Indonesian RNA-seq data

Transcription data were collected to study patterns of functional variation across the broad geography of Indonesia. The region has extremely diverse populations, with very different demographic histories and multiple genetic ancestries. This dataset reports high-throughput RNA-sequencing data for individuals from three islands spanning this geographical region: Mentawai, Sumba and West Papua.

Type: Other
Archiver: European Genome-Phenome Archive (EGA)

1 Dataset 4 Publications

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD00001005053	This dataset contains 4 batches of Indonesian RNA-seq data from Mentawai, New Guinea and Sumba islands. One RNA-seq batch was prepared without Globin depletion, and three batches were Globin depleted using the Illumina Globin-Zero Gold Kit. There are 179 runs in total, including 119 unique samples. Dataset includes multiple batch control samples.	Illumina HiSeq 2500	179

Publications	Citations
Genome-wide DNA methylation and gene expression patterns reflect genetic ancestry and environmental differences across the Indonesian archipelago. Natri HM, Bobowik KS, Kusuma P, Crenna Darusallam C, Jacobs GS, Hudjashov G, Lansing JS, Sudoyo H, Banovich NE, Cox MP, Gallego Romero I. PLoS Genet 16: 2020 e1008749	21
Genetic architecture of gene regulation in Indonesian populations identifies QTLs associated with global and local ancestries. Natri HM, Hudjashov G, Jacobs G, Kusuma P, Saag L, Darusallam CC, Metspalu M, Sudoyo H, Cox MP, Gallego Romero I, Banovich NE. Am J Hum Genet 109: 2022 50-65	10
Profiling genetically driven alternative splicing across the Indonesian archipelago. Ibeh N, Kusuma P, Crenna Darusallam C, Malik SG, Sudoyo H, McCarthy DJ, Gallego Romero I. Am J Hum Genet 111: 2024 2458-2477	0
Analyzing sex imbalance in EGA and dbGaP biological databases: Recommendations for better practices. Ruiz-Serra V, Buslón N, Philippe OR, Saby D, Morales M, Pontes C, Andirkó AM, Holliday GL, Jené A, Moldes M, Rambla J, Valencia A, Rementeria MJ, Cortés A, Cirillo D. iScience 27: 2024 110831	0