Parse SPLiT-seq

sparse gene count matrix

tar

intermediate analysis

multiplexed sample: Mus musculus AJ (male, 69 days) epididymis tissue; Mus musculus PWK/PhJ (female, 69 days) oviduct tissue; ... and 190 more samples

Mus musculus multiplexed sample of adrenal gland, epididymis, ovary, oviduct, testis, cellular sub pool(s): 008B_67B

Parse SPLiT-seq

Parse SPLiT-seq

sparse gene count matrix

tar

intermediate analysis

multiplexed sample: Mus musculus NOD/ShiLtJ (female, 72 days) pituitary gland tissue; Mus musculus CAST/EiJ (female, 69 days) pituitary gland tissue; ... and 254 more samples

Mus musculus multiplexed sample of epididymis, hypothalamus, ovary, oviduct, pituitary gland, testis, cellular sub pool(s): 007_67A

Parse SPLiT-seq

10x multiome with MULTI-seq

GRCh38

index, cell hashing barcodes, fragments, peaks, raw feature barcode matrix

tbi, tsv, bed, hdf5

intermediate analysis

/institutional-certificates/e5598331-9e7c-4bd5-8e7b-64d5a4529006/, /institutional-certificates/f37dfa73-f4f1-4bfe-a312-9eade62d5988/

multiplexed sample: Homo sapiens (female) H7-hESC differentiated cell specimen; Homo sapiens (male) GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 6 days; ... and 10 more samples

Homo sapiens multiplexed sample of GM25256 (WTC-11), H7-hESC

single-nucleus ATAC-seq (10x multiome with MULTI-seq), single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)

scRNA-seq

filtered feature barcode matrix

hdf5

intermediate analysis

multiplexed sample: Homo sapiens (male) B differentiated cell specimen induced to plasmablast for 2 days; Homo sapiens (male) B differentiated cell specimen induced to plasmablast for 6 days; ... and 2 more samples

Homo sapiens multiplexed sample of B cell

scRNA-seq

Parse SPLiT-seq

sparse gene count matrix

tar

intermediate analysis

multiplexed sample: Mus musculus NOD/ShiLtJ (female, 72 days) pituitary gland tissue; Mus musculus CAST/EiJ (female, 69 days) pituitary gland tissue; ... and 254 more samples

Mus musculus multiplexed sample of epididymis, hypothalamus, ovary, oviduct, pituitary gland, testis, cellular sub pool(s): 007_67C

Parse SPLiT-seq

intermediate analysis

Unspecified assay

Parse SPLiT-seq

sparse gene count matrix

tar

intermediate analysis

multiplexed sample: Mus musculus NOD/ShiLtJ (female, 72 days) pituitary gland tissue; Mus musculus CAST/EiJ (female, 69 days) pituitary gland tissue; ... and 190 more samples

Mus musculus multiplexed sample of hypothalamus, liver, pituitary gland, cellular sub pool(s): 005_67A

Parse SPLiT-seq

lentiMPRA

hg19

reporter genomic variant effects

tsv

principal analysis

Homo sapiens (male) H1-hESC pooled differentiated cell specimen induced to glutamatergic neuron for 7 days transduced (lentivirus) with a reporter library

Homo sapiens H1-hESC pooled differentiated cell specimen induced to glutamatergic neuron, at 7 day(s) post change, transfected with a reporter library

lentiMPRA integrating a reporter library targeting histone modifications, transcription start sites, phenotype-associated variants genome-wide associated with autism spectrum disorder

HiCAR

contact matrix

mcool, cool

intermediate analysis

Homo sapiens (male) GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 42 days treated with 1 μM Endothelin-1 for 3 days, transduced (lentivirus) with a guide library

Homo sapiens GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell, at 42 day(s) post change, perturbed with 1 μM Endothelin-1 for 3 days, transfected with a guide library

CRISPR HiCAR integrating a guide (sgRNA) library targeting accessible genome regions in a genomic locus

ATAC-seq

GRCh38

fold change over control, peak quantifications, alignments

tsv, bam

principal analysis

Homo sapiens CD8-positive, alpha-beta memory T cell treated with 300 percent Antibody Coated Bead for 14 days, transduced (lentivirus) with a expression vector library

Homo sapiens CD8-positive, alpha-beta memory T primary cell, stimulated with 300 percent Antibody Coated Bead for 14 days, transfected with a expression vector library

ATAC-seq integrating an expression vector library of BATF3 and a reference transduction expression vector library with reference transduction control

Parse SPLiT-seq

sparse gene count matrix

tar

intermediate analysis

multiplexed sample: Mus musculus NZO/H1LtJ (male, 69 days) left hippocampal formation tissue; Mus musculus 129S1J (male, 72 days) left hippocampal formation tissue; ... and 190 more samples

