10x Library

Datasets

Single Cell CNV Datasets

Breast Tumor Tissue Dataset

Cell Ranger DNA 1.1.0

Breast Tissue nuclei section A 2000 cells

Breast Tissue nuclei section B 2000 cells

Breast Tissue nuclei section C 2000 cells

Breast Tissue nuclei section D 2000 cells

Breast Tissue nuclei section E 2000 cells

Aggregate of Breast Tissue Nuclei Sections 10K Cells

Cell Ranger DNA 1.0.0

Breast Tissue nuclei section D 2000 cells

Breast Tissue nuclei section B 2000 cells

Breast Tissue nuclei section C 2000 cells

Breast Tissue nuclei section A 2000 cells

Breast Tissue nuclei section E 2000 cells

Single Cell DNA Demonstration

Cell Ranger DNA 1.1.0

1k BJ with 1% MKN-45 Spike-In

BJ with 10% MKN-45 Spike-In

1k Nuclei from BJ Fibroblast Euploid Cell Line

5k MKN-45 Gastric Cancer Cell Line

1k Cells from BJ Fibroblast Euploid Cell Line

Cell Ranger DNA 1.0.0

1k BJ with 1% MKN-45 Spike-In

BJ with 10% MKN-45 Spike-In

1k Nuclei from BJ Fibroblast Euploid Cell Line

5k MKN-45 Gastric Cancer Cell Line

1k Cells from BJ Fibroblast Euploid Cell Line

Single Cell Gene Expression Datasets

Chromium Demonstration (v3 Chemistry)

Cell Ranger 3.0.0

1k PBMCs from a Healthy Donor – Gene Expression and Cell Surface Protein

10k PBMCs from a Healthy Donor – Gene Expression and Cell Surface Protein

10k Cells from a MALT Tumor – Gene Expression and Cell Surface Protein

1k PBMCs from a Healthy Donor (v2 chemistry)

1k PBMCs from a Healthy Donor (v3 chemistry)

10k PBMCs from a Healthy Donor (v3 chemistry)

1k 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells (v2 chemistry)

1k 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells (v3 chemistry)

5k 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells (v3 chemistry)

10k 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells (v3 chemistry)

1k Brain Cells from an E18 Mouse (v2 chemistry)

1k Brain Cells from an E18 Mouse (v3 chemistry)

10k Brain Cells from an E18 Mouse (v3 chemistry)

1k Heart Cells from an E18 mouse (v2 chemistry)

1k Heart Cells from an E18 mouse (v3 chemistry)

10k Heart Cells from an E18 mouse (v3 chemistry)

Chromium Demonstration (v2 Chemistry)

Cell Ranger 2.1.0

100 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

1k 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

6k 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

12k 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

4k PBMCs from a Healthy Donor

8k PBMCs from a Healthy Donor

9k Brain Cells from an E18 Mouse

1k Brain Cells from an E18 Mouse

1k Brain Nuclei from an E18 Mouse

2k Brain Nuclei from an Adult Mouse (>8 weeks)

2k Brain Cells from an E18 Mouse

2k Fixed Brain Cells from an E18 Mouse

2k Fixed (for 6 days at -80ºC) Brain Cells from an E18 Mouse

3k Pan T Cells from a Healthy Donor

4k Pan T Cells from a Healthy Donor

Aggregate of t_3k and t_4k

Cell Ranger 2.0.1

100 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

1k Brain Cells from an E18 Mouse

2k Brain Nuclei from an Adult Mouse (>8 weeks)

1k Brain Nuclei from an E18 Mouse

1k 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

6k 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

12k 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

4k PBMCs from a Healthy Donor

8k PBMCs from a Healthy Donor

9k Brain Cells from an E18 Mouse

3k Pan T Cells from a Healthy Donor

4k Pan T Cells from a Healthy Donor

Aggregate of t_3k and t_4k

Cell Ranger 1.3.0

100 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

1k 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

6k 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

12k 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

4k PBMCs from a Healthy Donor

8k PBMCs from a Healthy Donor

9k Brain Cells from an E18 Mouse

3k Pan T Cells from a Healthy Donor

4k Pan T Cells from a Healthy Donor

Aggregate of t_3k and t_4k

Cell Ranger 1.2.0

100 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

1k 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

6k 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

12k 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

4k PBMCs from a Healthy Donor

8k PBMCs from a Healthy Donor

9k Brain Cells from an E18 Mouse

3k Pan T Cells from a Healthy Donor

4k Pan T Cells from a Healthy Donor

Aggregate of t_3k and t_4k

Chromium Megacell Demonstration (v2 Chemistry)

Cell Ranger 1.3.0

1.3 Million Brain Cells from E18 Mice

Cell Ranger 1.2.0

1.3 Million Brain Cells from E18 Mice

Chromium Demonstration (v1 Chemistry)

