ZMAT3-BGRSDLV02-61_S53_L001_R1_001.filtered.trimmed.paired.fastq.gz | ENCODE_DATA/set65/fastq_trimmed | fastq | reads | knockdown followed by RNA-seq | Graveley Lab | 2721 | NovaSeq6000 | 100 | paired-ended | 1 | | | | NT-BGRSDLV02-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGRSDLV02-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz | ENCORE2 | | 8794 |
ZMAT3-BGRSDLV02-61_S53_L001_R2_001.filtered.trimmed.paired.fastq.gz | ENCODE_DATA/set65/fastq_trimmed | fastq | reads | knockdown followed by RNA-seq | Graveley Lab | 2721 | NovaSeq6000 | 100 | paired-ended | 2 | | | | NT-BGRSDLV02-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGRSDLV02-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz | ENCORE2 | | 8870 |
ZMAT3-BGRSDLV02-61_Aligned.sortedByCoord.out.bam | ENCODE_DATA/set65/STAR_ENCORE2_trimmed_file_links | bam | alignments | knockdown followed by RNA-seq | Graveley Lab | 2721 | | | | | GRCh38 | V40 | ZMAT3-BGRSDLV02-61_S53_L001_R1_001.filtered.trimmed.paired.fastq.gz,ZMAT3-BGRSDLV02-61_S53_L001_R2_001.filtered.trimmed.paired.fastq.gz | | ENCORE2 | | 9359 |
ZMAT3-BGRSDLV02-61_Signal.Unique.strand+.bw | ENCODE_DATA/set65/STAR_ENCORE2_trimmed_file_links | bigWig+unique | plus strand signal of unique reads | knockdown followed by RNA-seq | Graveley Lab | 2721 | | | | | GRCh38 | V40 | ZMAT3-BGRSDLV02-61/Aligned.sortedByCoord.out.bam | | ENCORE2 | | 9435 |
ZMAT3-BGRSDLV02-61_Signal.Unique.strand-.bw | ENCODE_DATA/set65/STAR_ENCORE2_trimmed_file_links | bigWig-unique | minus strand signal of unique reads | knockdown followed by RNA-seq | Graveley Lab | 2721 | | | | | GRCh38 | V40 | ZMAT3-BGRSDLV02-61/Aligned.sortedByCoord.out.bam | | ENCORE2 | | 9511 |
ZMAT3-BGRSDLV02-61_Signal.UniqueMultiple.strand+.bw | ENCODE_DATA/set65/STAR_ENCORE2_trimmed_file_links | bigWig+all | plus strand signal of all reads | knockdown followed by RNA-seq | Graveley Lab | 2721 | | | | | GRCh38 | V40 | ZMAT3-BGRSDLV02-61/Aligned.sortedByCoord.out.bam | | ENCORE2 | | 9587 |
ZMAT3-BGRSDLV02-61_Signal.UniqueMultiple.strand-.bw | ENCODE_DATA/set65/STAR_ENCORE2_trimmed_file_links | bigWig-all | minus strand signal of all reads | knockdown followed by RNA-seq | Graveley Lab | 2721 | | | | | GRCh38 | V40 | ZMAT3-BGRSDLV02-61/Aligned.sortedByCoord.out.bam | | ENCORE2 | | 9663 |
ZMAT3-BGRSDLV02-61_quant.sf | ENCODE_DATA/set65/salmon_ENCORE2 | transcript_quantification | transcript quantifications | knockdown followed by RNA-seq | Graveley Lab | 2721 | | | | | GRCh38 | V40 | ZMAT3-BGRSDLV02-61_S53_L001_R1_001.filtered.trimmed.paired.fastq.gz,ZMAT3-BGRSDLV02-61_S53_L001_R2_001.filtered.trimmed.paired.fastq.gz | | ENCORE2 | | 9739 |
