Overview

The Allen Institute for Cell Science has generated a collection of fluorescently tagged hiPSC clonal lines representing the major structures of the cell. All cell lines were generated using the wild type C hiPS cell line (WTC line) as the parental cell line. To establish a reference profile, we performed whole genome sequencing and population RNA-Seq on the WTC line. As part of our quality control process, we use whole exome sequencing and population RNA-Seq to evaluate any changes in the transcriptional profiles and exomes of our fluorescently tagged hiPSC lines relative to the parental WTC line. Raw data is available upon request - please email ​cells@alleninstitute.org.

Parental WTC Genome

Explore the parental WTC short read whole genome sequence and variants in the UCSC Genome Browser: 

WTC whole genome track

Download the parental WTC whole genome raw data and variant calls: 

WTC short read whole genome

WTC linked read whole genome

Tagged Line Exomes

Explore the exomes and variants for our fluorescently tagged lines in the UCSC Genome Browser or download raw data and variant calls. One clone (public clone) for each gene tag is publicly available through Coriell.

Exome raw data

Cell line & UCSC link	Gene	Tag	Public clone
AICS-5	PXN	EGFP	50
AICS-10	SEC61B	mEGFP	55
AICS-11	TOMM20	mEGFP	27
AICS-12	TUBA1B	mEGFP	105
AICS-13	LMNB1	mEGFP	210
AICS-14	FBL	mEGFP	6
AICS-16	ACTB	mEGFP	184
AICS-17	DSP	​mEGFP	65
AICS-22	LAMP1	mEGFP	37
AICS-23	TJP1	mEGFP	84
AICS-24	MYH10	mEGFP	80
AICS-25	ST6GAL1	mEGFP	1 (mono-allelic); 44 (bi-allelic)
AICS-30	MAP1LC3B	mEGFP	22
AICS-31	TUBA1B	mTag-RFP-T	35
AICS-32	CETN2	mTag-RFP-T	19
AICS-33	SLC25A17	mEGFP	115
AICS-37	TNNI1	mEGFP	172
AICS-40	RAB5A	mEGFP	13 (mono-allelic); 35 (bi-allelic)
AICS-46	ATP2A2	mEGFP	51
AICS-53	GJA1	mEGFP	16
AICS-54	AAVS1	mTagRFPT-CAAX	91
AICS-57	NPM1	mEGFP	50
AICS-58	CTNNB1	mEGFP	67
AICS-61	HIST1H2BJ	mEGFP	36
AICS-69	NUP153	mEGFP	88

Transcriptional Profiles

Transcriptomics v1.2 .zip

​Download the transcriptional profiles of the parental WTC line and 13 fluorescently tagged lines. 

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scRNA-seq dataset on Quilt

Download our single cell RNA-sequencing data set of hiPSCs undergoing cardiac differentiation on Quilt. Data set includes 4 time points, 3 cell lines, 2 differentiation protocols, and multiple experimental replicates

Transcriptomics v1.2.zip