PKBSM0072YVOU

primary islet

2016-08-18

Islet biosample from human donor SAMN08769204 in the IIDP database

Joyce Niland, CoH

male

released

islet of Langerhans cell, male, Homo sapiens

Homo sapiens

Homo sapiens

ffffb4ea-5a82-4dfc-a4ed-d840bfb00448

PKBSM7466EEBG

primary islet

2018-03-24

Islet biosample from human donor SAMN08799544 in the IIDP database

Joyce Niland, CoH

female

released

islet of Langerhans cell, female, Homo sapiens

Homo sapiens

Homo sapiens

fff9e75c-7ed4-4059-93d6-25ab583e5878

PKBFI5947MIIA

GRCh38

data coordination

filtered alignments

alignments

bam

/analysis-sets/PKBDS9867LLDH/

Pankbase Consortium, PanKbase

/reference-files/PKBFI0723SUOK/, /reference-files/PKBFI6475GTLH/

released

GRCh38 filtered alignments

validated

fff3adf3-3d79-473c-b1c8-4c7bbd51a26a

PKBFI7657TECG

data coordination

barcode to element mapping

tsv

/analysis-sets/PKBDS6543THTF/

Pankbase Consortium, PanKbase

released

barcode to element mapping

validated

ffef3e2f-e7bb-4e7f-865b-671a56f76003

PKBDO6190OSXB

IIDP

Human donor SAMN08786556 in the IIDP database

Hispanic

IIDP:SAMN08786556

Joyce Niland, CoH

PMID:19366778, PMID:20447343, PMID:22889479

male

released

Hispanic male

Homo sapiens

ffee93ae-664e-4a09-a333-caa4873392af

PKBFI4277VOLY

data coordination

gene by cell sparse gene count matrix

sparse gene count matrix

mtx

/analysis-sets/PKBDS2848ZCYL/

Pankbase Consortium, PanKbase

/reference-files/PKBFI0723SUOK/, /reference-files/PKBFI6475GTLH/

released

gene by cell sparse gene count matrix

validated

ffecee3b-04a1-48c1-82bc-38c2d76aa178

PKBDO2390DHUQ

Prodo

Human donor HP-19242-01 in the Prodo Laboratories database

Prodo:HP-19242-01

Prodo Laboratories, PRODO

male

released

male

Homo sapiens

ffeb6903-ab11-453f-84a1-ff7a21746f97

PKBFI2061GCSI

GRCh38

data coordination

element quantifications

This file contains gene-level expression quantification, including gene IDs, expected counts, TPM, FPKM, and posterior mean estimates.

tsv

/analysis-sets/PKBDS5408EAEI/

Pankbase Consortium, PanKbase

released

GRCh38 element quantifications

validated

ffeab1d5-912b-4405-afb8-8b9d9229c5aa

PKBDS0823AWQO

Measurement set of scRNA-seq for islet biosample of human donor HPAP-032 from HPAP with no_treatment (HPAP-032)

experimental data

Klaus Kaestner, UPenn

scRNA-seq

released

single-cell RNA sequencing assay (scRNA-seq)

Homo sapiens

ffe812fd-7f27-46a7-a098-4289cef00007

PKBSM2571KMWC

primary islet

Islet biosample from human donor SAMN08774970 in the IIDP database

Joyce Niland, CoH

male

released

islet of Langerhans cell, male, Homo sapiens

Homo sapiens

Homo sapiens

ffe73609-b4f2-480d-b2bb-252b1b34d857

PKBFI4280YUSM

GENCODE 39

data coordination

PanKbase

filtered transcriptome alignments

transcriptome alignments

The file contains RNA-seq reads aligned to a reference transcriptome in BAM format, used for gene expression and transcript analysis.