ZMAT3-BGRSDLV02-62_S54_L001_R1_001.filtered.trimmed.paired.fastq.gz | ENCODE_DATA/set65/fastq_trimmed | fastq | reads | knockdown followed by RNA-seq | Graveley Lab | 2722 | NovaSeq6000 | 100 | paired-ended | 1 | | | | NT-BGRSDLV02-1_S1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGRSDLV02-2_S2_L001_R1_001.filtered.trimmed.paired.fastq.gz | ENCORE2 | | 8795 |
ZMAT3-BGRSDLV02-62_S54_L001_R2_001.filtered.trimmed.paired.fastq.gz | ENCODE_DATA/set65/fastq_trimmed | fastq | reads | knockdown followed by RNA-seq | Graveley Lab | 2722 | NovaSeq6000 | 100 | paired-ended | 2 | | | | NT-BGRSDLV02-1_S1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGRSDLV02-2_S2_L001_R2_001.filtered.trimmed.paired.fastq.gz | ENCORE2 | | 8871 |
ZMAT3-BGRSDLV02-62_Aligned.sortedByCoord.out.bam | ENCODE_DATA/set65/STAR_ENCORE2_trimmed_file_links | bam | alignments | knockdown followed by RNA-seq | Graveley Lab | 2722 | | | | | GRCh38 | V40 | ZMAT3-BGRSDLV02-62_S54_L001_R1_001.filtered.trimmed.paired.fastq.gz,ZMAT3-BGRSDLV02-62_S54_L001_R2_001.filtered.trimmed.paired.fastq.gz | | ENCORE2 | | 9360 |
ZMAT3-BGRSDLV02-62_Signal.Unique.strand+.bw | ENCODE_DATA/set65/STAR_ENCORE2_trimmed_file_links | bigWig+unique | plus strand signal of unique reads | knockdown followed by RNA-seq | Graveley Lab | 2722 | | | | | GRCh38 | V40 | ZMAT3-BGRSDLV02-62/Aligned.sortedByCoord.out.bam | | ENCORE2 | | 9436 |
ZMAT3-BGRSDLV02-62_Signal.Unique.strand-.bw | ENCODE_DATA/set65/STAR_ENCORE2_trimmed_file_links | bigWig-unique | minus strand signal of unique reads | knockdown followed by RNA-seq | Graveley Lab | 2722 | | | | | GRCh38 | V40 | ZMAT3-BGRSDLV02-62/Aligned.sortedByCoord.out.bam | | ENCORE2 | | 9512 |
ZMAT3-BGRSDLV02-62_Signal.UniqueMultiple.strand+.bw | ENCODE_DATA/set65/STAR_ENCORE2_trimmed_file_links | bigWig+all | plus strand signal of all reads | knockdown followed by RNA-seq | Graveley Lab | 2722 | | | | | GRCh38 | V40 | ZMAT3-BGRSDLV02-62/Aligned.sortedByCoord.out.bam | | ENCORE2 | | 9588 |
ZMAT3-BGRSDLV02-62_Signal.UniqueMultiple.strand-.bw | ENCODE_DATA/set65/STAR_ENCORE2_trimmed_file_links | bigWig-all | minus strand signal of all reads | knockdown followed by RNA-seq | Graveley Lab | 2722 | | | | | GRCh38 | V40 | ZMAT3-BGRSDLV02-62/Aligned.sortedByCoord.out.bam | | ENCORE2 | | 9664 |
ZMAT3-BGRSDLV02-62_quant.sf | ENCODE_DATA/set65/salmon_ENCORE2 | transcript_quantification | transcript quantifications | knockdown followed by RNA-seq | Graveley Lab | 2722 | | | | | GRCh38 | V40 | ZMAT3-BGRSDLV02-62_S54_L001_R1_001.filtered.trimmed.paired.fastq.gz,ZMAT3-BGRSDLV02-62_S54_L001_R2_001.filtered.trimmed.paired.fastq.gz | | ENCORE2 | | 9740 |