Mus musculus multiplexed sample of heart, left cerebral cortex, left hippocampal formation, right cerebral cortex, right hippocampal formation, cellular sub pool(s): 003_67K

Parse SPLiT-seq

Parse SPLiT-seq

sparse gene count matrix

tar

intermediate analysis

multiplexed sample: Mus musculus NZO/H1LtJ (male, 69 days) left hippocampal formation tissue; Mus musculus 129S1J (male, 72 days) left hippocampal formation tissue; ... and 190 more samples

Mus musculus multiplexed sample of heart, left cerebral cortex, left hippocampal formation, right cerebral cortex, right hippocampal formation, cellular sub pool(s): 003_67H

Parse SPLiT-seq

Perturb-seq

sparse gene count matrix, filtered feature barcode matrix, raw feature barcode matrix

h5ad, hdf5, pkl

principal analysis

Homo sapiens (male) GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW265) modified with CRISPRi Sp-dCas9, 3 week(s) after transfection with a guide library, Homo sapiens (male) GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW267) modified with CRISPRi Sp-dCas9, 3 week(s) after transfection with a guide library, Homo sapiens (male) GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW268) modified with CRISPRi Sp-dCas9, 3 week(s) after transfection with a guide library, Homo sapiens (male) GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW261) modified with CRISPRi Sp-dCas9, 3 week(s) after transfection with a guide library, Homo sapiens (male) GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW264) modified with CRISPRi Sp-dCas9, 3 week(s) after transfection with a guide library, Homo sapiens (male) GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW262) modified with CRISPRi Sp-dCas9, 3 week(s) after transfection with a guide library, Homo sapiens (male) GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW263) modified with CRISPRi Sp-dCas9, 3 week(s) after transfection with a guide library, Homo sapiens (male) GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW266) modified with CRISPRi Sp-dCas9, 3 week(s) after transfection with a guide library

Homo sapiens GM25256 (WTC-11) differentiated cell specimen induced to cardiac muscle cell, at 12 day(s) post change, modified with CRISPRi Sp-dCas9, transfected with a guide library, cellular sub pool(s): subpool_LW261, subpool_LW262, subpool_LW263, subpool_LW264, subpool_LW265, subpool_LW266, subpool_LW267, subpool_LW268

CRISPR interference Perturb-seq integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci

Perturb-seq

GRCh38

sparse gene count matrix, filtered feature barcode matrix, raw feature barcode matrix, unfiltered local differential expression, unfiltered global differential expression

h5ad, hdf5, pkl, csv

principal analysis

Homo sapiens (female) H9 differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW423) modified with CRISPRi Sp-dCas9, transduced (lentivirus) with a guide library, Homo sapiens (female) H9 differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW422) modified with CRISPRi Sp-dCas9, transduced (lentivirus) with a guide library, Homo sapiens (female) H9 differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW421) modified with CRISPRi Sp-dCas9, transduced (lentivirus) with a guide library, Homo sapiens (female) H9 differentiated cell specimen induced to cardiac muscle cell for 12 days (cellular sub pool: subpool_LW424) modified with CRISPRi Sp-dCas9, transduced (lentivirus) with a guide library

Homo sapiens H9 differentiated cell specimen induced to cardiac muscle cell, at 12 day(s) post change, modified with CRISPRi Sp-dCas9, transfected with a guide library, cellular sub pool(s): subpool_LW421, subpool_LW422, subpool_LW423, subpool_LW424

CRISPR interference Perturb-seq integrating a guide (sgRNA) library targeting accessible genome regions in many genomic loci

Parse SPLiT-seq

sparse gene count matrix

tar

intermediate analysis

multiplexed sample: Mus musculus NZO/H1LtJ (female, 69 days) gastrocnemius tissue; Mus musculus NZO/H1LtJ (male, 69 days) left hippocampal formation tissue; ... and 190 more samples

Mus musculus multiplexed sample of gastrocnemius, left cerebral cortex, left hippocampal formation, right cerebral cortex, right hippocampal formation, cellular sub pool(s): 011_67I

Parse SPLiT-seq

Parse SPLiT-seq

sparse gene count matrix

tar

intermediate analysis

multiplexed sample: Mus musculus CAST/EiJ (male, 69 days) liver tissue; Mus musculus 129S1J (female, 72 days) heart tissue; ... and 126 more samples

Mus musculus multiplexed sample of heart, liver, cellular sub pool(s): 004_67H

Parse SPLiT-seq

Parse SPLiT-seq

sparse gene count matrix

tar

intermediate analysis

multiplexed sample: Mus musculus NZO/H1LtJ (female, 69 days) gastrocnemius tissue; Mus musculus WSB/EiJ (male, 69 days) kidney tissue; ... and 126 more samples

