Hi,
I am working on MayoRNAseq data and have problems with Cerebellum raw data, while Temporal cortex fastq files (syn8612203) are fine.
Cerebellum fastq files (syn8612213) have 74 corrupted out of 546 files detected by FastQC program.
Thank you for any help.
Best,
Chunling
Created by Chunling Zhang czh18 Excellent, thank you. We will investigate this further on our end. Thanks Abby for the information.
I have downloaded the 275 bam files ( syn5049322) to work with.
Below is my list of corrupted fastq files (syn8612213) in case it's helpful for others.
Best,
Chunling
1000_CER.FCC7KUNACXX_L5IATCACG.r1.fastq.gz
1010_CER.FCC7DJAACXX_L5ITTAGGC.r1.fastq.gz
1029_CER.FCC7L0WACXX_L2IGGCTAC.r2.fastq.gz
1036_CER.FCC7KUNACXX_L6IGGCTAC.r1.fastq.gz
1036_CER.FCC7KUNACXX_L6IGGCTAC.r2.fastq.gz
1058_CER.FCC7L0WACXX_L4IATTCCT.r1.fastq.gz
1058_CER.FCC7L0WACXX_L4IATTCCT.r2.fastq.gz
1085_CER.FCC79ETACXX_L1IACTTGA.r2.fastq.gz
1104_CER.FCC7KUNACXX_L4IACTGAT.r1.fastq.gz
1104_CER.FCC7KUNACXX_L4IACTGAT.r2.fastq.gz
11285_CER.FCC7L0WACXX_L3ICGTACG.r2.fastq.gz
11288_CER.FCC7KUNACXX_L2IGATCAG.r1.fastq.gz
11288_CER.FCC7KUNACXX_L2IGATCAG.r2.fastq.gz
1129_CER.FCC7L2YACXX_L8IGGCTAC.r1.fastq.gz
11300_CER.FCC7L0WACXX_L7IGTTTCG.r1.fastq.gz
11300_CER.FCC7L0WACXX_L7IGTTTCG.r2.fastq.gz
11303_CER.FCC7L0WACXX_L2ITAGCTT.r1.fastq.gz
11303_CER.FCC7L0WACXX_L2ITAGCTT.r2.fastq.gz
11374_CER.FCC7KRCACXX_L4IACTGAT.r1.fastq.gz
11374_CER.FCC7KRCACXX_L4IACTGAT.r2.fastq.gz
11396_CER.FCC7KUNACXX_L7IGTTTCG.r2.fastq.gz
11456_CER.FCC7KRCACXX_L6ITAGCTT.r1.fastq.gz
11456_CER.FCC7KRCACXX_L6ITAGCTT.r2.fastq.gz
11460_CER.FCC79ALACXX_L6ITTAGGC.r1.fastq.gz
1146_CER.FCC7KRCACXX_L7IGTTTCG.r1.fastq.gz
11491_CER.FCC7KKVACXX_L2ITAGCTT.r2.fastq.gz
11494_CER.FCC7KUNACXX_L1IACTTGA.r1.fastq.gz
11494_CER.FCC7KUNACXX_L1IACTTGA.r2.fastq.gz
11497_CER.FCC7L0WACXX_L1IATCACG.r1.fastq.gz
11497_CER.FCC7L0WACXX_L1IATCACG.r2.fastq.gz
11500_CER.FCC7KUNACXX_L4IATTCCT.r1.fastq.gz
11500_CER.FCC7KUNACXX_L4IATTCCT.r2.fastq.gz
11505_CER.FCC7L0WACXX_L5ITTAGGC.r1.fastq.gz
11507_CER.FCC7L0WACXX_L2IGATCAG.r1.fastq.gz
1169_CER.FCC7L0WACXX_L7ICGTACG.r1.fastq.gz
1169_CER.FCC7L0WACXX_L7ICGTACG.r2.fastq.gz
1214_CER.FCC7KRCACXX_L4IATTCCT.r1.fastq.gz
1214_CER.FCC7KRCACXX_L4IATTCCT.r2.fastq.gz
142_CER.FCC7L0WACXX_L8IACTGAT.r1.fastq.gz
142_CER.FCC7L0WACXX_L8IACTGAT.r2.fastq.gz
1933_CER.FCC7KUNACXX_L1ITTAGGC.r1.fastq.gz
1933_CER.FCC7KUNACXX_L1ITTAGGC.r2.fastq.gz
1934_CER.FCC7E15ACXX_L4IACTGAT.r1.fastq.gz
1963_CER.FCC7KRCACXX_L7IGTGGCC.r1.fastq.gz
1963_CER.FCC7KRCACXX_L7IGTGGCC.r2.fastq.gz
6821_CER.FCC7KKVACXX_L8IATTCCT.r1.fastq.gz
6821_CER.FCC7KKVACXX_L8IATTCCT.r2.fastq.gz
6880_CER.FCC7L0WACXX_L4IACTGAT.r2.fastq.gz
7015_CER.FCC7KUNACXX_L6ITAGCTT.r2.fastq.gz
725_CER.FCC7L0WACXX_L1IACTTGA.r1.fastq.gz
725_CER.FCC7L0WACXX_L1IACTTGA.r2.fastq.gz
732_CER.FCC7BMUACXX_L8IGAGTGG.r1.fastq.gz
732_CER.FCC7BMUACXX_L8IGAGTGG.r2.fastq.gz
751_CER.FCC7KUNACXX_L8IACTGAT.r1.fastq.gz
751_CER.FCC7KUNACXX_L8IACTGAT.r2.fastq.gz
775_CER.FCC7DRJACXX_L5IACTTGA.r1.fastq.gz
775_CER.FCC7DRJACXX_L5IACTTGA.r2.fastq.gz
777_CER.FCC7L2YACXX_L7ITAGCTT.r1.fastq.gz
777_CER.FCC7L2YACXX_L7ITAGCTT.r2.fastq.gz
785_CER.FCC7KRCACXX_L7ICGTACG.r2.fastq.gz
786_CER.FCC7L0WACXX_L6IGGCTAC.r1.fastq.gz
786_CER.FCC7L0WACXX_L6IGGCTAC.r2.fastq.gz
791_CER.FCC7L0WACXX_L1ITTAGGC.r1.fastq.gz
791_CER.FCC7L0WACXX_L1ITTAGGC.r2.fastq.gz
797_CER.FCC7BMUACXX_L8IATTCCT.r1.fastq.gz
797_CER.FCC7BMUACXX_L8IATTCCT.r2.fastq.gz
813_CER.FCC7L0WACXX_L5IACTTGA.r1.fastq.gz
813_CER.FCC7L0WACXX_L5IACTTGA.r2.fastq.gz
816_CER.FCC7L0WACXX_L7IGTGGCC.r1.fastq.gz
816_CER.FCC7L0WACXX_L7IGTGGCC.r2.fastq.gz
851_CER.FCC7KUNACXX_L5IACTTGA.r1.fastq.gz
851_CER.FCC7KUNACXX_L5IACTTGA.r2.fastq.gz
871_CER.FCC79ALACXX_L6IACTTGA.r2.fastq.gz
991_CER.FCC7KUNACXX_L3ICGTACG.r1.fastq.gz
@wpoehlm Do you have any information about the corrupted fastq files from the original rnaSeqReprocessing study?
@czh18 In the meantime, we just released additional harmonized gene counts from reads aligned to the GRCh38 genome build across the Mayo, MSBB, and ROSMAP studies, which you can find here: https://adknowledgeportal.synapse.org/Explore/Studies/DetailsPage?Study=syn21241740, in case that is helpful to you.
Drop files to upload
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