AMR size	PMDs	PMD size	Conversion	Title
SRX3468746	NeuN	0.805	17.7	63875	1406.8	11108	994.9	5366	21670.0	0.950	GSM2877162: 1535_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468747	NeuN	0.744	14.5	53131	1268.8	10236	2695.9	4581	18612.8	0.953	GSM2877163: 1516_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468748	NeuN	0.798	13.4	54021	1283.7	6828	949.9	4994	20150.5	0.952	GSM2877164: 1509_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468749	NeuN	0.797	15.6	55355	1258.7	7204	3421.6	4951	20912.2	0.960	GSM2877165: 1519_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468750	NeuN	0.812	13.6	56580	1324.9	6972	945.8	5420	20776.5	0.950	GSM2877166: 1533_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468751	NeuN	0.780	17.0	53202	1288.2	12205	1011.3	4377	20423.0	0.962	GSM2877167: 1537_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468752	NeuN	0.824	29.0	72408	1628.3	9875	940.0	6521	22353.2	0.943	GSM2877168: 1517_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468753	NeuN	0.785	34.0	68840	1489.1	7388	937.7	5107	20145.1	0.943	GSM2877169: 1531_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468754	NeuN	0.763	30.8	71138	1515.7	7249	969.9	5670	19590.9	0.949	GSM2877170: 1534_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468755	NeuN	0.810	30.1	65144	1653.0	14231	1025.6	4932	52028.2	0.953	GSM2877171: 1512_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468756	Olig2	0.785	26.3	77970	1332.0	1609	1025.0	4280	43131.0	0.989	GSM2877172: 1512_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468757	Olig2	0.779	28.7	79921	1308.4	1338	1042.5	4417	43396.4	0.989	GSM2877173: 1523_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468758	NeuN	0.797	25.5	60876	1454.0	14108	1017.3	4883	22259.2	0.951	GSM2877174: 1524_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468759	NeuN	0.816	32.5	71976	1693.5	13194	992.6	5138	48462.7	0.934	GSM2877175: 4336_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468760	NeuN	0.830	34.5	60168	1802.8	20889	1090.1	4706	29311.6	0.904	GSM2877176: 3545_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468761	Olig2	0.799	39.0	77506	1478.2	1508	901.5	4079	30692.7	0.977	GSM2877177: 3545_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468762	NeuN	0.828	38.1	76011	1736.7	13085	978.0	6481	24589.6	0.927	GSM2877178: 3586_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468763	NeuN	0.810	33.0	74245	1860.7	13141	1012.1	4503	63060.4	0.952	GSM2877179: 1505_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468764	Olig2	0.800	37.0	69350	1463.5	5679	972.1	4251	46550.6	0.986	GSM2877180: 1505_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468765	NeuN	0.807	28.9	68697	1613.3	13089	992.3	4714	55203.6	0.947	GSM2877181: 1523_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468766	Olig2	0.793	27.9	80805	1287.1	1098	1079.8	4361	43451.7	0.987	GSM2877182: 4336_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468767	Olig2	0.785	23.1	76574	1229.4	2605	912.4	4402	22789.5	0.990	GSM2877183: 1524_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468768	Olig2	0.798	34.5	84275	1357.9	820	893.9	4319	28170.0	0.987	GSM2877184: 3586_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468769	NeuN	0.815	30.1	74587	1717.8	11127	977.4	4897	55548.9	0.943	GSM2877185: 4361_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468774	Olig2	0.808	39.1	78284	1414.6	1024	891.2	3921	31596.7	0.983	GSM2877190: 1507_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468775	NeuN	0.808	25.1	69766	1626.8	12560	988.6	4258	61643.0	0.954	GSM2877191: 1508_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468776	NeuN	0.820	25.3	66333	1625.4	14229	1018.9	5210	25462.9	0.950	GSM2877192: 1510_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468777	NeuN	0.821	28.5	73799	1692.3	13301	996.8	6047	27861.2	0.949	GSM2877193: 1511_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468778	NeuN	0.821	33.0	67034	1735.3	14955	1033.4	4622	54167.3	0.952	GSM2877194: 1513_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468779	NeuN	0.820	36.5	67174	1732.9	16511	1042.2	5726	24724.0	0.953	GSM2877195: 1514_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468780	NeuN	0.821	34.9	69022	1798.0	13706	1007.5	3998	65705.7	0.953	GSM2877196: 1515_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468781	NeuN	0.817	33.5	71848	1795.6	12863	994.1	4740	57699.6	0.947	GSM2877197: 1518_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468782	NeuN	0.814	33.4	69508	1808.8	14712	1020.9	4460	59770.0	0.950	GSM2877198: 1525_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468783	Olig2	0.803	25.4	79251	1300.3	663	1000.4	3773	30012.2	0.991	GSM2877199: 1511_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468784	NeuN	0.808	31.2	72010	1770.5	13536	997.4	5759	28797.8	0.950	GSM2877200: 1527_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468785	NeuN	0.805	35.4	73770	1783.2	14035	1003.8	4600	57692.0	0.936	GSM2877201: 1532_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468786	NeuN	0.808	30.4	70695	1646.8	13774	996.2	5794	24990.3	0.948	GSM2877202: 1536_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468787	NeuN	0.809	35.1	73704	1700.6	12695	988.7	5051	50227.1	0.944	GSM2877203: 1538_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468788	NeuN	0.808	32.7	69674	1764.5	14073	1006.1	4288	64452.6	0.950	GSM2877204: 1539_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468789	NeuN	0.810	35.0	72658	1728.4	14789	1017.4	5368	48134.7	0.931	GSM2877205: 1541_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468790	NeuN	0.799	40.6	65274	1858.3	19158	1076.3	5240	26513.2	0.951	GSM2877206: 3602_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468791	NeuN	0.819	37.4	68501	1694.3	17095	1014.6	5147	24784.8	0.951	GSM2877207: 3611_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468792	