title: Bisulfite converted DNA from nasopharyngeal carcinoma tissue 15


title: Non-Gdf5-lineage Pdgfrα+ fibroblasts, injured-state, rep 2

status: Public on Nov 23 2022

type: SRA

city: Aberdeen

first: Fraser

middle: L

last: Collins

address: Foresterhill

department: Institute Of Medical Sciences

country: United Kingdom

institute: University of Aberdeen

description:
10x Genomics
Injured-state GFP 2

library_source: transcriptomic single cell

data_processing:
Mouse reference genome GRCm38.p6, with relevant annotation file,was downloaded from NCBI (https://www.ncbi.nlm.nih.gov/genome?term=mus%20musculus) (Gnerre et al. 2011) along with the relevant annotation file. The sequences and information for the tdTom and H2BeGFP markers were added to these files and a Cell Ranger compatible reference index was produced using Cell Ranger mkref (version 2.2.0) (10X Genomics 2018)
Alignment of reads, correction of PCR duplications, quantification of reads at gene regions and filtering of reads was performed using 10x Genomics Cell Ranger count (versions 2.20 - 3.0.2)
Assembly: GRCm38.p6
Supplementary files format and content: Tab-separated values files and matrix files

molecule: total RNA

organism: Mus musculus

source_name: Synovial joint

extract_protocol:
Dissected joints were incubated with 1 mg/ml collagenase type IV in culture media for 50 minutes at 37°C under agitation. Live Gdf5-lineage (Tom+) and non-Gdf5-lineage Pdgfrα (Tom-GFP+) synovial cells were sorted on a BD influx.
Libaries were constructed using 10x Genomics Single Cell 5' Library and Gel Bead kit (version 2) and sequenced on the Illumina NextSeq 500

treatment_protocol: Injured mice underwent medial parapatellar arthrotomy, performed on the right knee. A full-cartilage-thickness scratch was made along the exposed cartilage of the trochlear groove following lateral dislocation of the patella. The patella was re-located and incisions  closed by suturing.

tag: strain

tag: tissue

value: Synovial joint

tag: cell type

value: non-Gdf5-lineage Pdgfr{alpha}+ synovial cell

tag: age

value: 11-12 weeks old

tag: disease state

value: 6-day articular cartilage joint surface injury


title: Non-Gdf5-lineage Pdgfrα+ fibroblasts, injured-state, rep 1

description:
10x Genomics
Injured-state GFP 1


title: 475_Mecom amplicon seq

city: Cambridge

first: Liming

last: Tao

address: 415 Main Street

country: USA

institute: Broad Institute of Harvard and MIT

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_H7_S187/CRISPResso_on_MR912-2-WTA-MECOM-AMP_H7_S187_L001_R1_001_MR912-2-WTA-MECOM-AMP_H7_S187_L001_R2_001/Alleles_frequency_table.zip

library_source: genomic

data_processing:
Library strategy: amplicon-seq
Basecalls performed using CASAVA version 1.4 and bcl2fastq2 v2.20.0
CRISPResso2
Genome_build:  Human reference genome GRCh38 and gene annotation reference Homo_sapiens.GRCh38.93.gtf
Supplementary_files_format_and_content: txt

molecule: genomic DNA

organism: Homo sapiens

source_name: HSC

growth_protocol: cells were cultured at 37oC and 5%O2 in serum-free HSC media comprised of StemSpan  II medium (Stem Cell Technologies) supplemented with CC100 cytokine cocktail (Stem Cell Technologies), 100ng/ml TPO (Peprotech) and 35nM UM171 (Stem Cell Technologies). Confluency was maintained between 2e5-1e6 cells/ml.

extract_protocol: genomic DNA or cDNA  isolated by  beads

treatment_protocol: MECOM KO

value: HSC

tag: chip antibody

tag: treatment

value: Mecom KO


title: 474_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_H6_S282/CRISPResso_on_MR912-5-MDA-MECOM-AMP_H6_S282_L001_R1_001_MR912-5-MDA-MECOM-AMP_H6_S282_L001_R2_001/Alleles_frequency_table.zip


title: Gdf5-lineage synovial cells, injured-state, rep 4

description:
10x Genomics
Injured-state Tom 4

value: Gdf5-lineage synovial cell


title: Gdf5-lineage synovial cells, injured-state, rep 3

description:
10x Genomics
Injured-state Tom 3


title: 472_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912_3_MDA_MECOM_AMP_A5_S581/CRISPResso_on_MR912_3_MDA_MECOM_AMP_A5_S581_L001_R1_001_MR912_3_MDA_MECOM_AMP_A5_S581_L001_R2_001/Alleles_frequency_table.zip


title: 473_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_C7_S31/CRISPResso_on_MR912-2-MDA-MECOM-AMP_C7_S31_L001_R1_001_MR912-2-MDA-MECOM-AMP_C7_S31_L001_R2_001/Alleles_frequency_table.zip


title: Gdf5-lineage synovial cells, injured-state, rep 1

description:
10x Genomics
Injured-state Tom 1


title: Gdf5-lineage synovial cells, injured-state, rep 2

description:
10x Genomics
Injured-state Tom 2


title: 471_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_H2_S182/CRISPResso_on_MR912-2-WTA-MECOM-AMP_H2_S182_L001_R1_001_MR912-2-WTA-MECOM-AMP_H2_S182_L001_R2_001/Alleles_frequency_table.zip


title: 470_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR214_1_MDA_MECOM_AMP_D5_S425/CRISPResso_on_MR214_1_MDA_MECOM_AMP_D5_S425_L001_R1_001_MR214_1_MDA_MECOM_AMP_D5_S425_L001_R2_001/Alleles_frequency_table.zip


title: 469_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_E1_S145/CRISPResso_on_MR912-2-WTA-MECOM-AMP_E1_S145_L001_R1_001_MR912-2-WTA-MECOM-AMP_E1_S145_L001_R2_001/Alleles_frequency_table.zip


title: Non-Gdf5-lineage Pdgfrα+ fibroblasts, steady-state

description:
10x Genomics
Steady-state GFP

value: Naive


title: Gdf5-lineage synovial cells, steady-state, rep 2

description:
10x Genomics
Steady-state Tom 2


title: 467_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_G11_S275/CRISPResso_on_MR912-5-MDA-MECOM-AMP_G11_S275_L001_R1_001_MR912-5-MDA-MECOM-AMP_G11_S275_L001_R2_001/Alleles_frequency_table.zip


title: Gdf5-lineage synovial cells, steady-state, rep 1

description:
10x Genomics
Steady-state Tom 1


title: 4_omniATAC_2cell_SR1848_rep2

city: Martinsried

first: Siwat

last: Ruangroengkulrith

state: Bavaria

address: Am Klopferspitz 18

department: Totipotency

country: Germany

institute: Max Planck Institute of Biochemistry

data_processing:
Base calling was performed using bcl2fastq Conversion Software by the Department of Totipotency, MPIB
Low quality reads were trimmed out using TrimGalore (version 0.6.2) using parameters: --paired --quality 20 --nextera --length 20
Read mapping was done using Bowtie2 (version 2.3.5.1) using parameters: -t -q -N 1 -L 25 -X 2000 --no-mixed --no-discordant. All reads were mapped to mm10 genome.
Unmapped reads, low mapping quality reads (Q<30) were removed. PCR duplicated reads were identified and discarded using the MarkDuplicates command from Picard (version 2.18.27) with parameters: VALIDATION_STRINGENCY=LENIENT.
The RPKM values were calculated to represent read coverage using bamCoverage function from deepTools (version 3.1.2) with parameters: --normalizeUsing RPKM --binSize 1 --ignoreDuplicates --extendReads.
Assembly: mm10
Supplementary files format and content: bigwig

source_name: Preimplantation embryo

extract_protocol:
Zona pellucida was removed by treatment with acidic Tyrode. Embryonic cells washed in PBS. Omni ATAC-seq was performed as described previously with a few modifications (Corces, M., Trevino, A., Hamilton, E. et al. An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues. Nat Methods 14, 959–962 (2017))
omni-ATAC-seq

treatment_protocol: 3-5 weeks old B6129F1 female mice were superovulated by injection of PMSG (5IU) followed by hCG injection 48 hours later. After injection, females were transferred into stud cages with B6CBAF1 male mice. Zygote were isolated after 17 hours post hCG injection (5 hpf) and transferred into potassium-supplemented simplex-optimized medium (KSOM) containing either 0.1% DMSO, 1.2 µM JQ-1(THP Medical Products, HY-13030) or 10 µM SR1848 (Sigma, SML1513) at 6 hpf. The embryos were cultured in Lumox dish (Sarstedt) without mineral oil until 34 hpf.

value: Preimplantation embryo

value: B6129F1 x B6CBAF1

tag: developmental stage

value: 2-cell embryo


title: 3_omniATAC_2cell_DMSO_rep2

value: DMSO


title: 465_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR214_1_Cat_F3_S63/CRISPResso_on_MR214_1_Cat_F3_S63_L001_R1_001_MR214_1_Cat_F3_S63_L001_R2_001/Alleles_frequency_table.zip


title: Whole kidney of newborn Six2CreTet2/3f/f mouse, replicate 1, scRNAseq

city: Philadelphia

first: Xiujie

last: Liang

state: Pennsylvania

address: 12-188 Smilow Translational Research Center, 3400 Civic Center Blvd

department: Department of Medicine

institute: University of Pennsylvania

data_processing:
For scRNA-seq, the demultiplexing, barcoded processing, gene counting and aggregation were made using the Cell Ranger software v6.0.2 (https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger). For WGBS, adapter and low-quality reads were trimmed using Trim Galore (https://www.bioinformatics.babraham.ac.uk/projects/trim_galore/). Bismark version 0.19.1 was used for read alignment to the mouse genome (mm10), deduplication, and quantification of CpG methylation level. De novo genome segmentation based on DNA methylation was performed using SMART version 2.2.8 with default thresholds.
Assembly: mm10
Supplementary files format and content: For scRNA-seq, Tab-separated values files and matrix files
Supplementary files format and content: For WGBS, CpG methylation value files in bigwig format

source_name: Kidney

extract_protocol:
For scRNA-seq, kidneys were digested using Multi Tissue dissociation kit 1. Debris were removed using Miltenyi Debris Removal Solution and dead cells were removed using the Miltenyi Dead Cell Removal kit. Cell number and viability were assessed using Countess AutoCounter. For WGBS, Six2-positive cells were isolated by FACS and genomic DNA was isolated from Six2-positive cells using the DNeasy Blood & Tissue Kit.
For scRNA-seq, we generated single cell suspension from whole kidney samples and loaded 10,000 cells onto the Chromium Controller (10X Genomics, PN-120223) on a Chromium Single Cell B Chip (10X Genomics, PN-120262) and processed to generate single-cell gel beads in the emulsion (GEM) according to the manufacturer’s protocol (10X Genomics, CG000183). Libraries were generated using Chromium Single Cell 3’ Reagent Kits v3 (10X Genomics, PN-1000092) and Chromium i7 Multiplex Kit (10X Genomics, PN-120262) according to the manufacturer’s manual. Quality control for constructed library was performed by Agilent Bioanalyzer High Sensitivity DNA kit (Agilent Technologies, 5067-4626) for qualitative analysis. Quantification analysis was performed by Illumina Library Quantification Kit (KAPA Biosystems, KK4824). The library was sequenced on Illumina HiSeq 4000 system with 2x150 paired-end kits using the following read length: 28 bp Read1 for cell barcode and UMI, 8 bp I7 index for sample index and 91 bp Read2 for transcript. For WGBS, DNA concentration was measured using Picogreen. DNA quality was checked by Agilent genomic DNA screentape. The library kit is Accel-NGS® Methyl-Seq DNA Library. The library was sequenced on HiSeqX (150bp PE).

