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65 series

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Accession	Title	Series type(s)	Organism(s)	Samples	Supplementary	Contact	Release date
Filter		Methylation profiling by high throughput sequencing	Oryza sativa
GSE19602	Global Epigenetic and Transcriptional Trends among Two Rice Subspecies and Their Reciprocal Hybrids.	Non-coding RNA profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Expression profiling by high throughput sequencing Methylation profiling by high throughput sequencing	Oryza sativa	24	BED TAR SRA Run Selector	guangming he	Jan 20, 2010
GSE111944	Characterization of functional relationships of R-loops with gene transcription and epigenetic modifications in rice	Methylation profiling by high throughput sequencing Other	Oryza sativa	10	BED TXT SRA Run Selector	Fang Yuan	Mar 07, 2019
GSE126444	Evolution of heterochromatin and heterochromatin genes in the Oryza genomes reveals a new heterochromatin-euchromatin boundary	Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Methylation profiling by high throughput sequencing Non-coding RNA profiling by high throughput sequencing	Leersia perrieri Oryza brachyantha Oryza glaberrima Oryza punctata Oryza sativa Oryza sativa Japonica Group Sorghum bicolor	47	BED BEDGRAPH FPKM_TRACKING	Lei Li	Dec 02, 2020
GSE144562	Reorganization of 3D chromatin architecture of rice genomes during heat stress (Bisulfite-seq)	Methylation profiling by high throughput sequencing	Oryza sativa	8	BED SRA Run Selector	Xiaofeng Gu	Feb 26, 2021
GSE155269	OsChz1 acts as a histone chaperone in modulating chromatin organization and genome function in rice	Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Methylation profiling by high throughput sequencing	Oryza sativa	34	BED BIGWIG COV	Liufan Yin	Oct 15, 2020
GSE160884	Plant DNA methylation sensitive to parent seed N content and mediated the influence of external nitrogen on OsNAR2.1 overexpression rice growth	Methylation profiling by high throughput sequencing	Oryza sativa	8	BED SRA Run Selector	Xiaorong Fan	Sep 15, 2021
GSE217602	Evolution of lmiRNAs and their targets from MITEs for rice adaptation	Expression profiling by high throughput sequencing Methylation profiling by high throughput sequencing	Oryza sativa	12	BED BW	Yijun Qi	Nov 01, 2023
GSE117187	Whole-genome bisulfite sequencing of wild-type and thick aleurone 2-1 (ta2-1) mutant in rice	Methylation profiling by high throughput sequencing	Oryza sativa	3	BEDGRAPH SRA Run Selector	Jinxin Liu	Nov 14, 2018
GSE95107	DNA demethylation activates genes in seed maternal integument development in rice (Oryza sativa L.)	Methylation profiling by high throughput sequencing	Oryza sativa	6	BIGWIG TXT SRA Run Selector	Jian zhang	Oct 10, 2017
GSE180333	RNA Polymerase IV sensitises the chromatin via histone modifications modulating protein coding genes [MethylC-Seq]	Methylation profiling by high throughput sequencing	Oryza sativa	5	BIGWIG BW SRA Run Selector	Shivaprasad Padubidri V.	Feb 28, 2023
GSE180457	RNA Polymerase IV sensitises the chromatin via histone modifications modulating protein coding genes	Genome binding/occupancy profiling by high throughput sequencing Other Methylation profiling by high throughput sequencing Expression profiling by high throughput sequencing Non-coding RNA profiling by high throughput sequencing	Oryza sativa	50	BIGWIG BW TXT	Shivaprasad Padubidri V.	Feb 28, 2023
GSE229961	Upstream regulator of genomic imprinting in rice is a small RNA-associated chromatin remodeler	Non-coding RNA profiling by high throughput sequencing Expression profiling by high throughput sequencing Methylation profiling by high throughput sequencing	Oryza sativa	14	BIGWIG FA TXT	Shivaprasad Padubidri V.	Jul 27, 2024
GSE108777	N6-Methyladenine DNA Methylation in Japonica and Indica Rice Genomes and Its Association with Gene Expression, Plant Development, and Stress Responses [MeDIP-seq 93-11]	Methylation profiling by high throughput sequencing	Oryza sativa	3	BW SRA Run Selector	Xiaofeng Gu	Dec 10, 2018
GSE108781	N6-Methyladenine DNA Methylation in Japonica and Indica Rice Genomes and Its Association with Gene Expression, Plant Development, and Stress Responses [MeDIP-seq Nipponbare]	Methylation profiling by high throughput sequencing	Oryza sativa	3	BW SRA Run Selector	Xiaofeng Gu	Dec 10, 2018
GSE108784	N6-Methyladenine DNA Methylation in Japonica and Indica Rice Genomes and Its Association with Gene Expression, Plant Development, and Stress Responses	Expression profiling by high throughput sequencing Methylation profiling by high throughput sequencing	Oryza sativa	22	BW GFF TXT	Xiaofeng Gu	Dec 10, 2018
GSE116581	fruitENCODE: An encyclopedia of DNA elements for fruit ripening	Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Methylation profiling by high throughput sequencing	Arabidopsis thaliana Carica papaya Citrullus lanatus Cucumis melo Cucumis sativus Fragaria vesca Malus domestica Musa acuminata AAA Group Oryza sativa Prunus persica Pyrus x bretschneideri Solanum lycopersicum Vitis vinifera	282	BW NARROWPEAK TBI TXT SRA Run Selector	Silin Zhong	Jul 04, 2018
GSE129979	Antibody-free enzyme-assisted chemical approach for detection of N6-methyladenosine	Methylation profiling by high throughput sequencing	Homo sapiens Oryza sativa	16	BW SRA Run Selector	Ye Wang	Apr 22, 2020
GSE142568	Integrative analysis of reference epigenomes in rice [BiSulfite-seq]	Methylation profiling by high throughput sequencing	Oryza sativa	38	BW SRA Run Selector	Liang Xie	Apr 25, 2020
GSE142570	Integrative analysis of reference epigenomes in rice	Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Methylation profiling by high throughput sequencing	Oryza sativa	513	BW TXT	Liang Xie	Apr 25, 2020
GSE143724	Diurnal 3D genome organization remodeling orchestrates rhythmic gene expression in rice	Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Methylation profiling by high throughput sequencing	Oryza sativa	154	BW TXT	Baibai Gao	Dec 24, 2021