NeuN	0.818	34.9	58519	1654.9	15173	1019.3	4166	55952.5	0.944	GSM2877208: AN03398_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468793	NeuN	0.805	33.3	78125	1763.6	15157	1018.0	5279	48722.4	0.922	GSM2877209: AN15240_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468794	NeuN	0.834	46.6	79170	2210.3	31195	1197.6	5469	31179.5	0.924	GSM2877210: AN16799_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468796	Olig2	0.798	37.4	78557	1385.8	831	896.6	4032	28765.3	0.991	GSM2877212: 4615_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468797	NeuN	0.825	32.6	69534	1624.1	13539	982.9	6308	21486.7	0.947	GSM2877213: AN05483_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468798	Olig2	0.797	33.5	84063	1253.0	720	939.6	4265	24780.6	0.991	GSM2877214: AN05483_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468799	NeuN	0.810	35.6	72628	1763.5	15049	1006.0	6310	24577.0	0.945	GSM2877215: AN10090_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468800	Olig2	0.794	39.1	78730	1433.8	1429	1086.4	4557	41342.1	0.991	GSM2877216: 1532_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468801	Olig2	0.790	37.2	78983	1448.4	1634	1075.2	4367	47139.2	0.991	GSM2877217: 1539_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468802	Olig2	0.791	28.3	87030	1238.4	511	927.3	3193	33580.7	0.990	GSM2877218: AN10090_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468803	Olig2	0.787	43.2	80969	1479.2	1106	900.9	3953	30734.7	0.992	GSM2877219: 1527_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468804	Olig2	0.802	25.7	83674	1279.0	483	946.1	4011	30137.9	0.981	GSM2877220: 1536_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468805	Olig2	0.789	38.2	76258	1389.0	2857	1003.0	5132	33057.0	0.990	GSM2877221: 1538_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468807	NeuN	0.839	25.8	63567	1612.6	10663	961.8	5546	25719.5	0.939	GSM2877223: 4395_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468808	Olig2	0.798	33.3	81835	1332.0	709	923.7	4329	28335.4	0.989	GSM2877224: 4395_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468809	NeuN	0.801	22.4	70541	1571.7	13915	1006.0	5339	25185.1	0.916	GSM2877225: 4504_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468810	Olig2	0.784	27.9	78557	1365.9	1521	1101.8	4197	46844.7	0.991	GSM2877226: AN17799_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468811	NeuN	0.815	40.8	71070	1840.7	14465	997.3	5743	28026.4	0.947	GSM2877227: 4448_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468812	NeuN	0.821	34.6	67713	1636.0	13236	987.1	5801	23784.4	0.948	GSM2877228: 3590_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468813	Olig2	0.807	30.5	78860	1465.2	10871	1081.2	3866	32079.1	0.930	GSM2877229: 3590_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468814	Olig2	0.800	42.0	73579	1469.5	4547	941.4	4137	29746.0	0.980	GSM2877230: 1520_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468815	Olig2	0.795	37.5	83283	1495.9	1435	1036.2	3683	57648.9	0.976	GSM2877231: 1525_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468816	NeuN	0.809	32.1	72650	1830.2	14217	1016.2	4592	59850.0	0.950	GSM2877232: AN17799_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468817	Olig2	0.800	37.7	77852	1483.9	1976	885.0	3975	31473.9	0.970	GSM2877233: 4448_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468818	Olig2	0.792	37.3	76624	1341.3	789	936.5	3904	27876.4	0.990	GSM2877234: 4504_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468819	Olig2	0.801	42.7	80250	1437.9	1068	903.0	4229	27819.7	0.990	GSM2877235: 3602_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468820	Olig2	0.813	43.0	82240	1426.0	5222	971.3	4043	29982.2	0.942	GSM2877236: 3611_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468821	Olig2	0.791	46.0	78546	1532.0	1054	916.0	3822	31969.0	0.989	GSM2877237: 4804_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468822	Olig2	0.793	43.9	80480	1495.5	1635	1060.0	4927	40842.7	0.991	GSM2877238: AN03398_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468823	Olig2	0.785	44.2	79347	1569.2	1706	1071.6	4241	47315.1	0.989	GSM2877239: AN15240_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468824	Olig2	0.783	48.1	82933	1586.4	3501	873.7	3998	29610.8	0.989	GSM2877240: AN16799_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468825	NeuN	0.799	43.7	82802	1785.7	9136	951.3	6588	25334.9	0.947	GSM2877241: 4804_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468826	Olig2	0.795	43.8	81717	1358.9	809	940.3	3776	28084.1	0.986	GSM2877242: Miami0001_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468827	NeuN	0.819	38.5	64824	1723.4	14557	1009.1	5491	26953.8	0.955	GSM2877243: AN09634_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468828	NeuN	0.811	39.3	71366	1783.3	13228	1001.8	5181	48627.2	0.950	GSM2877244: 4730_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468829	NeuN	0.798	29.6	57182	1481.3	11424	961.3	4030	26465.1	0.965	GSM2877245: AN18099_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468830	NeuN	0.813	29.6	71166	1511.9	8888	941.2	6174	21246.8	0.948	GSM2877246: 1521_WGBS_NeuN; Homo sapiens; Bisulfite-Seq
SRX3468832	Olig2	0.795	35.4	79484	1435.7	1716	1052.5	4720	42436.5	0.990	GSM2877248: 1513_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468833	Olig2	0.787	38.7	77852	1362.3	1456	920.4	4204	24851.5	0.988	GSM2877249: 1514_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468834	Olig2	0.794	34.6	80180	1414.0	1072	1098.9	4015	52168.5	0.989	GSM2877250: 1515_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468835	Olig2	0.780	35.6	81198	1450.0	1382	1111.4	3929	53264.2	0.989	GSM2877251: 1518_WGBS_Olig2; Homo sapiens; Bisulfite-Seq
SRX3468836	Olig2	0.806	34.2	78103	1391.6	527	1022.0	3925	30700.8	0.989	GSM2877252: AN18099_WGBS_Olig2; Homo sapiens; Bisulfite-Seq