value: Kidney

value: Newborn

tag: genotype


title: Whole kidney of newborn SixCre mouse, replicate 1, scRNAseq


title: 463_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_G7_S271/CRISPResso_on_MR912-5-MDA-MECOM-AMP_G7_S271_L001_R1_001_MR912-5-MDA-MECOM-AMP_G7_S271_L001_R2_001/Alleles_frequency_table.zip


title: Screen 3, efficient eaters, replicate 1 [S3_Q2]

city: New York

first: Hanrui

last: Zhang

state: United States

address: 630 West 168th Street

institute: Columbia University Irving Medical Center

data_processing:
The fastq files were processed using count_spacers.py to obtain the gRNA counts (PMID: 28333914).
The gRNA count matrix files were then analyzed using MAGeCK (Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout, version 0.5.7) to obtain ranked lists of screen hits.
Assembly: The Brie murine CRISPR knockout pooled library.
Supplementary files format and content: tab-delimited text files for gRNA counts.

source_name: BMDM

growth_protocol: Bone marrow (BM) cells from 8-12 week old mice were isolated by flushing femurs and tibia with DMEM basal medium using 10 mL syringes with 22G needles (day 0). The isolated BM cells were cultured at 37°C, 5% CO2 on non-tissue-culture-treated vessels in BMDM culture medium containing DMEM supplemented with 10% (vol/vol) heat-activated fetal bovine serum (HI-FBS), 20% (vol/vol) L-929 fibroblast conditioned medium, and 2 mM L-Glutamine.

extract_protocol:
The sorted populations were processed individually for genomic DNA extraction using DNeasy Blood and Tissue Kit (Qiagen) and subjected to PCR reactions to generate the libraries, following the Library Amplification Protocol: https://www.addgene.org/pooled-library/broadgpp-mouse-knockout-brie/.
The purified PCR products were sequenced on Illumina NextSeq500 system to determine gRNA abundance in two independent replicates, following the Sequencing Protocol: https://www.addgene.org/pooled-library/broadgpp-mouse-knockout-brie/.

treatment_protocol: The Brie murine CRISPR knockout pooled library in the lentiGuide-Puro backbone was obtained from Addgene (#73663). Lentivirus particles were generated from HEK293T cells (ATCC CRL-3216) by co-transfection of lentiviral vectors with the packaging plasmid psPAX2 (Addgene #12260) and envelope plasmid pMD2G (Addgene #12259) using FuGene 6 transfection reagent (Promega). The medium was changed 16-18 h after transfection. 24 h after media change, lentiviral supernatants were harvested and stored at 4 °C. Fresh media were fed and lentiviral supernatants were collected again 24 h later and pooled together with the first harvest. The pooled supernatants were then filtered through 0.45-µm SFCA filters (Corning). Lentiviral particles were further concentrated using Lenti-X concentrator (Takara Bio) following the manufacturer’s instructions. Mouse BM cells were isolated from Rosa-Cas9 knockin mice and plated (day 0). On day 1, BM cells were virally transduced in BMDM culture medium supplemented with 10 μg/mL polybrene at a low multiplicity of infection (MOI) of 0.3 and targeting ~1,000 fold coverage of the library. On day 2, half of the medium was replenished with fresh BMDM culture medium. On day 6, the transduced cells underwent puromycin selection at 5 µg/mL for 48 h. On day 9, i.e. 24 h after removing puromycin, BMDMs were dissociated and replated in 10-cm tissue culture plates at a density of 6 X 10^6 per plate for two-round efferocytosis. For the 1st round, PKH67-labeled apoptotic cells (ACs) were incubated with BMDMs at a 5:1 ratio for 45 min. After removing the unbound ACs, macrophages were rested for 3 h before the 2nd round, in which PKH26-labeled ACs were incubated with BMDMs at a 5:1 ratio for 90 min. Unbound ACs were removed and BMDMs were collected for sorting on BD Influx to separate the BMDMs that engulfed both PKH67+ and PKH26+ ACs, i.e., the efficient eater (~5%), and BMDMs that did not engulf any ACs, i.e., the non-eater. We have also collected 40 million BMDMs on day 9 without performing efferocytosis, i.e. the input samples We have also collected 40 million BMDMs on day 9 without performing efferocytosis, i.e. the input samples.

value: BMDM

tag: sample group

value: efficient eaters


title: Screen 3, non-eaters, replicate 4 [S3_P5]

value: non-eaters


title: Screen 3, non-eaters, replicate 3 [S3_P5]


title: 462_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR214_1_Cat_H7_S91/CRISPResso_on_MR214_1_Cat_H7_S91_L001_R1_001_MR214_1_Cat_H7_S91_L001_R2_001/Alleles_frequency_table.zip


title: 461_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_G5_S269/CRISPResso_on_MR912-5-MDA-MECOM-AMP_G5_S269_L001_R1_001_MR912-5-MDA-MECOM-AMP_G5_S269_L001_R2_001/Alleles_frequency_table.zip


title: Screen 3, non-eaters, replicate 1 [S3_P5]


title: Screen 3, input, replicate 3 [S3_BS]

value: input


title: 459_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_G3_S267/CRISPResso_on_MR912-5-MDA-MECOM-AMP_G3_S267_L001_R1_001_MR912-5-MDA-MECOM-AMP_G3_S267_L001_R2_001/Alleles_frequency_table.zip


title: Screen 3, input, replicate 2 [S3_BS]


title: 458_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_G2_S266/CRISPResso_on_MR912-5-MDA-MECOM-AMP_G2_S266_L001_R1_001_MR912-5-MDA-MECOM-AMP_G2_S266_L001_R2_001/Alleles_frequency_table.zip


title: 460_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_G4_S268/CRISPResso_on_MR912-5-MDA-MECOM-AMP_G4_S268_L001_R1_001_MR912-5-MDA-MECOM-AMP_G4_S268_L001_R2_001/Alleles_frequency_table.zip


title: Screen 3, input, replicate 1 [S3_BS]


title: 457_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_G1_S265/CRISPResso_on_MR912-5-MDA-MECOM-AMP_G1_S265_L001_R1_001_MR912-5-MDA-MECOM-AMP_G1_S265_L001_R2_001/Alleles_frequency_table.zip


title: 468_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_G12_S276/CRISPResso_on_MR912-5-MDA-MECOM-AMP_G12_S276_L001_R1_001_MR912-5-MDA-MECOM-AMP_G12_S276_L001_R2_001/Alleles_frequency_table.zip


title: 456_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912_3_MDA_MECOM_AMP_D4_S520/CRISPResso_on_MR912_3_MDA_MECOM_AMP_D4_S520_L001_R1_001_MR912_3_MDA_MECOM_AMP_D4_S520_L001_R2_001/Alleles_frequency_table.zip


title: Screen 1, non-eaters, replicate 4 [S1_P5]


title: Screen 1, efficient eaters, replicate 1 [S1_Q2]


title: Screen 1, non-eaters, replicate 3 [S1_P5]


title: 466_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_G10_S274/CRISPResso_on_MR912-5-MDA-MECOM-AMP_G10_S274_L001_R1_001_MR912-5-MDA-MECOM-AMP_G10_S274_L001_R2_001/Alleles_frequency_table.zip


title: 454_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-WTA-MECOM-AMP_H3_S375/CRISPResso_on_MR912-5-WTA-MECOM-AMP_H3_S375_L001_R1_001_MR912-5-WTA-MECOM-AMP_H3_S375_L001_R2_001/Alleles_frequency_table.zip


title: 455_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_G1_S169/CRISPResso_on_MR912-2-WTA-MECOM-AMP_G1_S169_L001_R1_001_MR912-2-WTA-MECOM-AMP_G1_S169_L001_R2_001/Alleles_frequency_table.zip


title: 464_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_G8_S272/CRISPResso_on_MR912-5-MDA-MECOM-AMP_G8_S272_L001_R1_001_MR912-5-MDA-MECOM-AMP_G8_S272_L001_R2_001/Alleles_frequency_table.zip


title: Screen 1, non-eaters, replicate 1 [S1_P5]


title: 453_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912_3_MDA_MECOM_AMP_B12_S504/CRISPResso_on_MR912_3_MDA_MECOM_AMP_B12_S504_L001_R1_001_MR912_3_MDA_MECOM_AMP_B12_S504_L001_R2_001/Alleles_frequency_table.zip


title: 452_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_F8_S260/CRISPResso_on_MR912-5-MDA-MECOM-AMP_F8_S260_L001_R1_001_MR912-5-MDA-MECOM-AMP_F8_S260_L001_R2_001/Alleles_frequency_table.zip


title: Screen 1, input, replicate 3 [S1_BS]


title: Screen 1, input, replicate 1 [S1_BS]


title: Screen 1, non-eaters, replicate 2 [S1_P5]


title: Screen 1, input, replicate 2 [S1_BS]


title: 451_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_B1_S13/CRISPResso_on_MR912-2-MDA-MECOM-AMP_B1_S13_L001_R1_001_MR912-2-MDA-MECOM-AMP_B1_S13_L001_R2_001/Alleles_frequency_table.zip


title: 450_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_F6_S258/CRISPResso_on_MR912-5-MDA-MECOM-AMP_F6_S258_L001_R1_001_MR912-5-MDA-MECOM-AMP_F6_S258_L001_R2_001/Alleles_frequency_table.zip


title: 449_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_F5_S257/CRISPResso_on_MR912-5-MDA-MECOM-AMP_F5_S257_L001_R1_001_MR912-5-MDA-MECOM-AMP_F5_S257_L001_R2_001/Alleles_frequency_table.zip


title: 446_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_F2_S254/CRISPResso_on_MR912-5-MDA-MECOM-AMP_F2_S254_L001_R1_001_MR912-5-MDA-MECOM-AMP_F2_S254_L001_R2_001/Alleles_frequency_table.zip


title: 445_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_F1_S253/CRISPResso_on_MR912-5-MDA-MECOM-AMP_F1_S253_L001_R1_001_MR912-5-MDA-MECOM-AMP_F1_S253_L001_R2_001/Alleles_frequency_table.zip


title: 444_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912_3_Bird_B12_S120/CRISPResso_on_MR912_3_Bird_B12_S120_L001_R1_001_MR912_3_Bird_B12_S120_L001_R2_001/Alleles_frequency_table.zip


title: microglia, ATV:DNP02_10mpk, day1 (DRN-22675)

city: South San Francisco

first: Thomas

last: Sandmann

email: genomics@dnli.com, sandmann@dnli.com

state: California

address: 161 Oyster Point Blvd

institute: Denali Therapeutics

library_source: transcriptomic

data_processing:
Sequencing adapters were trimmed from the raw reads with skewer. Reads were aligned to the mouse genome version GRCm38_p6. A STAR index (version 2.7.1a) was built with the –sjdbOverhang=50 argument. Splice junctions from Gencode gene models (release M17) were provided via the –sjdbGTFfile argument. STAR alignments were generated with the following parameters: –outFilterType BySJout, –quantMode TranscriptomeSAM, –outFilterIntronMotifs RemoveNoncanonicalUnannotated, –outSAMstrandField intronMotif, –outSAMattributes NH HI AS nM MD XS and –outSAMunmapped Within. Alignments were obtained with the following parameters: –readFilesCommand zcat –outFilterType BySJout –outFilterMultimapNmax 20 –alignSJoverhangMin 8 –alignSJDBoverhangMin 1 –outFilterMismatchNmax 999 –outFilterMismatchNoverLmax 0.6 –alignIntronMin 20 –alignIntronMax 1000000 –alignMatesGapMax 1000000 –quantMode GeneCounts –outSAMunmapped Within –outSAMattributes NH HI AS nM MD XS –outSAMstrandField intronMotif –outSAMtype BAM SortedByCoordinate –outBAMcompression 6. Gene level counts were obtained using feature Counts from the subread package (version 1.6.2). Gene symbols and biotype information were extracted from the Gencode GTF file.
To calculate normalized counts per million (CPM) TMM normalization was applied across all genes annotated as protein_coding with the edgeR R package.
Assembly: GRCm38
Supplementary files format and content: Excel (XLSX) file with sample annotations, raw counts and TMM-normalized counts per million (CPM)

molecule: polyA RNA

source_name: FACS-isolated microglia

growth_protocol: TB36;hTfR KI mice were used for this study and this mouse model was originally generated at Denali by introduction of engineered BAC DNA CTD-2210D2 into the C57BL/6J mouse genome. The engineered BAC DNA CTD-2210D2 clone covers entire human TREM2 coding region and its regulatory elements with deletion of the exon 1 from TREML1 and exon 3 from TREML2 to abolish the expression of TREML1 and TREML2. Human TREM2 BAC Tg mice were backcrossed to C57BL/6J mice for three rounds and maintained as hemizygous and then further bred with TfRmu/hu KI mice11 to generate human Trem2 BAC Tg; TfRmu/hu KI mice for in vivo studies. Animals were bred at JAX Laboratories and transferred to Denali at least two weeks before the initiation of the study for acclimation. Animals were housed in standard conditions in Denali’s vivarium with ad libitum access to food and water.