Cell Ranger 1.1.0

1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

3k PBMCs from a Healthy Donor

6k PBMCs from a Healthy Donor

33k PBMCs from a Healthy Donor

Cell Ranger 1.0.0

1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells

3k PBMCs from a Healthy Donor

Single Cell 3′ Paper: Zheng et al. 2017

Cell Ranger 1.1.0

293T and 3T3 Cell Mixture

CD8+/CD45RA+ Naive Cytotoxic T Cells

90%:10% Donor B: Donor C PBMC Mixture

CD4+/CD25+ Regulatory T Cells

Frozen BMMCs (Healthy Control 1)

50%:50% Donor B: Donor C PBMC Mixture

50%:50% Jurkat:293T Cell Mixture

CD34+ Cells

Frozen PBMCs (Donor B)

CD19+ B Cells

293T Cells

99%:1% Jurkat:293T Cell Mixture

AML035 Post-transplant BMMCs

Jurkat Cells

Frozen PBMCs (Donor A)

CD56+ Natural Killer Cells

AML027 Pre-transplant BMMCs

CD14+ Monocytes

AML027 Post-transplant BMMCs

CD8+ Cytotoxic T cells

Fresh 68k PBMCs (Donor A)

Frozen BMMCs (Healthy Control 2)

AML035 Pre-transplant BMMCs

99%:1% Donor B: Donor C PBMC Mixture

CD4+ Helper T Cells

ERCC (1k GEMS, 1:10 Dilution)

Frozen PBMCs (Donor C)

CD4+/CD45RA+/CD25- Naive T cells

CD4+/CD45RO+ Memory T Cells

Single Cell Immune Profiling Datasets

Application Note – Redefining Cellular Phenotyping

Cell Ranger 3.0.2

Sorted PBMCs from a CMV seropositive donor – 5′ gene expression and cell surface protein

Sorted PBMCs from a CMV seropositive donor – TCR enrichment from amplified cDNA

Unsorted PBMCs from a CMV seropositive donor – 5′ gene expression and cell surface protein

Unsorted PBMCs from a CMV seropositive donor – TCR enrichment from amplified cDNA

Aggregated PBMCs from a CMV seropositive donor – 5′ gene expression and cell surface protein

Sorted PBMCs from a CMV seronegative donor – 5′ gene expression and cell surface protein

Sorted PBMCs from a CMV seronegative donor – TCR enrichment from amplified cDNA

Unsorted PBMCs from a CMV seronegative donor – 5′ gene expression and cell surface protein

Unsorted PBMCs from a CMV seronegative donor – TCR enrichment from amplified cDNA

Aggregated PBMCs from a CMV seronegative donor – 5′ gene expression and cell surface protein

