SRPRA-BGHcLV36-39_S11_L001_R1_001.filtered.trimmed.paired.fastq.gz | ENCODE_DATA/set55/fastq_trimmed | fastq | reads | knockdown followed by RNA-seq | Graveley Lab | 2255 | NovaSeq6000 | 100 | paired-ended | 1 | | | | NT-BGHcLV36-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV36-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz | ENCORE2 | | 8410 |
SRPRA-BGHcLV36-39_S11_L001_R2_001.filtered.trimmed.paired.fastq.gz | ENCODE_DATA/set55/fastq_trimmed | fastq | reads | knockdown followed by RNA-seq | Graveley Lab | 2255 | NovaSeq6000 | 100 | paired-ended | 2 | | | | NT-BGHcLV36-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV36-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz | ENCORE2 | | 8460 |
SRPRA-BGHcLV36-39_Aligned.sortedByCoord.out.bam | ENCODE_DATA/set55/STAR_ENCORE2_trimmed_file_links | bam | alignments | knockdown followed by RNA-seq | Graveley Lab | 2255 | | | | | GRCh38 | V40 | SRPRA-BGHcLV36-39_S11_L001_R1_001.filtered.trimmed.paired.fastq.gz,SRPRA-BGHcLV36-39_S11_L001_R2_001.filtered.trimmed.paired.fastq.gz | | ENCORE2 | | 25651 |
SRPRA-BGHcLV36-39_Signal.Unique.strand+.bw | ENCODE_DATA/set55/STAR_ENCORE2_trimmed_file_links | bigWig+unique | plus strand signal of unique reads | knockdown followed by RNA-seq | Graveley Lab | 2255 | | | | | GRCh38 | V40 | SRPRA-BGHcLV36-39/Aligned.sortedByCoord.out.bam | | ENCORE2 | | 25701 |
SRPRA-BGHcLV36-39_Signal.Unique.strand-.bw | ENCODE_DATA/set55/STAR_ENCORE2_trimmed_file_links | bigWig-unique | minus strand signal of unique reads | knockdown followed by RNA-seq | Graveley Lab | 2255 | | | | | GRCh38 | V40 | SRPRA-BGHcLV36-39/Aligned.sortedByCoord.out.bam | | ENCORE2 | | 25751 |
SRPRA-BGHcLV36-39_Signal.UniqueMultiple.strand+.bw | ENCODE_DATA/set55/STAR_ENCORE2_trimmed_file_links | bigWig+all | plus strand signal of all reads | knockdown followed by RNA-seq | Graveley Lab | 2255 | | | | | GRCh38 | V40 | SRPRA-BGHcLV36-39/Aligned.sortedByCoord.out.bam | | ENCORE2 | | 25801 |
SRPRA-BGHcLV36-39_Signal.UniqueMultiple.strand-.bw | ENCODE_DATA/set55/STAR_ENCORE2_trimmed_file_links | bigWig-all | minus strand signal of all reads | knockdown followed by RNA-seq | Graveley Lab | 2255 | | | | | GRCh38 | V40 | SRPRA-BGHcLV36-39/Aligned.sortedByCoord.out.bam | | ENCORE2 | | 25851 |
SRPRA-BGHcLV36-39_quant.sf | ENCODE_DATA/set55/salmon_ENCORE2 | transcript_quantification | transcript quantifications | knockdown followed by RNA-seq | Graveley Lab | 2255 | | | | | GRCh38 | V40 | SRPRA-BGHcLV36-39_S11_L001_R1_001.filtered.trimmed.paired.fastq.gz,SRPRA-BGHcLV36-39_S11_L001_R2_001.filtered.trimmed.paired.fastq.gz | | ENCORE2 | | 25901 |
SRPRA-BGHcLV36-40_S12_L001_R1_001.filtered.trimmed.paired.fastq.gz | ENCODE_DATA/set55/fastq_trimmed | fastq | reads | knockdown followed by RNA-seq | Graveley Lab | 2256 | NovaSeq6000 | 100 | paired-ended | 1 | | | | NT-BGHcLV36-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV36-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz | ENCORE2 | | 8411 |
SRPRA-BGHcLV36-40_S12_L001_R2_001.filtered.trimmed.paired.fastq.gz | ENCODE_DATA/set55/fastq_trimmed | fastq | reads | knockdown followed by RNA-seq | Graveley Lab | 2256 | NovaSeq6000 | 100 | paired-ended | 2 | | | | NT-BGHcLV36-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGHcLV36-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz | ENCORE2 | | 8461 |
SRPRA-BGHcLV36-40_Aligned.sortedByCoord.out.bam | ENCODE_DATA/set55/STAR_ENCORE2_trimmed_file_links | bam | alignments | knockdown followed by RNA-seq | Graveley Lab | 2256 | | | | | GRCh38 | V40 | SRPRA-BGHcLV36-40_S12_L001_R1_001.filtered.trimmed.paired.fastq.gz,SRPRA-BGHcLV36-40_S12_L001_R2_001.filtered.trimmed.paired.fastq.gz | | ENCORE2 | | 25652 |
SRPRA-BGHcLV36-40_Signal.Unique.strand+.bw | ENCODE_DATA/set55/STAR_ENCORE2_trimmed_file_links | bigWig+unique | plus strand signal of unique reads | knockdown followed by RNA-seq | Graveley Lab | 2256 | | | | | GRCh38 | V40 | SRPRA-BGHcLV36-40/Aligned.sortedByCoord.out.bam | | ENCORE2 | | 25702 |
SRPRA-BGHcLV36-40_Signal.Unique.strand-.bw | ENCODE_DATA/set55/STAR_ENCORE2_trimmed_file_links | bigWig-unique | minus strand signal of unique reads | knockdown followed by RNA-seq | Graveley Lab | 2256 | | | | | GRCh38 | V40 | SRPRA-BGHcLV36-40/Aligned.sortedByCoord.out.bam | | ENCORE2 | | 25752 |
SRPRA-BGHcLV36-40_Signal.UniqueMultiple.strand+.bw | ENCODE_DATA/set55/STAR_ENCORE2_trimmed_file_links | bigWig+all | plus strand signal of all reads | knockdown followed by RNA-seq | Graveley Lab | 2256 | | | | | GRCh38 | V40 | SRPRA-BGHcLV36-40/Aligned.sortedByCoord.out.bam | | ENCORE2 | | 25802 |
SRPRA-BGHcLV36-40_Signal.UniqueMultiple.strand-.bw | ENCODE_DATA/set55/STAR_ENCORE2_trimmed_file_links | bigWig-all | minus strand signal of all reads | knockdown followed by RNA-seq | Graveley Lab | 2256 | | | | | GRCh38 | V40 | SRPRA-BGHcLV36-40/Aligned.sortedByCoord.out.bam | | ENCORE2 | | 25852 |
SRPRA-BGHcLV36-40_quant.sf | ENCODE_DATA/set55/salmon_ENCORE2 | transcript_quantification | transcript quantifications | knockdown followed by RNA-seq | Graveley Lab | 2256 | | | | | GRCh38 | V40 | SRPRA-BGHcLV36-40_S12_L001_R1_001.filtered.trimmed.paired.fastq.gz,SRPRA-BGHcLV36-40_S12_L001_R2_001.filtered.trimmed.paired.fastq.gz | | ENCORE2 | | 25902 |