extract_protocol:
Mice were perfused with cold PBS and brains (excluding cerebellum) were dissected and processed into a single cell suspension using the Adult Brain Dissociation Kit (Miltenyi Biotec), according to the manufacturer’s protocol. Cells were Fc blocked and stained for flow cytometric analysis with Fixable Viability Stain BV510 to exclude dead cells (BD Biosciences, #564406), CD11b-BV421 (BD Biosciences, #562605), and ACSA-2-PE (Miltenyi Biotec, #130-102-365). Cells were strained through a 100 μm filter before sorting CD11b+ microglia and ACSA-2+ astrocytes on a FACS Aria III (BD Biosciences) with a 100 μm nozzle. Cells were sorted directly into RLT-plus buffer (Qiagen) with 1:100 betamercaptoethanol. RNA was extracted using the RNeasy Plus Micro Kit (Qiagen) and resuspended in 14 μL nuclease-free water. RNA quantity and quality were assessed with a RNA 6000 Pico chip (Agilent) on a 2100 Bioanalyzer (Agilent).
Sequencing libraries were prepared with the Clontech SMARTSeq v4 3′ DE (Takara Bio USA, Inc.) kit for cDNA synthesis and the Nextera XT DNA Library Prep Kit (Illumina) for library generation. 1 ng of total RNA per sample was used for reverse transcription followed by 11 cycles of cDNA amplification to produce full length cDNA. cDNA was purified with 0.8X volume of SPRIselect beads (Beckman Coulter), quantified using Bioanalyzer High Sense DNA chip (Agilent), and then normalized to 300 pg of input for library preparation. The tagmentation step simultaneously fragmented and introduced adaptors to the DNA strands, followed by 12 cycles of PCR amplification. Library quantity and quality were assessed with Qubit™ 1X dsDNA HS Assay Kits (Invitrogen) and Bioanalyzer High Sense DNA chip. Libraries were pooled in equimolar ratios for sequencing in two Illumina HiSeq 4000 lanes at the UCSF Center for Advanced Technology.

treatment_protocol: There’s no chemical treatment in this study. Mice were single dosed with DNL919 (1mg/kg or 10mg/kg) or ATV:DNP02 (10 mg/kg) or vehicle.

tag: Sex

value: Male

tag: age unit

value: months

value: brain

tag: tissue region

value: Cortex and hipocampus

value: microglia

tag: batch

value: Batch 4

value: huTrem2 BACtg  HEMI, hTfR KI HOM

tag: treatment dose

tag: treatment dose unit

value: mg/kg

tag: treatment duration

tag: treatment duration unit

value: days

tag: takedown date


title: microglia, DNL919_10mpk, day1 (DRN-22673)

tag: strain

tag: tissue

tag: cell type


title: microglia, DNL919_10mpk, day4 (DRN-22676)

tag: age


title: microglia, DNL919_10mpk, day1 (DRN-22669)

tag: treatment


title: microglia, DNL919_10mpk, day7 (DRN-22672)


title: 443_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_E11_S251/CRISPResso_on_MR912-5-MDA-MECOM-AMP_E11_S251_L001_R1_001_MR912-5-MDA-MECOM-AMP_E11_S251_L001_R2_001/Alleles_frequency_table.zip

value: HSC

tag: chip antibody

value: Mecom KO


title: microglia, ATV:DNP02_10mpk, day1 (DRN-22666)

tag: genotype


title: microglia, Vehicle, day1 (DRN-22668)

value: Vehicle


title: 442_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR214_1_MDA_MECOM_AMP_G3_S459/CRISPResso_on_MR214_1_MDA_MECOM_AMP_G3_S459_L001_R1_001_MR214_1_MDA_MECOM_AMP_G3_S459_L001_R2_001/Alleles_frequency_table.zip


title: microglia, DNL919_10mpk, day7 (DRN-22665)


title: 440_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912_3_MDA_MECOM_AMP_C7_S607/CRISPResso_on_MR912_3_MDA_MECOM_AMP_C7_S607_L001_R1_001_MR912_3_MDA_MECOM_AMP_C7_S607_L001_R2_001/Alleles_frequency_table.zip


title: microglia, DNL919_10mpk, day4 (DRN-22664)


title: 439_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_E7_S247/CRISPResso_on_MR912-5-MDA-MECOM-AMP_E7_S247_L001_R1_001_MR912-5-MDA-MECOM-AMP_E7_S247_L001_R2_001/Alleles_frequency_table.zip


title: 441_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_E9_S249/CRISPResso_on_MR912-5-MDA-MECOM-AMP_E9_S249_L001_R1_001_MR912-5-MDA-MECOM-AMP_E9_S249_L001_R2_001/Alleles_frequency_table.zip


title: 438_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_E6_S246/CRISPResso_on_MR912-5-MDA-MECOM-AMP_E6_S246_L001_R1_001_MR912-5-MDA-MECOM-AMP_E6_S246_L001_R2_001/Alleles_frequency_table.zip


title: 437_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_E5_S245/CRISPResso_on_MR912-5-MDA-MECOM-AMP_E5_S245_L001_R1_001_MR912-5-MDA-MECOM-AMP_E5_S245_L001_R2_001/Alleles_frequency_table.zip


title: microglia, DNL919_10mpk, day1 (DRN-22660)

value: Batch 3


title: microglia, DNL919_10mpk, day7 (DRN-22659)


title: microglia, Vehicle, day1 (DRN-22661)


title: microglia, DNL919_10mpk, day4 (DRN-22656)


title: microglia, ATV:DNP02_10mpk, day1 (DRN-22652)


title: 447_Mecom amplicon seq


title: 436_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_E4_S244/CRISPResso_on_MR912-5-MDA-MECOM-AMP_E4_S244_L001_R1_001_MR912-5-MDA-MECOM-AMP_E4_S244_L001_R2_001/Alleles_frequency_table.zip


title: 448_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR214_1_MDA_MECOM_AMP_E2_S434/CRISPResso_on_MR214_1_MDA_MECOM_AMP_E2_S434_L001_R1_001_MR214_1_MDA_MECOM_AMP_E2_S434_L001_R2_001/Alleles_frequency_table.zip


title: 435_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_E3_S243/CRISPResso_on_MR912-5-MDA-MECOM-AMP_E3_S243_L001_R1_001_MR912-5-MDA-MECOM-AMP_E3_S243_L001_R2_001/Alleles_frequency_table.zip


title: microglia, DNL919_10mpk, day4 (DRN-22651)


title: 433_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_E1_S241/CRISPResso_on_MR912-5-MDA-MECOM-AMP_E1_S241_L001_R1_001_MR912-5-MDA-MECOM-AMP_E1_S241_L001_R2_001/Alleles_frequency_table.zip


title: 432_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-WTA-MECOM-AMP_A3_S291/CRISPResso_on_MR912-5-WTA-MECOM-AMP_A3_S291_L001_R1_001_MR912-5-WTA-MECOM-AMP_A3_S291_L001_R2_001/Alleles_frequency_table.zip


title: microglia, DNL919_10mpk, day4 (DRN-22644)

value: Female

value: Batch 2


title: microglia, DNL919_10mpk, day1 (DRN-22649)


title: 428_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912_3_MDA_MECOM_AMP_B8_S596/CRISPResso_on_MR912_3_MDA_MECOM_AMP_B8_S596_L001_R1_001_MR912_3_MDA_MECOM_AMP_B8_S596_L001_R2_001/Alleles_frequency_table.zip


title: 429_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_D9_S237/CRISPResso_on_MR912-5-MDA-MECOM-AMP_D9_S237_L001_R1_001_MR912-5-MDA-MECOM-AMP_D9_S237_L001_R2_001/Alleles_frequency_table.zip


title: 430_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR214_1_MDA_MECOM_AMP_B4_S400/CRISPResso_on_MR214_1_MDA_MECOM_AMP_B4_S400_L001_R1_001_MR214_1_MDA_MECOM_AMP_B4_S400_L001_R2_001/Alleles_frequency_table.zip


title: microglia, Vehicle, day1 (DRN-22648)


title: 426_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_H10_S94/CRISPResso_on_MR912-2-MDA-MECOM-AMP_H10_S94_L001_R1_001_MR912-2-MDA-MECOM-AMP_H10_S94_L001_R2_001/Alleles_frequency_table.zip


title: microglia, DNL919_10mpk, day1 (DRN-22640)


title: microglia, ATV:DNP02_10mpk, day1 (DRN-22643)


title: 431_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912_3_Bird_A1_S97/CRISPResso_on_MR912_3_Bird_A1_S97_L001_R1_001_MR912_3_Bird_A1_S97_L001_R2_001/Alleles_frequency_table.zip


title: 425_Mecom amplicon seq


title: 427_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_D7_S235/CRISPResso_on_MR912-5-MDA-MECOM-AMP_D7_S235_L001_R1_001_MR912-5-MDA-MECOM-AMP_D7_S235_L001_R2_001/Alleles_frequency_table.zip


title: microglia, Vehicle, day1 (DRN-22642)


title: 423_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_D3_S231/CRISPResso_on_MR912-5-MDA-MECOM-AMP_D3_S231_L001_R1_001_MR912-5-MDA-MECOM-AMP_D3_S231_L001_R2_001/Alleles_frequency_table.zip


title: microglia, ATV:DNP02_10mpk, day1 (DRN-22655)


title: microglia, DNL919_10mpk, day4 (DRN-22636)


title: microglia, Vehicle, day1 (DRN-22633)


title: microglia, DNL919_10mpk, day1 (DRN-22632)


title: 424_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912_3_Dog_E11_S251/CRISPResso_on_MR912_3_Dog_E11_S251_L001_R1_001_MR912_3_Dog_E11_S251_L001_R2_001/Alleles_frequency_table.zip


title: microglia, DNL919_10mpk, day7 (DRN-22635)


title: 434_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_E2_S242/CRISPResso_on_MR912-5-MDA-MECOM-AMP_E2_S242_L001_R1_001_MR912-5-MDA-MECOM-AMP_E2_S242_L001_R2_001/Alleles_frequency_table.zip


title: microglia, DNL919_10mpk, day7 (DRN-22639)


title: 421_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_D1_S229/CRISPResso_on_MR912-5-MDA-MECOM-AMP_D1_S229_L001_R1_001_MR912-5-MDA-MECOM-AMP_D1_S229_L001_R2_001/Alleles_frequency_table.zip


title: microglia, ATV:DNP02_10mpk, day1 (DRN-22630)


title: 420_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_C12_S228/CRISPResso_on_MR912-5-MDA-MECOM-AMP_C12_S228_L001_R1_001_MR912-5-MDA-MECOM-AMP_C12_S228_L001_R2_001/Alleles_frequency_table.zip


title: microglia, DNL919_10mpk, day7 (DRN-22646)


title: microglia, DNL919_10mpk, day1 (DRN-22628)

value: Batch 1


title: microglia, ATV:DNP02_10mpk, day1 (DRN-22629)


title: microglia, DNL919_10mpk, day7 (DRN-22622)


title: 418_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_C10_S226/CRISPResso_on_MR912-5-MDA-MECOM-AMP_C10_S226_L001_R1_001_MR912-5-MDA-MECOM-AMP_C10_S226_L001_R2_001/Alleles_frequency_table.zip


title: microglia, DNL919_10mpk, day7 (DRN-22626)


title: 419_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_C11_S227/CRISPResso_on_MR912-5-MDA-MECOM-AMP_C11_S227_L001_R1_001_MR912-5-MDA-MECOM-AMP_C11_S227_L001_R2_001/Alleles_frequency_table.zip


title: 413_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_C5_S221/CRISPResso_on_MR912-5-MDA-MECOM-AMP_C5_S221_L001_R1_001_MR912-5-MDA-MECOM-AMP_C5_S221_L001_R2_001/Alleles_frequency_table.zip