Mus musculus multiplexed sample of gastrocnemius, kidney, cellular sub pool(s): 010_67F

Parse SPLiT-seq

Parse SPLiT-seq

sparse gene count matrix

tar

intermediate analysis

multiplexed sample: Mus musculus NOD/ShiLtJ (female, 72 days) pituitary gland tissue; Mus musculus CAST/EiJ (female, 69 days) pituitary gland tissue; ... and 190 more samples

Mus musculus multiplexed sample of hypothalamus, liver, pituitary gland, cellular sub pool(s): 005_67L

Parse SPLiT-seq

SHARE-seq

GRCm39

alignments, fragments, sparse gene count matrix, index, kallisto single cell RNAseq output

bam, bed, h5ad, tbi, bai, tar

intermediate analysis

Mus musculus C57BL/6 (female) brain tissue (cellular sub pool: SS-PKR 129)

Mus musculus brain tissue, cellular sub pool(s): SS-PKR 129

single-cell ATAC-seq (SHARE-seq), single-cell RNA sequencing assay (SHARE-seq)

SHARE-seq

GRCm39

sparse gene count matrix, index, alignments, fragments, kallisto single cell RNAseq output

h5ad, tbi, bam, bed, bai, tar

intermediate analysis

Mus musculus C57BL/6 brain tissue (cellular sub pool: SS-PKR 434)

Mus musculus brain tissue, cellular sub pool(s): SS-PKR 434

single-cell ATAC-seq (SHARE-seq), single-cell RNA sequencing assay (SHARE-seq)

Parse SPLiT-seq

sparse gene count matrix

tar

intermediate analysis

multiplexed sample: Mus musculus AJ (male, 69 days) epididymis tissue; Mus musculus PWK/PhJ (female, 69 days) oviduct tissue; ... and 190 more samples

Mus musculus multiplexed sample of adrenal gland, epididymis, ovary, oviduct, testis, cellular sub pool(s): 008_67F

Parse SPLiT-seq

Proliferation CRISPR screen

guide quantifications

csv

principal analysis

Homo sapiens (female) TeloHAEC cell line modified with CRISPRi Sp-dCas9-KOX1-KRAB, transduced (lentivirus) with a guide library

Homo sapiens TeloHAEC cell line, modified with CRISPRi Sp-dCas9-KOX1-KRAB, transfected with a guide library

Proliferation CRISPR interference screen integrating a guide (sgRNA) library targeting phenotype-associated variants genome-wide associated with blood pressure

Parse SPLiT-seq

sparse gene count matrix

tar

intermediate analysis

multiplexed sample: Mus musculus NOD/ShiLtJ (female, 72 days) pituitary gland tissue; Mus musculus CAST/EiJ (female, 69 days) pituitary gland tissue; ... and 190 more samples

Mus musculus multiplexed sample of hypothalamus, liver, pituitary gland, cellular sub pool(s): 005_67K

Parse SPLiT-seq

10x multiome with MULTI-seq

GRCh38

peaks, index, raw feature barcode matrix, fragments, cell hashing barcodes

bed, tbi, hdf5, tsv

intermediate analysis

/institutional-certificates/42937768-65a6-47ee-9d4c-6d3829c7f279/, /institutional-certificates/e5598331-9e7c-4bd5-8e7b-64d5a4529006/, /institutional-certificates/e7a2058d-80fb-46ee-be82-c4d8b26d01ec/, /institutional-certificates/eaf8c672-701d-4aee-9108-8d64c472d20e/

multiplexed sample: Homo sapiens (female) H9 differentiated cell specimen induced to neuron for 6 days; Homo sapiens (female) H9 differentiated cell specimen induced to neuron for 6 days; ... and 6 more samples

Homo sapiens multiplexed sample of GM25256 (WTC-11), H1-hESC, H9, HEK293T

single-nucleus ATAC-seq (10x multiome with MULTI-seq), single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)

CRISPR FACS screen

custom

guide quantifications, fold change over control, alignments

csv, tsv, bam

principal analysis

Homo sapiens CD8-positive, alpha-beta memory T cell (sorting details: FACS bin for 0-10% expression of CCR7) modified with CRISPRa Sa-dCas9-VP64, transduced (lentivirus) with a guide library (MOI of 0.4), Homo sapiens CD8-positive, alpha-beta memory T cell (sorting details: FACS bin for 90-100% expression of CCR7) modified with CRISPRa Sa-dCas9-VP64, transduced (lentivirus) with a guide library (MOI of 0.4)

Homo sapiens CD8-positive, alpha-beta memory T primary cell, modified with CRISPRa Sa-dCas9-VP64, transfected with a guide library, sorted on expression of CCR7

CRISPR activation FACS screen targeting CCR7 integrating a guide (sgRNA) library targeting transcription start sites in many genes with low FACS signal control