HSPA9-BGKcLV42-43_L001_R1_001.filtered.trimmed.paired.fastq.gz | ENCODE_DATA/set73/fastq_trimmed | fastq | reads | knockdown followed by RNA-seq | Graveley Lab | 3173 | NovaSeq6000 | 100 | paired-ended | 1 | | | | NT-BGKcLV42-1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV42-2_L001_R1_001.filtered.trimmed.paired.fastq.gz | ENCORE2 | | 30374 |
HSPA9-BGKcLV42-43_L001_R2_001.filtered.trimmed.paired.fastq.gz | ENCODE_DATA/set73/fastq_trimmed | fastq | reads | knockdown followed by RNA-seq | Graveley Lab | 3173 | NovaSeq6000 | 100 | paired-ended | 2 | | | | NT-BGKcLV42-1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV42-2_L001_R2_001.filtered.trimmed.paired.fastq.gz | ENCORE2 | | 30464 |
HSPA9-BGKcLV42-43_Aligned.sortedByCoord.out.bam | ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links | bam | alignments | knockdown followed by RNA-seq | Graveley Lab | 3173 | | | | | GRCh38 | V40 | HSPA9-BGKcLV42-43_L001_R1_001.filtered.trimmed.paired.fastq.gz,HSPA9-BGKcLV42-43_L001_R2_001.filtered.trimmed.paired.fastq.gz | | ENCORE2 | | 31306 |
HSPA9-BGKcLV42-43_Signal.UniqueMultiple.strand-.bw | ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links | bigWig-all | minus strand signal of all reads | knockdown followed by RNA-seq | Graveley Lab | 3173 | | | | | GRCh38 | V40 | HSPA9-BGKcLV42-43_Aligned.sortedByCoord.out.bam | | ENCORE2 | | 31396 |
HSPA9-BGKcLV42-43_Signal.UniqueMultiple.strand+.bw | ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links | bigWig+all | plus strand signal of all reads | knockdown followed by RNA-seq | Graveley Lab | 3173 | | | | | GRCh38 | V40 | HSPA9-BGKcLV42-43_Aligned.sortedByCoord.out.bam | | ENCORE2 | | 31486 |
HSPA9-BGKcLV42-43_Signal.Unique.strand-.bw | ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links | bigWig-unique | minus strand signal of unique reads | knockdown followed by RNA-seq | Graveley Lab | 3173 | | | | | GRCh38 | V40 | HSPA9-BGKcLV42-43_Aligned.sortedByCoord.out.bam | | ENCORE2 | | 31576 |
HSPA9-BGKcLV42-43_Signal.Unique.strand+.bw | ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links | bigWig+unique | plus strand signal of unique reads | knockdown followed by RNA-seq | Graveley Lab | 3173 | | | | | GRCh38 | V40 | HSPA9-BGKcLV42-43_Aligned.sortedByCoord.out.bam | | ENCORE2 | | 31666 |
HSPA9-BGKcLV42-43_quant.sf | ENCODE_DATA/set73/salmon_ENCORE2_file_links | transcript_quantification | transcript quantifications | knockdown followed by RNA-seq | Graveley Lab | 3173 | | | | | GRCh38 | V40 | HSPA9-BGKcLV42-43_L001_R1_001.filtered.trimmed.paired.fastq.gz,HSPA9-BGKcLV42-43_L001_R2_001.filtered.trimmed.paired.fastq.gz | | ENCORE2 | | 31756 |
HSPA9-BGKcLV42-44_L001_R1_001.filtered.trimmed.paired.fastq.gz | ENCODE_DATA/set73/fastq_trimmed | fastq | reads | knockdown followed by RNA-seq | Graveley Lab | 3174 | NovaSeq6000 | 100 | paired-ended | 1 | | | | NT-BGKcLV42-1_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV42-2_L001_R1_001.filtered.trimmed.paired.fastq.gz | ENCORE2 | | 30375 |
HSPA9-BGKcLV42-44_L001_R2_001.filtered.trimmed.paired.fastq.gz | ENCODE_DATA/set73/fastq_trimmed | fastq | reads | knockdown followed by RNA-seq | Graveley Lab | 3174 | NovaSeq6000 | 100 | paired-ended | 2 | | | | NT-BGKcLV42-1_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV42-2_L001_R2_001.filtered.trimmed.paired.fastq.gz | ENCORE2 | | 30465 |
HSPA9-BGKcLV42-44_Aligned.sortedByCoord.out.bam | ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links | bam | alignments | knockdown followed by RNA-seq | Graveley Lab | 3174 | | | | | GRCh38 | V40 | HSPA9-BGKcLV42-44_L001_R1_001.filtered.trimmed.paired.fastq.gz,HSPA9-BGKcLV42-44_L001_R2_001.filtered.trimmed.paired.fastq.gz | | ENCORE2 | | 31307 |
HSPA9-BGKcLV42-44_Signal.UniqueMultiple.strand-.bw | ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links | bigWig-all | minus strand signal of all reads | knockdown followed by RNA-seq | Graveley Lab | 3174 | | | | | GRCh38 | V40 | HSPA9-BGKcLV42-44_Aligned.sortedByCoord.out.bam | | ENCORE2 | | 31397 |
HSPA9-BGKcLV42-44_Signal.UniqueMultiple.strand+.bw | ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links | bigWig+all | plus strand signal of all reads | knockdown followed by RNA-seq | Graveley Lab | 3174 | | | | | GRCh38 | V40 | HSPA9-BGKcLV42-44_Aligned.sortedByCoord.out.bam | | ENCORE2 | | 31487 |
HSPA9-BGKcLV42-44_Signal.Unique.strand-.bw | ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links | bigWig-unique | minus strand signal of unique reads | knockdown followed by RNA-seq | Graveley Lab | 3174 | | | | | GRCh38 | V40 | HSPA9-BGKcLV42-44_Aligned.sortedByCoord.out.bam | | ENCORE2 | | 31577 |
HSPA9-BGKcLV42-44_Signal.Unique.strand+.bw | ENCODE_DATA/set73/STAR_ENCORE2_trimmed_file_links | bigWig+unique | plus strand signal of unique reads | knockdown followed by RNA-seq | Graveley Lab | 3174 | | | | | GRCh38 | V40 | HSPA9-BGKcLV42-44_Aligned.sortedByCoord.out.bam | | ENCORE2 | | 31667 |
HSPA9-BGKcLV42-44_quant.sf | ENCODE_DATA/set73/salmon_ENCORE2_file_links | transcript_quantification | transcript quantifications | knockdown followed by RNA-seq | Graveley Lab | 3174 | | | | | GRCh38 | V40 | HSPA9-BGKcLV42-44_L001_R1_001.filtered.trimmed.paired.fastq.gz,HSPA9-BGKcLV42-44_L001_R2_001.filtered.trimmed.paired.fastq.gz | | ENCORE2 | | 31757 |