bam

/analysis-sets/PKBDS4203KSNH/

Pankbase Consortium, PanKbase

/reference-files/PKBFI0723SUOK/, /reference-files/PKBFI6475GTLH/

released

GENCODE 39 filtered transcriptome alignments

validated

ffe61c06-93d7-4c34-bf24-e9516c5356f0

PKBDO1238GOVB

IIDP, Prodo

Human donor SAMN08784602 in the IIDP database

Hispanic

IIDP:SAMN08784602, Prodo:12280-01

Joyce Niland, CoH

PMID:19366778, PMID:20447343, PMID:22889479

female

released

Hispanic female

Homo sapiens

ffe6074a-af93-49da-b3df-70f9b1084f8a

PKBFI9279XNCC

data coordination

barcode to element mapping

tsv

/analysis-sets/PKBDS6939NVNR/

Pankbase Consortium, PanKbase

released

barcode to element mapping

validated

ffe3a326-8b82-4b93-aa40-d15202754071

PKBSM2315YRYE

primary islet

Islet biosample from human donor SAMN08786195 in the IIDP database

Joyce Niland, CoH

female

released

islet of Langerhans cell, female, Homo sapiens

Homo sapiens

Homo sapiens

ffe1b93a-595f-41f9-852e-b0228650b233

PKBFI6884NSUP

data coordination

gene by cell sparse gene count matrix

sparse gene count matrix

h5ad

/analysis-sets/PKBDS1578ODWO/

Pankbase Consortium, PanKbase

/reference-files/PKBFI0723SUOK/, /reference-files/PKBFI6475GTLH/

released

gene by cell sparse gene count matrix

validated

ffe12001-6bb8-444f-a5c8-a39b0d7377a9

PKBFI8100OWRD

data coordination

gene by cell sparse gene count matrix

sparse gene count matrix

h5ad

/analysis-sets/PKBDS5522YXVV/

Pankbase Consortium, PanKbase

/reference-files/PKBFI0723SUOK/, /reference-files/PKBFI6475GTLH/

released

gene by cell sparse gene count matrix

validated

ffe0085d-8826-455c-b45c-6c3d80f1f7a5

PKBDO7764MJRA

IIDP

Human donor SAMN08768701 in the IIDP database

Hispanic

HIPP:HIPP56, IIDP:SAMN08768701

Joyce Niland, CoH

PMID:19366778, PMID:20447343, PMID:22889479

male

released

Hispanic male

Homo sapiens

ffdb740d-5f9d-4ae4-a5c0-38dffa9ba096

PKBDO1170ATLC

nPOD

Human donor SAMN15879530 in the nPOD database

African American

nPOD_portal:6477

Mark Atkinson, UFHealth

PMID:22585677, PMID:24325575

female

released

African American female /phenotype-terms/MONDO_0005147/

Homo sapiens

ffd97d16-af9b-4113-afc5-626decf53e2a

PKBFI4604NUMN

data coordination

QC metrics

csv

/analysis-sets/PKBDS3380PKTA/

Pankbase Consortium, PanKbase

released

QC metrics

validated

ffc9bd20-2441-4015-89bb-5843931bfbea

PKBFI7751UVNI

data coordination

cell by gene sparse gene count matrix

sparse gene count matrix

mtx

/analysis-sets/PKBDS5847QGPP/

Pankbase Consortium, PanKbase

/reference-files/PKBFI0723SUOK/, /reference-files/PKBFI6475GTLH/

released

cell by gene sparse gene count matrix

validated

ffc99899-f02c-489e-ae57-f1f46c648eef

PKBDS6276JJRU

experimental data

Joyce Niland, CoH

scRNA-seq

polyA enriched

released

single-cell RNA sequencing assay (scRNA-seq)

Homo sapiens

ffc214b6-7594-4ed7-abeb-213afb07724c

PKBFI9821TPGV

data coordination

QC metrics

txt

/analysis-sets/PKBDS6939TCMH/

Pankbase Consortium, PanKbase

released

QC metrics

validated

ffb86e72-62e7-477f-a4ca-137b82e59b7b

PKBFI8769YPUJ

data coordination

QC metrics

csv

/analysis-sets/PKBDS4530RFYP/

Pankbase Consortium, PanKbase

released

QC metrics

validated

ffb3195e-6edf-4332-9c75-22cdfe6f83fb

amyotrophic lateral sclerosis 15, with or without frontotemporal dementia, X-linked dominant,amyotrophic lateral sclerosis caused by mutation in UBQLN2,ALS15,amyotrophic lateral sclerosis 15, with or without frontotemporal dementia,UBQLN2 amyotrophic lateral sclerosis,amyotrophic lateral sclerosis 15,amyotrophic lateral sclerosis type 15

MONDO_0010459

released

amyotrophic lateral sclerosis type 15

ALS15, amyotrophic lateral sclerosis 15, amyotrophic lateral sclerosis 15, with or without frontotemporal dementia, amyotrophic lateral sclerosis 15, with or without frontotemporal dementia, X-linked dominant, amyotrophic lateral sclerosis caused by mutation in UBQLN2, amyotrophic lateral sclerosis type 15, UBQLN2 amyotrophic lateral sclerosis

MONDO:0010459

amyotrophic lateral sclerosis type 15

ffac462a-1554-402c-9018-5e906e0f4cff

PKBFI2134DKYX

GRCh38

data coordination

filtered alignments

alignments

bam

/analysis-sets/PKBDS7481RHDC/

Pankbase Consortium, PanKbase

/reference-files/PKBFI0723SUOK/, /reference-files/PKBFI6475GTLH/

released

GRCh38 filtered alignments

validated

ffa462b8-dfdb-4f51-91b1-2147befd381a