title: microglia, DNL919_10mpk, day4 (DRN-22623)


title: 416_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_H7_S187/CRISPResso_on_MR912-2-WTA-MECOM-AMP_H7_S187_L001_R1_001_MR912-2-WTA-MECOM-AMP_H7_S187_L001_R2_001/Alleles_frequency_table.zip


title: 417_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_C9_S225/CRISPResso_on_MR912-5-MDA-MECOM-AMP_C9_S225_L001_R1_001_MR912-5-MDA-MECOM-AMP_C9_S225_L001_R2_001/Alleles_frequency_table.zip


title: 414_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_C6_S222/CRISPResso_on_MR912-5-MDA-MECOM-AMP_C6_S222_L001_R1_001_MR912-5-MDA-MECOM-AMP_C6_S222_L001_R2_001/Alleles_frequency_table.zip


title: microglia, ATV:DNP02_10mpk, day1 (DRN-22616)


title: 415_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_C7_S223/CRISPResso_on_MR912-5-MDA-MECOM-AMP_C7_S223_L001_R1_001_MR912-5-MDA-MECOM-AMP_C7_S223_L001_R2_001/Alleles_frequency_table.zip


title: microglia, DNL919_10mpk, day1 (DRN-22620)


title: 412_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_C4_S220/CRISPResso_on_MR912-5-MDA-MECOM-AMP_C4_S220_L001_R1_001_MR912-5-MDA-MECOM-AMP_C4_S220_L001_R2_001/Alleles_frequency_table.zip


title: preSC.Wnt5a_8

city: Tampa

first: Youngchul

last: Kim

address: 12902 Magnolia Dr

institute: H. Lee Moffitt Cancer Center

data_processing:
alignment were made using Tophat and Bowtie.
count data were generated using HTSeq
Regularized log2 transformation were made using DESeq2 package.
processed data files format is tax-delimited text and includes raw and normalized read-count.

growth_protocol: cells were matained in RPMI1640 plus 10% bovine growth serum and 1% Pen-Strep and at 5% CO2 and 37 degree celcius

extract_protocol:
RNeasy  kit (Qiagen) wsa used to extract total RNAs from cells
Oligo dT-purified mRNA from 500ng of total RNA to generate the sequencing libraries using the NEBNext Ultra RNA library preparation kit (New England Biolabs)

treatment_protocol: both empty preSC and Wnt5a-preSC were treated with doxycycline (1ug/mL) for 48 hours before harvest for RNA extraction

value: Chga-positive, lung neuroendocrine cells

tag: genotype/variation

value: Rb1 null, Trp53 null, Rbl2 heterozygous null; infected with lentiviral-Wnt5a


title: microglia, DNL919_10mpk, day4 (DRN-22621)

tag: Sex

value: months


title: microglia, Vehicle, day1 (DRN-22615)

tag: age unit

value: brain


title: 411_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR214_1_Cat_A4_S4/CRISPResso_on_MR214_1_Cat_A4_S4_L001_R1_001_MR214_1_Cat_A4_S4_L001_R2_001/Alleles_frequency_table.zip


title: 410_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_C2_S218/CRISPResso_on_MR912-5-MDA-MECOM-AMP_C2_S218_L001_R1_001_MR912-5-MDA-MECOM-AMP_C2_S218_L001_R2_001/Alleles_frequency_table.zip


title: 422_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_D2_S230/CRISPResso_on_MR912-5-MDA-MECOM-AMP_D2_S230_L001_R1_001_MR912-5-MDA-MECOM-AMP_D2_S230_L001_R2_001/Alleles_frequency_table.zip


title: preSC.Wnt5a_6


title: 408_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_B12_S216/CRISPResso_on_MR912-5-MDA-MECOM-AMP_B12_S216_L001_R1_001_MR912-5-MDA-MECOM-AMP_B12_S216_L001_R2_001/Alleles_frequency_table.zip


title: preSC.Wnt5a_7


title: 409_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR214_1_MDA_MECOM_AMP_F12_S456/CRISPResso_on_MR214_1_MDA_MECOM_AMP_F12_S456_L001_R1_001_MR214_1_MDA_MECOM_AMP_F12_S456_L001_R2_001/Alleles_frequency_table.zip


title: 407_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_B11_S215/CRISPResso_on_MR912-5-MDA-MECOM-AMP_B11_S215_L001_R1_001_MR912-5-MDA-MECOM-AMP_B11_S215_L001_R2_001/Alleles_frequency_table.zip


title: preSC.Wnt5a_5


title: preSC.Wnt5a_4


title: preSC.Wnt5a_3


title: preSC.Wnt5a_2


title: 405_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_B9_S213/CRISPResso_on_MR912-5-MDA-MECOM-AMP_B9_S213_L001_R1_001_MR912-5-MDA-MECOM-AMP_B9_S213_L001_R2_001/Alleles_frequency_table.zip


title: 403_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_B7_S211/CRISPResso_on_MR912-5-MDA-MECOM-AMP_B7_S211_L001_R1_001_MR912-5-MDA-MECOM-AMP_B7_S211_L001_R2_001/Alleles_frequency_table.zip


title: preSC.Wnt5a_1


title: preSC.empty_7

description: empty preSC

source_name: empty preSC

value: Rb1 null, Trp53 null, Rbl2 heterozygous null; infected with lentiviral empty control


title: preSC.empty_8

description: empty preSC


title: preSC.empty_6

description: empty preSC


title: 401_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_B5_S209/CRISPResso_on_MR912-5-MDA-MECOM-AMP_B5_S209_L001_R1_001_MR912-5-MDA-MECOM-AMP_B5_S209_L001_R2_001/Alleles_frequency_table.zip


title: preSC.empty_4

description: empty preSC


title: 399_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_B3_S207/CRISPResso_on_MR912-5-MDA-MECOM-AMP_B3_S207_L001_R1_001_MR912-5-MDA-MECOM-AMP_B3_S207_L001_R2_001/Alleles_frequency_table.zip


title: 400_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_B4_S208/CRISPResso_on_MR912-5-MDA-MECOM-AMP_B4_S208_L001_R1_001_MR912-5-MDA-MECOM-AMP_B4_S208_L001_R2_001/Alleles_frequency_table.zip


title: preSC.empty_3

description: empty preSC


title: preSC.empty_2

description: empty preSC


title: preSC.empty_1

description: empty preSC


title: 406_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_B10_S214/CRISPResso_on_MR912-5-MDA-MECOM-AMP_B10_S214_L001_R1_001_MR912-5-MDA-MECOM-AMP_B10_S214_L001_R2_001/Alleles_frequency_table.zip


title: 393_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_A9_S201/CRISPResso_on_MR912-5-MDA-MECOM-AMP_A9_S201_L001_R1_001_MR912-5-MDA-MECOM-AMP_A9_S201_L001_R2_001/Alleles_frequency_table.zip


title: 10_CUTnTag_2cell_noAb_NaCl150mM

data_processing:
Library strategy: CUT&Tag
Base calling was performed using bcl2fastq Conversion Software by the Department of Totipotency, MPIB
Low quality reads were trimmed out using TrimGalore (version 0.6.2) using parameters: --paired --quality 20 --nextera --length 20
Read mapping was done using Bowtie2 (version 2.3.5.1) using parameters: -t -q -N 1 -L 25 -X 2000 --no-mixed --no-discordant. All reads were mapped to mm10 genome.
Unmapped reads, low mapping quality reads (Q<30) were removed. PCR duplicated reads were identified and discarded using the MarkDuplicates command from Picard (version 2.18.27) with parameters: VALIDATION_STRINGENCY=LENIENT.
The RPKM values were calculated to represent read coverage using bamCoverage function from deepTools (version 3.1.2) with parameters: --normalizeUsing RPKM --binSize 1 --ignoreDuplicates --extendReads.
Genome_build: mm10

extract_protocol: CUT&Tag was performed as described previously with a few modifications (Kaya-Okur, H.S., Wu, S.J., Codomo, C.A. et al. CUT&Tag for efficient epigenomic profiling of small samples and single cells. Nat Commun 10, 1930 (2019)). Cells with intact zona pellucida were pre-extracted and lightly fixed by DPBS with 0.1% formaldehyde for 2 min at room temperature. Tagmentation of chromatin bound by antibodies and pA-Tn5 was done in wash buffer with either low (150 mM NaCl) or high (300 mM NaCl) salt condition. Extracted DNA was amplified for 15 PCR cycles, then, libraries were purified by 1.1xAMPure XP magnetic beads (Beckman Coulter) and were eluted in 20 µl of RNase-free water.

treatment_protocol: GV-stage oocytes were isolated from 8-12 weeks old C57BL/6J female mice by puncturing of ovaries. For isolation of 2C-embryos, 3-5 weeks old B6129F1 female mice were superovulated by injection of PMSG (5IU) followed by hCG injection 48 hours later. After injection, females were transferred into stud cages with B6CBAF1 male mice. 2C-embryos were obtained by puncturing the oviduct after 45-46 hours post hCG injection (33-34 hours post fertilization (hpf)).

value: B6129F1 x B6CBAF1

tag: developmental stage

value: 2-cell embryo

tag: cut&tag antibody

value: no primary antibody

tag: tagmentation salt concentration

value: 150 mM NaCl


title: 9_CUTnTag_2cell_noAb_NaCl300mM

value: 300 mM NaCl


title: 395_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_A11_S203/CRISPResso_on_MR912-5-MDA-MECOM-AMP_A11_S203_L001_R1_001_MR912-5-MDA-MECOM-AMP_A11_S203_L001_R2_001/Alleles_frequency_table.zip

value: HSC


title: 8_CUTnTag_2cell_Esrrb_rep2

value: anti-Esrrb (Perseus Proteomics, PP-H6705-00)


title: 397_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_B1_S205/CRISPResso_on_MR912-5-MDA-MECOM-AMP_B1_S205_L001_R1_001_MR912-5-MDA-MECOM-AMP_B1_S205_L001_R2_001/Alleles_frequency_table.zip

value: Mecom KO


title: 396_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_B11_S23/CRISPResso_on_MR912-2-MDA-MECOM-AMP_B11_S23_L001_R1_001_MR912-2-MDA-MECOM-AMP_B11_S23_L001_R2_001/Alleles_frequency_table.zip


title: 394_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_A10_S202/CRISPResso_on_MR912-5-MDA-MECOM-AMP_A10_S202_L001_R1_001_MR912-5-MDA-MECOM-AMP_A10_S202_L001_R2_001/Alleles_frequency_table.zip


title: 7_CUTnTag_2cell_Esrrb_rep1


title: 391_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_A7_S199/CRISPResso_on_MR912-5-MDA-MECOM-AMP_A7_S199_L001_R1_001_MR912-5-MDA-MECOM-AMP_A7_S199_L001_R2_001/Alleles_frequency_table.zip


title: 404_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_B8_S212/CRISPResso_on_MR912-5-MDA-MECOM-AMP_B8_S212_L001_R1_001_MR912-5-MDA-MECOM-AMP_B8_S212_L001_R2_001/Alleles_frequency_table.zip


title: 390_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_A6_S198/CRISPResso_on_MR912-5-MDA-MECOM-AMP_A6_S198_L001_R1_001_MR912-5-MDA-MECOM-AMP_A6_S198_L001_R2_001/Alleles_frequency_table.zip


title: 402_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_B6_S210/CRISPResso_on_MR912-5-MDA-MECOM-AMP_B6_S210_L001_R1_001_MR912-5-MDA-MECOM-AMP_B6_S210_L001_R2_001/Alleles_frequency_table.zip


title: 389_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_A5_S197/CRISPResso_on_MR912-5-MDA-MECOM-AMP_A5_S197_L001_R1_001_MR912-5-MDA-MECOM-AMP_A5_S197_L001_R2_001/Alleles_frequency_table.zip


title: 6_CUTnTag_2cell_Nr5a2_rep2

value: anti-Nr5a2 (Merck, ABE2867)


title: 5_CUTnTag_2cell_Nr5a2_rep1


title: preSC.empty_5

description: empty preSC


title: 398_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_B2_S206/CRISPResso_on_MR912-5-MDA-MECOM-AMP_B2_S206_L001_R1_001_MR912-5-MDA-MECOM-AMP_B2_S206_L001_R2_001/Alleles_frequency_table.zip


