IGVF

/

File

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Content Type

reads
14386
seqspec
831
regulatory_regions
414
variants_variants
184
alignments
56
contact matrix
40
sparse gene count matrix
30
variants
29
variants_regulatory_regions
27
sample sort parameters
26

File Format

fastq
14386
yaml
831
bed
442
csv
228
tsv
97
bam
77
vcf
54
tar
22
cool
20
h5ad
20

File Format Type

bed3+
434
bed9+
3
mpra_starr
3
bed3
1
bed6
1

Assembly

GRCh38
791
custom
61
GRCm39
17
mm10
1

Transcriptome Annotation

GENCODE 43
1
GENCODE M32
1
GENCODE M33
1

Sequencing Platform

Illumina NextSeq 550
8082
Illumina NovaSeq X
3560
Illumina NextSeq 2000
952
Illumina HiSeq 2500
726
Illumina NovaSeq 6000
570
Illumina NextSeq 500
294
Illumina MiSeq
138
Illumina NovaSeq X Plus
52
ONT GridION X5
20
ONT PromethION 2 Solo
2
ONT PromethION
1

16292 items

SequenceFile
IGVFFI4067OVRO
fastq - reads - I1
Jesse Engreitz, Stanford
File Set
CRISPR interference Perturb-seq integrating a guide (sgRNA) library targeting genes in many genomic loci
preview
validated
SequenceFile
IGVFFI1165AJSO
fastq - reads - I2
Jesse Engreitz, Stanford
File Set
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
released
validated
SequenceFile
IGVFFI2309FCAH
fastq - reads - R2
Jesse Engreitz, Stanford
File Set
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
released
validated
SequenceFile
IGVFFI6229GGKZ
fastq - reads - R1
Jesse Engreitz, Stanford
File Set
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
released
validated
SequenceFile
IGVFFI9141IFTT
fastq - reads - R1
Jesse Engreitz, Stanford
File Set
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
released
validated
SequenceFile
IGVFFI5295OHTL
fastq - reads - I1
Jay Shendure, UW
File Set
gRNA sequencing for scCRISPR activation screen integrating a guide (sgRNA) library targeting TF binding sites, candidate cis-regulatory elements in many genomic loci
released
validated
SequenceFile
IGVFFI9170ZKMQ
fastq - reads - R1
Jesse Engreitz, Stanford
File Set
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
preview
validated
SequenceFile
IGVFFI1792RKRX
fastq - reads - R1
Jesse Engreitz, Stanford
File Set
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
released
validated
SequenceFile
IGVFFI4256CQHO
fastq - reads - R2
Jesse Engreitz, Stanford
File Set
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
preview
validated
SequenceFile
IGVFFI6599VIPD
fastq - reads - I2
Jesse Engreitz, Stanford
File Set
unsorted FACS input CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
released
validated
SequenceFile
IGVFFI7164IWPZ
fastq - reads - R3
Jay Shendure, UW
File Set
quantification DNA barcode sequencing for MPRA integrating a reporter library targeting accessible genome regions in many genomic loci
released
validated
SequenceFile
IGVFFI6643UJDK
fastq - reads - I2
Jesse Engreitz, Stanford
File Set
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
preview
validated
SequenceFile
IGVFFI8554OPUE
fastq - reads - R1
Jesse Engreitz, Stanford
File Set
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
released
validated
SequenceFile
IGVFFI2364WFHK
fastq - reads - I2
Gary Hon, UT
File Set
CRISPR interference Perturb-seq integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci
preview
validated
SequenceFile
IGVFFI5126QCHA
fastq - reads - I1
Jesse Engreitz, Stanford
File Set
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
preview
validated
SequenceFile
IGVFFI2796VWCV
fastq - reads - R2
Jesse Engreitz, Stanford
File Set
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
released
validated
SequenceFile
IGVFFI2756EFLJ
fastq - reads - R1
Gary Hon, UT
File Set
gRNA sequencing for CRISPR interference Perturb-seq integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci
preview
validated
ConfigurationFile
IGVFFI7248KXML
yaml - seqspec
Jesse Engreitz, Stanford
File Set
gRNA sequencing for mixed CRISPR FlowFISH screen integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci
Seqspec Of
IGVFFI8964HZGC
released
validated
SequenceFile
IGVFFI8709YHGT
fastq - reads - I2
Jesse Engreitz, Stanford
File Set
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
preview
validated
SequenceFile
IGVFFI1587BLSX
fastq - reads - R2
Gary Hon, UT
File Set
cell hashing barcode sequencing for CRISPR interference Perturb-seq integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci
preview
validated
SequenceFile
IGVFFI5968EMNM
fastq - reads - R1
Gary Hon, UT
File Set
CRISPR interference Perturb-seq integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci
preview
validated
SequenceFile
IGVFFI1163QCXS
fastq - reads - I1
Jesse Engreitz, Stanford
File Set
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
released
validated
SequenceFile
IGVFFI7103JDWM
fastq - reads - I2
Jesse Engreitz, Stanford
File Set
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
released
validated
SequenceFile
IGVFFI1840UZRL
fastq - reads - I1
Jesse Engreitz, Stanford
File Set
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
preview
validated
SequenceFile
IGVFFI1089XLDA
fastq - reads - I1
Jesse Engreitz, Stanford
File Set
CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus
released
validated