IGVF

/

File

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Content Type

reads
9608
seqspec
831
regulatory_regions
414
variants_variants
184
alignments
56
contact matrix
40
variants
27
variants_regulatory_regions
27
sample sort parameters
26
coding_variants
25

File Format

fastq
9608
yaml
831
bed
442
csv
211
tsv
91
bam
77
vcf
52
tar
22
cool
20
mcool
20

File Format Type

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

Assembly

GRCh38
786
custom
61
GRCm39
17
mm10
1

Transcriptome Annotation

GENCODE 43
1
GENCODE M32
1
GENCODE M33
1

Sequencing Platform

Illumina NextSeq 550
8059
Illumina HiSeq 2500
726
Illumina NextSeq 2000
312
Illumina NextSeq 500
212
Illumina NovaSeq 6000
150
Illumina MiSeq
138
ONT GridION X5
20
ONT PromethION 2 Solo
2

11450 items

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
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
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
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
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
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
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
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
SequenceFile
IGVFFI1956EMDR
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
IGVFFI2908NAIM
fastq - reads - R2
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
IGVFFI1340BULZ
fastq - reads
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
released
validated
ConfigurationFile
IGVFFI0714MTNO
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
IGVFFI1411ZGTO
released
validated
ConfigurationFile
IGVFFI8240YUYH
yaml - seqspec
Jay Shendure, UW
File Set
scATAC-seq
Seqspec Of
IGVFFI8821SFDV, IGVFFI4136YACE, IGVFFI0014UJDI, IGVFFI2437FQNY
released
validated
SequenceFile
IGVFFI3750JGII
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
IGVFFI3469NFLH
fastq - reads
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
released
validated
SequenceFile
IGVFFI2905KIJB
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
ConfigurationFile
IGVFFI5228SMZU
yaml - seqspec
Ali Mortazavi, UCI
File Set
Parse SPLiT-seq
Seqspec Of
IGVFFI5241MPKQ, IGVFFI0800JAPD
released
validated
ConfigurationFile
IGVFFI8969XVTD
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
IGVFFI0721XHEB
released
validated
SequenceFile
IGVFFI5160NESU
fastq - reads - I2
Jay Shendure, UW
File Set
scCRISPR activation screen integrating a guide (sgRNA) library targeting TF binding sites, candidate cis-regulatory elements in many genomic loci
released
validated