title: 3_CUTnTag_oocyte_noAb_rep1

source_name: GV oocyte

value: GV oocyte


title: 386_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_A2_S194/CRISPResso_on_MR912-5-MDA-MECOM-AMP_A2_S194_L001_R1_001_MR912-5-MDA-MECOM-AMP_A2_S194_L001_R2_001/Alleles_frequency_table.zip


title: 388_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_C6_S30/CRISPResso_on_MR912-2-MDA-MECOM-AMP_C6_S30_L001_R1_001_MR912-2-MDA-MECOM-AMP_C6_S30_L001_R2_001/Alleles_frequency_table.zip


title: 385_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_A1_S193/CRISPResso_on_MR912-5-MDA-MECOM-AMP_A1_S193_L001_R1_001_MR912-5-MDA-MECOM-AMP_A1_S193_L001_R2_001/Alleles_frequency_table.zip


title: 1_CUTnTag_oocyte_H3K4me3_rep1


title: 2_omniATAC_2cell_SR1848_rep1

data_processing:
Base calling was performed using bcl2fastq Conversion Software by the Department of Totipotency, MPIB
Low quality reads were trimmed out using TrimGalore (version 0.6.2) using parameters: --paired --quality 20 --nextera --length 20
Read mapping was done using Bowtie2 (version 2.3.5.1) using parameters: -t -q -N 1 -L 25 -X 2000 --no-mixed --no-discordant. All reads were mapped to mm10 genome.
Unmapped reads, low mapping quality reads (Q<30) were removed. PCR duplicated reads were identified and discarded using the MarkDuplicates command from Picard (version 2.18.27) with parameters: VALIDATION_STRINGENCY=LENIENT.
The RPKM values were calculated to represent read coverage using bamCoverage function from deepTools (version 3.1.2) with parameters: --normalizeUsing RPKM --binSize 1 --ignoreDuplicates --extendReads.
Genome_build: mm10

value: Preimplantation embryo


title: 392_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_A8_S200/CRISPResso_on_MR912-5-MDA-MECOM-AMP_A8_S200_L001_R1_001_MR912-5-MDA-MECOM-AMP_A8_S200_L001_R2_001/Alleles_frequency_table.zip


title: 2_CUTnTag_oocyte_H3K4me3_rep2


title: 285_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_H9_S189/CRISPResso_on_MR912-2-WTA-MECOM-AMP_H9_S189_L001_R1_001_MR912-2-WTA-MECOM-AMP_H9_S189_L001_R2_001/Alleles_frequency_table.zip


title: 287_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_H11_S191/CRISPResso_on_MR912-2-WTA-MECOM-AMP_H11_S191_L001_R1_001_MR912-2-WTA-MECOM-AMP_H11_S191_L001_R2_001/Alleles_frequency_table.zip


title: N+/S+ Donor4 (DP4)

city: BIRMINGHAM

first: Masakazu

last: Kamata

state: AL

address: 845 19TH ST S, BBRB 842, BBRB 842

institute: University of Alabama at Birmingham

description: DP-Replicate 4

data_processing:
Illumina bcl2fastq v2.18.0.12 was used for basecalling
FASTQ files were aligned with STAR version 2.7.9a using parameters: --outReadsUnmapped Fastx --outSAMtype BAM SortedByCoordinate --outSAMattributes All
Transcript abundances were calculated using HTSeq-count version 0.11.3 using parameters: -m union -r pos -t exon -i gene_id -a 10 -s no -f bam
Raw counts were then normalized using DESeq2 version 1.30.1 following their default settings in their vignette
Genome_build: Gencode GRCh38 p13 Release 36
Supplementary_files_format_and_content: Excel file containing Ensebbl IDs and raw count values for each sample

source_name: Non-vaccinated donor positive for anti-N and anti-S IgGs

extract_protocol:
CD34+ cells were isolated by autoMACS. Total RNA was harvested using Zymo RNA isolation kit (Dorect-zol RNA kits: R2061). 1 ug of total RNA was used for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols

tag: group

tag: individual

value: N+/S+ Donor4

value: CD34+ cells

value: umbilical cord blood (UCB)


title: 286_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_H10_S190/CRISPResso_on_MR912-2-WTA-MECOM-AMP_H10_S190_L001_R1_001_MR912-2-WTA-MECOM-AMP_H10_S190_L001_R2_001/Alleles_frequency_table.zip


title: N+/S+ Donor5 (DP5)

description: DP-Replicate 5

value: N+/S+ Donor5


title: 284_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_H8_S188/CRISPResso_on_MR912-2-WTA-MECOM-AMP_H8_S188_L001_R1_001_MR912-2-WTA-MECOM-AMP_H8_S188_L001_R2_001/Alleles_frequency_table.zip


title: N+/S+ Donor2 (DP2)

description: DP-Replicate 2

value: N+/S+ Donor2


title: N+/S+ Donor3 (DP3)

description: DP-Replicate 3

value: N+/S+ Donor3


title: 1_omniATAC_2cell_DMSO_rep1

value: B6129F1 x B6CBAF1

value: DMSO


title: N+/S+ Donor1 (DP1)

description: DP-Replicate 1

value: N+/S+ Donor1


title: 283_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_H7_S187/CRISPResso_on_MR912-2-WTA-MECOM-AMP_H7_S187_L001_R1_001_MR912-2-WTA-MECOM-AMP_H7_S187_L001_R2_001/Alleles_frequency_table.zip


title: 282_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_H6_S186/CRISPResso_on_MR912-2-WTA-MECOM-AMP_H6_S186_L001_R1_001_MR912-2-WTA-MECOM-AMP_H6_S186_L001_R2_001/Alleles_frequency_table.zip


title: 4_CUTnTag_oocyte_noAb_rep2

value: no primary antibody


title: 281_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_H5_S185/CRISPResso_on_MR912-2-WTA-MECOM-AMP_H5_S185_L001_R1_001_MR912-2-WTA-MECOM-AMP_H5_S185_L001_R2_001/Alleles_frequency_table.zip


title: N-/S- Donor4 (N4)

description: N-Replicate 4

source_name: Non-vaccinated donor negative for anti-N and anti-S IgGs

value: N-/S- Donor4


title: 280_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_H4_S184/CRISPResso_on_MR912-2-WTA-MECOM-AMP_H4_S184_L001_R1_001_MR912-2-WTA-MECOM-AMP_H4_S184_L001_R2_001/Alleles_frequency_table.zip

value: HSC


title: N-/S- Donor2 (N2)

description: N-Replicate 2

value: N-/S- Donor2


title: 279_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_H3_S183/CRISPResso_on_MR912-2-WTA-MECOM-AMP_H3_S183_L001_R1_001_MR912-2-WTA-MECOM-AMP_H3_S183_L001_R2_001/Alleles_frequency_table.zip

value: Mecom KO


title: N-/S- Donor3 (N3)

description: N-Replicate 3

value: N-/S- Donor3


title: N-/S- Donor1 (N1)

description: N-Replicate 1

value: N-/S- Donor1


title: 387_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_A3_S195/CRISPResso_on_MR912-5-MDA-MECOM-AMP_A3_S195_L001_R1_001_MR912-5-MDA-MECOM-AMP_A3_S195_L001_R2_001/Alleles_frequency_table.zip


title: 288_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_H12_S192/CRISPResso_on_MR912-2-WTA-MECOM-AMP_H12_S192_L001_R1_001_MR912-2-WTA-MECOM-AMP_H12_S192_L001_R2_001/Alleles_frequency_table.zip


title: 277_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_H1_S181/CRISPResso_on_MR912-2-WTA-MECOM-AMP_H1_S181_L001_R1_001_MR912-2-WTA-MECOM-AMP_H1_S181_L001_R2_001/Alleles_frequency_table.zip


title: 275_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_G11_S179/CRISPResso_on_MR912-2-WTA-MECOM-AMP_G11_S179_L001_R1_001_MR912-2-WTA-MECOM-AMP_G11_S179_L001_R2_001/Alleles_frequency_table.zip


title: 278_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_H2_S182/CRISPResso_on_MR912-2-WTA-MECOM-AMP_H2_S182_L001_R1_001_MR912-2-WTA-MECOM-AMP_H2_S182_L001_R2_001/Alleles_frequency_table.zip


title: 272_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_G8_S176/CRISPResso_on_MR912-2-WTA-MECOM-AMP_G8_S176_L001_R1_001_MR912-2-WTA-MECOM-AMP_G8_S176_L001_R2_001/Alleles_frequency_table.zip


title: S763_single cell rna seq by Smart Seq2

description:
single cell SS2 for MECOM KO
ss2_processed.tar
ss2_processed.tar/MR214_2.dge.txt.gz

data_processing:
Basecalls performed using CASAVA version 1.4 and bcl2fastq2 v2.20.0
Cumulus pipeline for SmartSeq2
Cumulus pipeline for bulkRNA
CRISPResso2
Genome_build:  Human reference genome GRCh38 and gene annotation reference Homo_sapiens.GRCh38.93.gtf
Supplementary_files_format_and_content: matrix

extract_protocol:
mRNA isolated by  polyT beads
Smart Seq2

treatment_protocol: AAVS1  or MECOM KO

value: MECOM KO


title: S762_single cell rna seq by Smart Seq2


title: S768_single cell rna seq by Smart Seq2


title: S766_single cell rna seq by Smart Seq2


title: 273_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_G9_S177/CRISPResso_on_MR912-2-WTA-MECOM-AMP_G9_S177_L001_R1_001_MR912-2-WTA-MECOM-AMP_G9_S177_L001_R2_001/Alleles_frequency_table.zip


title: S765_single cell rna seq by Smart Seq2


title: S767_single cell rna seq by Smart Seq2


title: 271_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_G7_S175/CRISPResso_on_MR912-2-WTA-MECOM-AMP_G7_S175_L001_R1_001_MR912-2-WTA-MECOM-AMP_G7_S175_L001_R2_001/Alleles_frequency_table.zip


title: S761_single cell rna seq by Smart Seq2


title: S760_single cell rna seq by Smart Seq2


title: 274_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_G10_S178/CRISPResso_on_MR912-2-WTA-MECOM-AMP_G10_S178_L001_R1_001_MR912-2-WTA-MECOM-AMP_G10_S178_L001_R2_001/Alleles_frequency_table.zip


title: 269_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_G5_S173/CRISPResso_on_MR912-2-WTA-MECOM-AMP_G5_S173_L001_R1_001_MR912-2-WTA-MECOM-AMP_G5_S173_L001_R2_001/Alleles_frequency_table.zip


title: S758_single cell rna seq by Smart Seq2


title: S759_single cell rna seq by Smart Seq2


title: 270_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_G6_S174/CRISPResso_on_MR912-2-WTA-MECOM-AMP_G6_S174_L001_R1_001_MR912-2-WTA-MECOM-AMP_G6_S174_L001_R2_001/Alleles_frequency_table.zip


title: 267_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_G3_S171/CRISPResso_on_MR912-2-WTA-MECOM-AMP_G3_S171_L001_R1_001_MR912-2-WTA-MECOM-AMP_G3_S171_L001_R2_001/Alleles_frequency_table.zip


title: S756_single cell rna seq by Smart Seq2


title: 268_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_G4_S172/CRISPResso_on_MR912-2-WTA-MECOM-AMP_G4_S172_L001_R1_001_MR912-2-WTA-MECOM-AMP_G4_S172_L001_R2_001/Alleles_frequency_table.zip


title: 265_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_G1_S169/CRISPResso_on_MR912-2-WTA-MECOM-AMP_G1_S169_L001_R1_001_MR912-2-WTA-MECOM-AMP_G1_S169_L001_R2_001/Alleles_frequency_table.zip


title: 264_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_F12_S168/CRISPResso_on_MR912-2-WTA-MECOM-AMP_F12_S168_L001_R1_001_MR912-2-WTA-MECOM-AMP_F12_S168_L001_R2_001/Alleles_frequency_table.zip


title: S755_single cell rna seq by Smart Seq2


title: S754_single cell rna seq by Smart Seq2


title: 276_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_G12_S180/CRISPResso_on_MR912-2-WTA-MECOM-AMP_G12_S180_L001_R1_001_MR912-2-WTA-MECOM-AMP_G12_S180_L001_R2_001/Alleles_frequency_table.zip