Methods

All analysis was done using a bisulfite sequnecing data analysis pipeline DNMTools developed in the Smith lab at USC.

Mapping reads from bisulfite sequencing: Bisulfite treated reads are mapped to the genomes with the abismal program. Input reads are filtered by their quality, and adapter sequences in the 3' end of reads are trimmed. This is done with cutadapt. Uniquely mapped reads with mismatches/indels below given threshold are retained. For pair-end reads, if the two mates overlap, the overlapping part of the mate with lower quality is discarded. After mapping, we use the format command in dnmtools to merge mates for paired-end reads. We use the dnmtools uniq command to randomly select one from multiple reads mapped exactly to the same location. Without random oligos as UMIs, this is our best indication of PCR duplicates.

Estimating methylation levels: After reads are mapped and filtered, the dnmtools counts command is used to obtain read coverage and estimate methylation levels at individual cytosine sites. We count the number of methylated reads (those containing a C) and the number of unmethylated reads (those containing a T) at each nucleotide in a mapped read that corresponds to a cytosine in the reference genome. The methylation level of that cytosine is estimated as the ratio of methylated to total reads covering that cytosine. For cytosines in the symmetric CpG sequence context, reads from the both strands are collapsed to give a single estimate. Very rarely do the levels differ between strands (typically only if there has been a substitution, as in a somatic mutation), and this approach gives a better estimate.

Bisulfite conversion rate: The bisulfite conversion rate for an experiment is estimated with the dnmtools bsrate command, which computes the fraction of successfully converted nucleotides in reads (those read out as Ts) among all nucleotides in the reads mapped that map over cytosines in the reference genome. This is done either using a spike-in (e.g., lambda), the mitochondrial DNA, or the nuclear genome. In the latter case, only non-CpG sites are used. While this latter approach can be impacted by non-CpG cytosine methylation, in practice it never amounts to much.

Identifying hypomethylated regions (HMRs): In most mammalian cells, the majority of the genome has high methylation, and regions of low methylation are typically the interesting features. (This seems to be true for essentially all healthy differentiated cell types, but not cells of very early embryogenesis, various germ cells and precursors, and placental lineage cells.) These are valleys of low methylation are called hypomethylated regions (HMR) for historical reasons. To identify the HMRs, we use the dnmtools hmr command, which uses a statistical model that accounts for both the methylation level fluctations and the varying amounts of data available at each CpG site.

Partially methylated domains: Partially methylated domains are large genomic regions showing partial methylation observed in immortalized cell lines and cancerous cells. The pmd program is used to identify PMDs.

Allele-specific methylation: Allele-Specific methylated regions refers to regions where the parental allele is differentially methylated compared to the maternal allele. The program allelic is used to compute allele-specific methylation score can be computed for each CpG site by testing the linkage between methylation status of adjacent reads, and the program amrfinder is used to identify regions with allele-specific methylation.

For more detailed description of the methods of each step, please refer to the DNMTools documentation.