V(D)J + 5′ Gene Expression + Cell Surface Protein – Human

Cell Ranger 3.0.0

PBMCs of a healthy donor – 5′ gene expression and cell surface protein

PBMCs of a healthy donor – TCR enrichment from amplified cDNA

PBMCs of a healthy donor – Ig enrichment from amplified cDNA

V(D)J + 5′ Gene Expression – Mouse

Cell Ranger 3.0.0

PBMCs from C57BL/6 mice – 5’ gene expression

PBMCs from C57BL/6 mice – TCR enrichment from amplified cDNA

PBMCs from C57BL/6 mice – Ig enrichment from amplified cDNA

PBMCs from BALB/c mice – 5’ gene expression

PBMCs from BALB/c mice – TCR enrichment from amplified cDNA

PBMCs from BALB/c mice – Ig enrichment from amplified cDNA

Cell Ranger 2.2.0

PBMCs from C57BL/6 mice – 5’ gene expression

PBMCs from C57BL/6 mice – TCR enrichment from amplified cDNA

PBMCs from C57BL/6 mice – Ig enrichment from amplified cDNA

PBMCs from BALB/c mice – 5’ gene expression

PBMCs from BALB/c mice – TCR enrichment from amplified cDNA

PBMCs from BALB/c mice – Ig enrichment from amplified cDNA

Direct TCR Enrichment – Mouse

Cell Ranger 2.2.0

C57BL/6 mouse splenocytes – Direct TCR enrichment

Direct Ig Enrichment – Mouse

Cell Ranger 2.2.0

B cells isolated from C57BL/6 mouse splenocytes – Direct Ig enrichment

V(D)J + 5′ Gene Expression – Human

Cell Ranger 2.2.0

NSCLC tumor – 5’ gene expression

NSCLC tumor – TCR enrichment from amplified cDNA

NSCLC tumor – Ig enrichment from amplified cDNA

PBMCs of a healthy donor – 5′ gene expression

PBMCs of a healthy donor – TCR enrichment from amplified cDNA

PBMCs of a healthy donor – Ig enrichment from amplified cDNA

Direct TCR Enrichment – Human

Cell Ranger 2.2.0

Pan T cells isolated from PBMCs of a healthy donor – Direct TCR enrichment

CD8+ T cells isolated from PBMCs of a healthy donor – Direct TCR enrichment

CD4+ T cells isolated from PBMCs of a healthy donor – Direct TCR enrichment

Jurkat, clone E6-1 – Direct TCR enrichment

Direct Ig Enrichment – Human

Cell Ranger 2.2.0

CD19+ B cells isolated from PBMCs of a healthy donor – Direct Ig enrichment

GM12878 cell line – Direct Ig enrichment

Loupe V(D)J Browser Tutorial Dataset – Human

Cell Ranger 2.1.0

CD8+ Cytotoxic T cells from mononuclear cells of a healthy donor

Single Cell ATAC Datasets

Single Cell ATAC Demonstration

Cell Ranger ATAC 1.1.0

500 1:1 mixture of fresh frozen human (GM12878) and mouse (A20) cells

1k 1:1 mixture of fresh frozen human (GM12878) and mouse (A20) cells

5k 1:1 mixture of fresh frozen human (GM12878) and mouse (A20) cells

10k 1:1 mixture of fresh frozen human (GM12878) and mouse (A20) cells

5k Peripheral blood mononuclear cells (PBMCs) from a healthy donor

10k Peripheral blood mononuclear cells (PBMCs) from a healthy donor

Fresh cortex, hippocampus, and ventricular zone from embryonic mouse brain (E18)

Dissociated and cryopreserved cortex, hippocampus, and ventricular zone cells from embryonic mouse brain (E18)

Flash frozen cortex, hippocampus, and ventricular zone from embryonic mouse brain (E18)

Fresh cortex from adult mouse brain (P50)

Cell Ranger ATAC 1.0.1

500 1:1 mixture of fresh frozen human (GM12878) and mouse (A20) cells

1k 1:1 mixture of fresh frozen human (GM12878) and mouse (A20) cells

5k 1:1 mixture of fresh frozen human (GM12878) and mouse (A20) cells

10k 1:1 mixture of fresh frozen human (GM12878) and mouse (A20) cells

5k Peripheral blood mononuclear cells (PBMCs) from a healthy donor

10k Peripheral blood mononuclear cells (PBMCs) from a healthy donor

Genome Sequencing Datasets

Chromium Genome

Long Ranger 2.2.1

NA19240 Germline Genome v2

NA12878 Germline Genome v2

Long Ranger 2.1.4

NA12878 Germline Genome v2

Long Ranger 2.1.0

HCC1954 Tumor Whole Genome

HCC1954 Normal Whole Genome

NA12878 Germline Whole Genome

Long Ranger 2.0.0

HCC1954 Tumor Whole Genome

HCC1954 Normal Whole Genome

NA12878 Germline Whole Genome

Exome Sequencing Datasets

Long Ranger 2.2.1

NA12878 Germline Exome v2

Long Ranger 2.1.4

NA12878 Germline Exome v2

Long Ranger 2.1.0

NA12878 Germline Whole Exome

HCC1954 Tumor Whole Exome

HCC1954 Normal Whole Exome

Long Ranger 2.0.0

NA12878 Germline Whole Exome

HCC1954 Tumor Whole Exome

HCC1954 Normal Whole Exome

de novo Assembly Datasets

Supernova 2.1 Sample Datasets – Aug 2018

Supernova 2.1.0

HUMAN: Anonymous HGP donor, male

HUMAN: Equimolar mix of CHM1/CHM13

HUMAN: NA12878 Germline, Caucasian ancestry, female individual

HUMAN: HG00512, Chinese ancestry, male individual

HUMAN: NA19240, Yoruba ancestry, female individual

HUMAN: NA19238, Yoruba ancestry, female individual

HUMAN: NA24385, Ashkenazi ancestry, male individual

HUMAN: HG00733, Puerto Rican ancestry, female individual

VERTEBRATE: Anna’s hummingbird

VERTEBRATE: Zebrafish Sanger AB Tübingen line

VERTEBRATE: An outbred dog called Ruby

PLANT: Maize B73

INSECT: Fruit fly, F1 cross iso-1 x Canton-S

INSECT: One moth collected in a garden

INSECT: Second moth collected in a garage

INSECT: Caterpillar

INSECT: Aphid

Supernova 2.0 Sample Datasets – Jan 2018

Supernova 2.0.0

HUMAN: Anonymous HGP donor, male

HUMAN: Equimolar mix of CHM1/CHM13

HUMAN: NA12878 Germline, Caucasian ancestry, female individual

HUMAN: HG00512, Chinese ancestry, male individual

HUMAN: NA19240, Yoruba ancestry, female individual

HUMAN: NA19238, Yoruba ancestry, female individual

HUMAN: NA24385, Ashkenazi ancestry, male individual

HUMAN: HG00733, Puerto Rican ancestry, female individual

VERTEBRATE: Anna’s hummingbird

VERTEBRATE: Zebrafish Sanger AB Tübingen line

VERTEBRATE: An outbred dog called Ruby

PLANT: Maize B73

INSECT: Fruit fly, F1 cross iso-1 x Canton-S

INSECT: One moth collected in a garden

INSECT: Second moth collected in a garage

INSECT: Caterpillar

INSECT: Aphid

Supernova Manuscript 2016

Supernova 1.1.0

NA12878

NA19240

HGP

HG00512

NA24385

HG00733

NA19238

Supernova 1.0.0

NA12878 Germline

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