title: 263_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_F11_S167/CRISPResso_on_MR912-2-WTA-MECOM-AMP_F11_S167_L001_R1_001_MR912-2-WTA-MECOM-AMP_F11_S167_L001_R2_001/Alleles_frequency_table.zip


title: S764_single cell rna seq by Smart Seq2


title: S753_single cell rna seq by Smart Seq2


title: 261_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_F9_S165/CRISPResso_on_MR912-2-WTA-MECOM-AMP_F9_S165_L001_R1_001_MR912-2-WTA-MECOM-AMP_F9_S165_L001_R2_001/Alleles_frequency_table.zip


title: S751_single cell rna seq by Smart Seq2


title: 258_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_F6_S162/CRISPResso_on_MR912-2-WTA-MECOM-AMP_F6_S162_L001_R1_001_MR912-2-WTA-MECOM-AMP_F6_S162_L001_R2_001/Alleles_frequency_table.zip


title: S750_single cell rna seq by Smart Seq2


title: S748_single cell rna seq by Smart Seq2


title: 257_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_F5_S161/CRISPResso_on_MR912-2-WTA-MECOM-AMP_F5_S161_L001_R1_001_MR912-2-WTA-MECOM-AMP_F5_S161_L001_R2_001/Alleles_frequency_table.zip


title: 259_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_F7_S163/CRISPResso_on_MR912-2-WTA-MECOM-AMP_F7_S163_L001_R1_001_MR912-2-WTA-MECOM-AMP_F7_S163_L001_R2_001/Alleles_frequency_table.zip


title: S757_single cell rna seq by Smart Seq2


title: S747_single cell rna seq by Smart Seq2


title: 260_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_F8_S164/CRISPResso_on_MR912-2-WTA-MECOM-AMP_F8_S164_L001_R1_001_MR912-2-WTA-MECOM-AMP_F8_S164_L001_R2_001/Alleles_frequency_table.zip


title: S746_single cell rna seq by Smart Seq2

description:
single cell SS2 for MECOM KO
ss2_processed.tar
ss2_processed.tar/MR214_2.dge.txt.gz


title: S749_single cell rna seq by Smart Seq2


title: S745_single cell rna seq by Smart Seq2


title: 254_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_F2_S158/CRISPResso_on_MR912-2-WTA-MECOM-AMP_F2_S158_L001_R1_001_MR912-2-WTA-MECOM-AMP_F2_S158_L001_R2_001/Alleles_frequency_table.zip


title: S744_single cell rna seq by Smart Seq2


title: 266_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_G2_S170/CRISPResso_on_MR912-2-WTA-MECOM-AMP_G2_S170_L001_R1_001_MR912-2-WTA-MECOM-AMP_G2_S170_L001_R2_001/Alleles_frequency_table.zip


title: S743_single cell rna seq by Smart Seq2


title: S742_single cell rna seq by Smart Seq2


title: 253_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_F1_S157/CRISPResso_on_MR912-2-WTA-MECOM-AMP_F1_S157_L001_R1_001_MR912-2-WTA-MECOM-AMP_F1_S157_L001_R2_001/Alleles_frequency_table.zip


title: 262_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_F10_S166/CRISPResso_on_MR912-2-WTA-MECOM-AMP_F10_S166_L001_R1_001_MR912-2-WTA-MECOM-AMP_F10_S166_L001_R2_001/Alleles_frequency_table.zip


title: 252_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_E12_S156/CRISPResso_on_MR912-2-WTA-MECOM-AMP_E12_S156_L001_R1_001_MR912-2-WTA-MECOM-AMP_E12_S156_L001_R2_001/Alleles_frequency_table.zip


title: S752_single cell rna seq by Smart Seq2


title: 251_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_E11_S155/CRISPResso_on_MR912-2-WTA-MECOM-AMP_E11_S155_L001_R1_001_MR912-2-WTA-MECOM-AMP_E11_S155_L001_R2_001/Alleles_frequency_table.zip


title: 250_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_E10_S154/CRISPResso_on_MR912-2-WTA-MECOM-AMP_E10_S154_L001_R1_001_MR912-2-WTA-MECOM-AMP_E10_S154_L001_R2_001/Alleles_frequency_table.zip


title: 256_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_F4_S160/CRISPResso_on_MR912-2-WTA-MECOM-AMP_F4_S160_L001_R1_001_MR912-2-WTA-MECOM-AMP_F4_S160_L001_R2_001/Alleles_frequency_table.zip


title: S741_single cell rna seq by Smart Seq2


title: S740_single cell rna seq by Smart Seq2


title: S739_single cell rna seq by Smart Seq2


title: 249_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_E9_S153/CRISPResso_on_MR912-2-WTA-MECOM-AMP_E9_S153_L001_R1_001_MR912-2-WTA-MECOM-AMP_E9_S153_L001_R2_001/Alleles_frequency_table.zip


title: 248_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_E8_S152/CRISPResso_on_MR912-2-WTA-MECOM-AMP_E8_S152_L001_R1_001_MR912-2-WTA-MECOM-AMP_E8_S152_L001_R2_001/Alleles_frequency_table.zip


title: S738_single cell rna seq by Smart Seq2


title: S737_single cell rna seq by Smart Seq2


title: 246_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_E6_S150/CRISPResso_on_MR912-2-WTA-MECOM-AMP_E6_S150_L001_R1_001_MR912-2-WTA-MECOM-AMP_E6_S150_L001_R2_001/Alleles_frequency_table.zip


title: S736_single cell rna seq by Smart Seq2


title: 247_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_E7_S151/CRISPResso_on_MR912-2-WTA-MECOM-AMP_E7_S151_L001_R1_001_MR912-2-WTA-MECOM-AMP_E7_S151_L001_R2_001/Alleles_frequency_table.zip


title: 245_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_E5_S149/CRISPResso_on_MR912-2-WTA-MECOM-AMP_E5_S149_L001_R1_001_MR912-2-WTA-MECOM-AMP_E5_S149_L001_R2_001/Alleles_frequency_table.zip


title: S734_single cell rna seq by Smart Seq2


title: 244_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_E4_S148/CRISPResso_on_MR912-2-WTA-MECOM-AMP_E4_S148_L001_R1_001_MR912-2-WTA-MECOM-AMP_E4_S148_L001_R2_001/Alleles_frequency_table.zip


title: S735_single cell rna seq by Smart Seq2


title: S733_single cell rna seq by Smart Seq2


title: 243_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_E3_S147/CRISPResso_on_MR912-2-WTA-MECOM-AMP_E3_S147_L001_R1_001_MR912-2-WTA-MECOM-AMP_E3_S147_L001_R2_001/Alleles_frequency_table.zip


title: 242_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_E2_S146/CRISPResso_on_MR912-2-WTA-MECOM-AMP_E2_S146_L001_R1_001_MR912-2-WTA-MECOM-AMP_E2_S146_L001_R2_001/Alleles_frequency_table.zip


title: S732_single cell rna seq by Smart Seq2

description:
single cell SS2 for MECOM KO
ss2_processed.tar
ss2_processed.tar/MR214_2.dge.txt.gz


title: 240_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_D12_S144/CRISPResso_on_MR912-2-WTA-MECOM-AMP_D12_S144_L001_R1_001_MR912-2-WTA-MECOM-AMP_D12_S144_L001_R2_001/Alleles_frequency_table.zip


title: S730_single cell rna seq by Smart Seq2


title: S731_single cell rna seq by Smart Seq2


title: S729_single cell rna seq by Smart Seq2


title: 255_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_F3_S159/CRISPResso_on_MR912-2-WTA-MECOM-AMP_F3_S159_L001_R1_001_MR912-2-WTA-MECOM-AMP_F3_S159_L001_R2_001/Alleles_frequency_table.zip


title: 238_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_D10_S142/CRISPResso_on_MR912-2-WTA-MECOM-AMP_D10_S142_L001_R1_001_MR912-2-WTA-MECOM-AMP_D10_S142_L001_R2_001/Alleles_frequency_table.zip


title: 239_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_D11_S143/CRISPResso_on_MR912-2-WTA-MECOM-AMP_D11_S143_L001_R1_001_MR912-2-WTA-MECOM-AMP_D11_S143_L001_R2_001/Alleles_frequency_table.zip


title: S728_single cell rna seq by Smart Seq2


title: S727_single cell rna seq by Smart Seq2


title: S726_single cell rna seq by Smart Seq2


title: 237_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_D9_S141/CRISPResso_on_MR912-2-WTA-MECOM-AMP_D9_S141_L001_R1_001_MR912-2-WTA-MECOM-AMP_D9_S141_L001_R2_001/Alleles_frequency_table.zip


title: S725_single cell rna seq by Smart Seq2


title: 234_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_D6_S138/CRISPResso_on_MR912-2-WTA-MECOM-AMP_D6_S138_L001_R1_001_MR912-2-WTA-MECOM-AMP_D6_S138_L001_R2_001/Alleles_frequency_table.zip


title: 236_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_D8_S140/CRISPResso_on_MR912-2-WTA-MECOM-AMP_D8_S140_L001_R1_001_MR912-2-WTA-MECOM-AMP_D8_S140_L001_R2_001/Alleles_frequency_table.zip


title: S724_single cell rna seq by Smart Seq2


title: 232_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_D4_S136/CRISPResso_on_MR912-2-WTA-MECOM-AMP_D4_S136_L001_R1_001_MR912-2-WTA-MECOM-AMP_D4_S136_L001_R2_001/Alleles_frequency_table.zip


title: S722_single cell rna seq by Smart Seq2


title: S721_single cell rna seq by Smart Seq2


title: S720_single cell rna seq by Smart Seq2


title: 230_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_D2_S134/CRISPResso_on_MR912-2-WTA-MECOM-AMP_D2_S134_L001_R1_001_MR912-2-WTA-MECOM-AMP_D2_S134_L001_R2_001/Alleles_frequency_table.zip


title: 229_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_D1_S133/CRISPResso_on_MR912-2-WTA-MECOM-AMP_D1_S133_L001_R1_001_MR912-2-WTA-MECOM-AMP_D1_S133_L001_R2_001/Alleles_frequency_table.zip


title: 241_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_E1_S145/CRISPResso_on_MR912-2-WTA-MECOM-AMP_E1_S145_L001_R1_001_MR912-2-WTA-MECOM-AMP_E1_S145_L001_R2_001/Alleles_frequency_table.zip


title: S719_single cell rna seq by Smart Seq2


title: S718_single cell rna seq by Smart Seq2


title: 228_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_C12_S132/CRISPResso_on_MR912-2-WTA-MECOM-AMP_C12_S132_L001_R1_001_MR912-2-WTA-MECOM-AMP_C12_S132_L001_R2_001/Alleles_frequency_table.zip


title: 227_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_C11_S131/CRISPResso_on_MR912-2-WTA-MECOM-AMP_C11_S131_L001_R1_001_MR912-2-WTA-MECOM-AMP_C11_S131_L001_R2_001/Alleles_frequency_table.zip


title: S715_single cell rna seq by Smart Seq2


title: 235_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_D7_S139/CRISPResso_on_MR912-2-WTA-MECOM-AMP_D7_S139_L001_R1_001_MR912-2-WTA-MECOM-AMP_D7_S139_L001_R2_001/Alleles_frequency_table.zip


title: 225_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_C9_S129/CRISPResso_on_MR912-2-WTA-MECOM-AMP_C9_S129_L001_R1_001_MR912-2-WTA-MECOM-AMP_C9_S129_L001_R2_001/Alleles_frequency_table.zip


title: S716_single cell rna seq by Smart Seq2


title: 226_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_C10_S130/CRISPResso_on_MR912-2-WTA-MECOM-AMP_C10_S130_L001_R1_001_MR912-2-WTA-MECOM-AMP_C10_S130_L001_R2_001/Alleles_frequency_table.zip


title: 233_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_D5_S137/CRISPResso_on_MR912-2-WTA-MECOM-AMP_D5_S137_L001_R1_001_MR912-2-WTA-MECOM-AMP_D5_S137_L001_R2_001/Alleles_frequency_table.zip


title: 224_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_C8_S128/CRISPResso_on_MR912-2-WTA-MECOM-AMP_C8_S128_L001_R1_001_MR912-2-WTA-MECOM-AMP_C8_S128_L001_R2_001/Alleles_frequency_table.zip


title: S717_single cell rna seq by Smart Seq2

description:
single cell SS2 for MECOM KO
ss2_processed.tar
ss2_processed.tar/MR214_2.dge.txt.gz


title: S713_single cell rna seq by Smart Seq2


title: S711_single cell rna seq by Smart Seq2


title: 223_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_C7_S127/CRISPResso_on_MR912-2-WTA-MECOM-AMP_C7_S127_L001_R1_001_MR912-2-WTA-MECOM-AMP_C7_S127_L001_R2_001/Alleles_frequency_table.zip


title: 221_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_C5_S125/CRISPResso_on_MR912-2-WTA-MECOM-AMP_C5_S125_L001_R1_001_MR912-2-WTA-MECOM-AMP_C5_S125_L001_R2_001/Alleles_frequency_table.zip


title: 220_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_C4_S124/CRISPResso_on_MR912-2-WTA-MECOM-AMP_C4_S124_L001_R1_001_MR912-2-WTA-MECOM-AMP_C4_S124_L001_R2_001/Alleles_frequency_table.zip


title: S723_single cell rna seq by Smart Seq2


title: 222_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_C6_S126/CRISPResso_on_MR912-2-WTA-MECOM-AMP_C6_S126_L001_R1_001_MR912-2-WTA-MECOM-AMP_C6_S126_L001_R2_001/Alleles_frequency_table.zip


title: S710_single cell rna seq by Smart Seq2


title: 218_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_C2_S122/CRISPResso_on_MR912-2-WTA-MECOM-AMP_C2_S122_L001_R1_001_MR912-2-WTA-MECOM-AMP_C2_S122_L001_R2_001/Alleles_frequency_table.zip


title: S709_single cell rna seq by Smart Seq2


title: S708_single cell rna seq by Smart Seq2


title: 217_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_C1_S121/CRISPResso_on_MR912-2-WTA-MECOM-AMP_C1_S121_L001_R1_001_MR912-2-WTA-MECOM-AMP_C1_S121_L001_R2_001/Alleles_frequency_table.zip


title: 219_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_C3_S123/CRISPResso_on_MR912-2-WTA-MECOM-AMP_C3_S123_L001_R1_001_MR912-2-WTA-MECOM-AMP_C3_S123_L001_R2_001/Alleles_frequency_table.zip


title: 231_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_D3_S135/CRISPResso_on_MR912-2-WTA-MECOM-AMP_D3_S135_L001_R1_001_MR912-2-WTA-MECOM-AMP_D3_S135_L001_R2_001/Alleles_frequency_table.zip


title: 216_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_B12_S120/CRISPResso_on_MR912-2-WTA-MECOM-AMP_B12_S120_L001_R1_001_MR912-2-WTA-MECOM-AMP_B12_S120_L001_R2_001/Alleles_frequency_table.zip


title: S707_single cell rna seq by Smart Seq2


title: 215_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_B11_S119/CRISPResso_on_MR912-2-WTA-MECOM-AMP_B11_S119_L001_R1_001_MR912-2-WTA-MECOM-AMP_B11_S119_L001_R2_001/Alleles_frequency_table.zip


title: 212_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_B8_S116/CRISPResso_on_MR912-2-WTA-MECOM-AMP_B8_S116_L001_R1_001_MR912-2-WTA-MECOM-AMP_B8_S116_L001_R2_001/Alleles_frequency_table.zip


title: 211_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_B7_S115/CRISPResso_on_MR912-2-WTA-MECOM-AMP_B7_S115_L001_R1_001_MR912-2-WTA-MECOM-AMP_B7_S115_L001_R2_001/Alleles_frequency_table.zip


title: S702_single cell rna seq by Smart Seq2


title: S705_single cell rna seq by Smart Seq2


title: 214_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_B10_S118/CRISPResso_on_MR912-2-WTA-MECOM-AMP_B10_S118_L001_R1_001_MR912-2-WTA-MECOM-AMP_B10_S118_L001_R2_001/Alleles_frequency_table.zip


title: 213_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_B9_S117/CRISPResso_on_MR912-2-WTA-MECOM-AMP_B9_S117_L001_R1_001_MR912-2-WTA-MECOM-AMP_B9_S117_L001_R2_001/Alleles_frequency_table.zip


title: S704_single cell rna seq by Smart Seq2


title: S714_single cell rna seq by Smart Seq2


title: S703_single cell rna seq by Smart Seq2


title: S700_single cell rna seq by Smart Seq2


title: S699_single cell rna seq by Smart Seq2


title: 210_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_B6_S114/CRISPResso_on_MR912-2-WTA-MECOM-AMP_B6_S114_L001_R1_001_MR912-2-WTA-MECOM-AMP_B6_S114_L001_R2_001/Alleles_frequency_table.zip


title: 208_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_B4_S112/CRISPResso_on_MR912-2-WTA-MECOM-AMP_B4_S112_L001_R1_001_MR912-2-WTA-MECOM-AMP_B4_S112_L001_R2_001/Alleles_frequency_table.zip


title: 209_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_B5_S113/CRISPResso_on_MR912-2-WTA-MECOM-AMP_B5_S113_L001_R1_001_MR912-2-WTA-MECOM-AMP_B5_S113_L001_R2_001/Alleles_frequency_table.zip


title: S698_single cell rna seq by Smart Seq2

description:
single cell SS2 for MECOM KO
ss2_processed.tar
ss2_processed.tar/MR214_2.dge.txt.gz


title: S697_single cell rna seq by Smart Seq2


title: 206_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_B2_S110/CRISPResso_on_MR912-2-WTA-MECOM-AMP_B2_S110_L001_R1_001_MR912-2-WTA-MECOM-AMP_B2_S110_L001_R2_001/Alleles_frequency_table.zip


title: 207_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_B3_S111/CRISPResso_on_MR912-2-WTA-MECOM-AMP_B3_S111_L001_R1_001_MR912-2-WTA-MECOM-AMP_B3_S111_L001_R2_001/Alleles_frequency_table.zip


title: S696_single cell rna seq by Smart Seq2


title: S695_single cell rna seq by Smart Seq2


title: S706_single cell rna seq by Smart Seq2


title: S694_single cell rna seq by Smart Seq2


title: S701_single cell rna seq by Smart Seq2


title: S693_single cell rna seq by Smart Seq2


title: 203_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_A11_S107/CRISPResso_on_MR912-2-WTA-MECOM-AMP_A11_S107_L001_R1_001_MR912-2-WTA-MECOM-AMP_A11_S107_L001_R2_001/Alleles_frequency_table.zip


title: 202_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_A10_S106/CRISPResso_on_MR912-2-WTA-MECOM-AMP_A10_S106_L001_R1_001_MR912-2-WTA-MECOM-AMP_A10_S106_L001_R2_001/Alleles_frequency_table.zip


title: 199_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_A7_S103/CRISPResso_on_MR912-2-WTA-MECOM-AMP_A7_S103_L001_R1_001_MR912-2-WTA-MECOM-AMP_A7_S103_L001_R2_001/Alleles_frequency_table.zip


title: S690_single cell rna seq by Smart Seq2


title: S691_single cell rna seq by Smart Seq2


title: 200_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_A8_S104/CRISPResso_on_MR912-2-WTA-MECOM-AMP_A8_S104_L001_R1_001_MR912-2-WTA-MECOM-AMP_A8_S104_L001_R2_001/Alleles_frequency_table.zip


title: S689_single cell rna seq by Smart Seq2


title: S692_single cell rna seq by Smart Seq2


title: 198_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_A6_S102/CRISPResso_on_MR912-2-WTA-MECOM-AMP_A6_S102_L001_R1_001_MR912-2-WTA-MECOM-AMP_A6_S102_L001_R2_001/Alleles_frequency_table.zip


title: 201_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_A9_S105/CRISPResso_on_MR912-2-WTA-MECOM-AMP_A9_S105_L001_R1_001_MR912-2-WTA-MECOM-AMP_A9_S105_L001_R2_001/Alleles_frequency_table.zip


title: S688_single cell rna seq by Smart Seq2


title: S687_single cell rna seq by Smart Seq2


title: 197_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_A5_S101/CRISPResso_on_MR912-2-WTA-MECOM-AMP_A5_S101_L001_R1_001_MR912-2-WTA-MECOM-AMP_A5_S101_L001_R2_001/Alleles_frequency_table.zip


title: 195_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_A3_S99/CRISPResso_on_MR912-2-WTA-MECOM-AMP_A3_S99_L001_R1_001_MR912-2-WTA-MECOM-AMP_A3_S99_L001_R2_001/Alleles_frequency_table.zip


title: S686_single cell rna seq by Smart Seq2


title: 194_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_A2_S98/CRISPResso_on_MR912-2-WTA-MECOM-AMP_A2_S98_L001_R1_001_MR912-2-WTA-MECOM-AMP_A2_S98_L001_R2_001/Alleles_frequency_table.zip


title: 205_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_B1_S109/CRISPResso_on_MR912-2-WTA-MECOM-AMP_B1_S109_L001_R1_001_MR912-2-WTA-MECOM-AMP_B1_S109_L001_R2_001/Alleles_frequency_table.zip


title: 204_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_A12_S108/CRISPResso_on_MR912-2-WTA-MECOM-AMP_A12_S108_L001_R1_001_MR912-2-WTA-MECOM-AMP_A12_S108_L001_R2_001/Alleles_frequency_table.zip


title: S683_single cell rna seq by Smart Seq2


title: 96_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_H12_S96/CRISPResso_on_MR912-2-MDA-MECOM-AMP_H12_S96_L001_R1_001_MR912-2-MDA-MECOM-AMP_H12_S96_L001_R2_001/Alleles_frequency_table.zip


title: S685_single cell rna seq by Smart Seq2


title: S682_single cell rna seq by Smart Seq2


title: S684_single cell rna seq by Smart Seq2


title: 95_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_H11_S95/CRISPResso_on_MR912-2-MDA-MECOM-AMP_H11_S95_L001_R1_001_MR912-2-MDA-MECOM-AMP_H11_S95_L001_R2_001/Alleles_frequency_table.zip


title: S681_single cell rna seq by Smart Seq2


title: 94_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_H10_S94/CRISPResso_on_MR912-2-MDA-MECOM-AMP_H10_S94_L001_R1_001_MR912-2-MDA-MECOM-AMP_H10_S94_L001_R2_001/Alleles_frequency_table.zip


title: S680_single cell rna seq by Smart Seq2

description:
single cell SS2 for MECOM KO
ss2_processed.tar
ss2_processed.tar/MR214_2.dge.txt.gz


title: 93_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_H9_S93/CRISPResso_on_MR912-2-MDA-MECOM-AMP_H9_S93_L001_R1_001_MR912-2-MDA-MECOM-AMP_H9_S93_L001_R2_001/Alleles_frequency_table.zip


title: S679_single cell rna seq by Smart Seq2


title: 92_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_H8_S92/CRISPResso_on_MR912-2-MDA-MECOM-AMP_H8_S92_L001_R1_001_MR912-2-MDA-MECOM-AMP_H8_S92_L001_R2_001/Alleles_frequency_table.zip


title: 91_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_H7_S91/CRISPResso_on_MR912-2-MDA-MECOM-AMP_H7_S91_L001_R1_001_MR912-2-MDA-MECOM-AMP_H7_S91_L001_R2_001/Alleles_frequency_table.zip


title: 90_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_H6_S90/CRISPResso_on_MR912-2-MDA-MECOM-AMP_H6_S90_L001_R1_001_MR912-2-MDA-MECOM-AMP_H6_S90_L001_R2_001/Alleles_frequency_table.zip


title: S677_single cell rna seq by Smart Seq2


title: 193_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_A1_S97/CRISPResso_on_MR912-2-WTA-MECOM-AMP_A1_S97_L001_R1_001_MR912-2-WTA-MECOM-AMP_A1_S97_L001_R2_001/Alleles_frequency_table.zip


title: 88_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_H4_S88/CRISPResso_on_MR912-2-MDA-MECOM-AMP_H4_S88_L001_R1_001_MR912-2-MDA-MECOM-AMP_H4_S88_L001_R2_001/Alleles_frequency_table.zip


title: S676_single cell rna seq by Smart Seq2


title: 89_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_H5_S89/CRISPResso_on_MR912-2-MDA-MECOM-AMP_H5_S89_L001_R1_001_MR912-2-MDA-MECOM-AMP_H5_S89_L001_R2_001/Alleles_frequency_table.zip


title: 87_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_H3_S87/CRISPResso_on_MR912-2-MDA-MECOM-AMP_H3_S87_L001_R1_001_MR912-2-MDA-MECOM-AMP_H3_S87_L001_R2_001/Alleles_frequency_table.zip


title: S674_single cell rna seq by Smart Seq2


title: S673_single cell rna seq by Smart Seq2

description:
single cell SS2 for MECOM KO
ss2_processed.tar
ss2_processed.tar/MR214_1.dge.txt.gz


title: S675_single cell rna seq by Smart Seq2


title: 85_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_H1_S85/CRISPResso_on_MR912-2-MDA-MECOM-AMP_H1_S85_L001_R1_001_MR912-2-MDA-MECOM-AMP_H1_S85_L001_R2_001/Alleles_frequency_table.zip


title: S672_single cell rna seq by Smart Seq2


title: 84_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_G12_S84/CRISPResso_on_MR912-2-MDA-MECOM-AMP_G12_S84_L001_R1_001_MR912-2-MDA-MECOM-AMP_G12_S84_L001_R2_001/Alleles_frequency_table.zip


title: 86_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_H2_S86/CRISPResso_on_MR912-2-MDA-MECOM-AMP_H2_S86_L001_R1_001_MR912-2-MDA-MECOM-AMP_H2_S86_L001_R2_001/Alleles_frequency_table.zip


title: S671_single cell rna seq by Smart Seq2


title: 83_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_G11_S83/CRISPResso_on_MR912-2-MDA-MECOM-AMP_G11_S83_L001_R1_001_MR912-2-MDA-MECOM-AMP_G11_S83_L001_R2_001/Alleles_frequency_table.zip


title: S670_single cell rna seq by Smart Seq2


title: S678_single cell rna seq by Smart Seq2


title: 82_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_G10_S82/CRISPResso_on_MR912-2-MDA-MECOM-AMP_G10_S82_L001_R1_001_MR912-2-MDA-MECOM-AMP_G10_S82_L001_R2_001/Alleles_frequency_table.zip


title: S666_single cell rna seq by Smart Seq2


title: S668_single cell rna seq by Smart Seq2


title: 80_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_G8_S80/CRISPResso_on_MR912-2-MDA-MECOM-AMP_G8_S80_L001_R1_001_MR912-2-MDA-MECOM-AMP_G8_S80_L001_R2_001/Alleles_frequency_table.zip


title: 79_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_G7_S79/CRISPResso_on_MR912-2-MDA-MECOM-AMP_G7_S79_L001_R1_001_MR912-2-MDA-MECOM-AMP_G7_S79_L001_R2_001/Alleles_frequency_table.zip


title: S667_single cell rna seq by Smart Seq2


title: S665_single cell rna seq by Smart Seq2


title: S664_single cell rna seq by Smart Seq2


title: S663_single cell rna seq by Smart Seq2


title: 77_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_G5_S77/CRISPResso_on_MR912-2-MDA-MECOM-AMP_G5_S77_L001_R1_001_MR912-2-MDA-MECOM-AMP_G5_S77_L001_R2_001/Alleles_frequency_table.zip


title: 76_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_G4_S76/CRISPResso_on_MR912-2-MDA-MECOM-AMP_G4_S76_L001_R1_001_MR912-2-MDA-MECOM-AMP_G4_S76_L001_R2_001/Alleles_frequency_table.zip


title: S661_single cell rna seq by Smart Seq2


title: 74_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_G2_S74/CRISPResso_on_MR912-2-MDA-MECOM-AMP_G2_S74_L001_R1_001_MR912-2-MDA-MECOM-AMP_G2_S74_L001_R2_001/Alleles_frequency_table.zip


title: 75_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_G3_S75/CRISPResso_on_MR912-2-MDA-MECOM-AMP_G3_S75_L001_R1_001_MR912-2-MDA-MECOM-AMP_G3_S75_L001_R2_001/Alleles_frequency_table.zip


title: 72_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_F12_S72/CRISPResso_on_MR912-2-MDA-MECOM-AMP_F12_S72_L001_R1_001_MR912-2-MDA-MECOM-AMP_F12_S72_L001_R2_001/Alleles_frequency_table.zip


title: S662_single cell rna seq by Smart Seq2


title: 73_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_G1_S73/CRISPResso_on_MR912-2-MDA-MECOM-AMP_G1_S73_L001_R1_001_MR912-2-MDA-MECOM-AMP_G1_S73_L001_R2_001/Alleles_frequency_table.zip


title: 71_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_H11_S287/CRISPResso_on_MR912-5-MDA-MECOM-AMP_H11_S287_L001_R1_001_MR912-5-MDA-MECOM-AMP_H11_S287_L001_R2_001/Alleles_frequency_table.zip


title: S669_single cell rna seq by Smart Seq2


title: S660_single cell rna seq by Smart Seq2


title: S659_single cell rna seq by Smart Seq2


title: S657_single cell rna seq by Smart Seq2


title: 70_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_F10_S70/CRISPResso_on_MR912-2-MDA-MECOM-AMP_F10_S70_L001_R1_001_MR912-2-MDA-MECOM-AMP_F10_S70_L001_R2_001/Alleles_frequency_table.zip


title: S658_single cell rna seq by Smart Seq2


title: 81_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_G9_S81/CRISPResso_on_MR912-2-MDA-MECOM-AMP_G9_S81_L001_R1_001_MR912-2-MDA-MECOM-AMP_G9_S81_L001_R2_001/Alleles_frequency_table.zip


title: S655_single cell rna seq by Smart Seq2

description:
single cell SS2 for MECOM KO
ss2_processed.tar
ss2_processed.tar/MR214_1.dge.txt.gz


title: 68_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR214_1_Cat_B12_S24/CRISPResso_on_MR214_1_Cat_B12_S24_L001_R1_001_MR214_1_Cat_B12_S24_L001_R2_001/Alleles_frequency_table.zip


title: 78_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_G6_S78/CRISPResso_on_MR912-2-MDA-MECOM-AMP_G6_S78_L001_R1_001_MR912-2-MDA-MECOM-AMP_G6_S78_L001_R2_001/Alleles_frequency_table.zip


title: 69_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-WTA-MECOM-AMP_H7_S379/CRISPResso_on_MR912-5-WTA-MECOM-AMP_H7_S379_L001_R1_001_MR912-5-WTA-MECOM-AMP_H7_S379_L001_R2_001/Alleles_frequency_table.zip


title: S653_single cell rna seq by Smart Seq2


title: 66_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_F6_S66/CRISPResso_on_MR912-2-MDA-MECOM-AMP_F6_S66_L001_R1_001_MR912-2-MDA-MECOM-AMP_F6_S66_L001_R2_001/Alleles_frequency_table.zip


title: 67_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_F7_S67/CRISPResso_on_MR912-2-MDA-MECOM-AMP_F7_S67_L001_R1_001_MR912-2-MDA-MECOM-AMP_F7_S67_L001_R2_001/Alleles_frequency_table.zip


title: 65_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_F5_S65/CRISPResso_on_MR912-2-MDA-MECOM-AMP_F5_S65_L001_R1_001_MR912-2-MDA-MECOM-AMP_F5_S65_L001_R2_001/Alleles_frequency_table.zip


title: S654_single cell rna seq by Smart Seq2


title: S652_single cell rna seq by Smart Seq2


title: 63_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_F3_S63/CRISPResso_on_MR912-2-MDA-MECOM-AMP_F3_S63_L001_R1_001_MR912-2-MDA-MECOM-AMP_F3_S63_L001_R2_001/Alleles_frequency_table.zip


title: S650_single cell rna seq by Smart Seq2


title: S649_single cell rna seq by Smart Seq2


title: 62_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_F2_S62/CRISPResso_on_MR912-2-MDA-MECOM-AMP_F2_S62_L001_R1_001_MR912-2-MDA-MECOM-AMP_F2_S62_L001_R2_001/Alleles_frequency_table.zip


title: 64_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_F4_S64/CRISPResso_on_MR912-2-MDA-MECOM-AMP_F4_S64_L001_R1_001_MR912-2-MDA-MECOM-AMP_F4_S64_L001_R2_001/Alleles_frequency_table.zip


title: S648_single cell rna seq by Smart Seq2


title: S651_single cell rna seq by Smart Seq2


title: S647_single cell rna seq by Smart Seq2


title: S646_single cell rna seq by Smart Seq2


title: S645_single cell rna seq by Smart Seq2


title: S656_single cell rna seq by Smart Seq2


title: 60_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-5-MDA-MECOM-AMP_F6_S258/CRISPResso_on_MR912-5-MDA-MECOM-AMP_F6_S258_L001_R1_001_MR912-5-MDA-MECOM-AMP_F6_S258_L001_R2_001/Alleles_frequency_table.zip


title: 61_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_F1_S61/CRISPResso_on_MR912-2-MDA-MECOM-AMP_F1_S61_L001_R1_001_MR912-2-MDA-MECOM-AMP_F1_S61_L001_R2_001/Alleles_frequency_table.zip


title: S643_single cell rna seq by Smart Seq2


title: 59_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_E11_S59/CRISPResso_on_MR912-2-MDA-MECOM-AMP_E11_S59_L001_R1_001_MR912-2-MDA-MECOM-AMP_E11_S59_L001_R2_001/Alleles_frequency_table.zip


title: S644_single cell rna seq by Smart Seq2


title: S641_single cell rna seq by Smart Seq2


title: 58_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_E10_S58/CRISPResso_on_MR912-2-MDA-MECOM-AMP_E10_S58_L001_R1_001_MR912-2-MDA-MECOM-AMP_E10_S58_L001_R2_001/Alleles_frequency_table.zip


title: 54_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_E6_S54/CRISPResso_on_MR912-2-MDA-MECOM-AMP_E6_S54_L001_R1_001_MR912-2-MDA-MECOM-AMP_E6_S54_L001_R2_001/Alleles_frequency_table.zip


title: S640_single cell rna seq by Smart Seq2


title: S642_single cell rna seq by Smart Seq2


title: 56_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_E8_S56/CRISPResso_on_MR912-2-MDA-MECOM-AMP_E8_S56_L001_R1_001_MR912-2-MDA-MECOM-AMP_E8_S56_L001_R2_001/Alleles_frequency_table.zip


title: 51_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_E3_S51/CRISPResso_on_MR912-2-MDA-MECOM-AMP_E3_S51_L001_R1_001_MR912-2-MDA-MECOM-AMP_E3_S51_L001_R2_001/Alleles_frequency_table.zip


title: S636_single cell rna seq by Smart Seq2

description:
single cell SS2 for MECOM KO
ss2_processed.tar
ss2_processed.tar/MR214_1.dge.txt.gz


title: 50_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_E2_S50/CRISPResso_on_MR912-2-MDA-MECOM-AMP_E2_S50_L001_R1_001_MR912-2-MDA-MECOM-AMP_E2_S50_L001_R2_001/Alleles_frequency_table.zip


title: 57_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_E9_S57/CRISPResso_on_MR912-2-MDA-MECOM-AMP_E9_S57_L001_R1_001_MR912-2-MDA-MECOM-AMP_E9_S57_L001_R2_001/Alleles_frequency_table.zip


title: 49_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_E1_S49/CRISPResso_on_MR912-2-MDA-MECOM-AMP_E1_S49_L001_R1_001_MR912-2-MDA-MECOM-AMP_E1_S49_L001_R2_001/Alleles_frequency_table.zip


title: 53_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_E5_S53/CRISPResso_on_MR912-2-MDA-MECOM-AMP_E5_S53_L001_R1_001_MR912-2-MDA-MECOM-AMP_E5_S53_L001_R2_001/Alleles_frequency_table.zip


title: 55_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_E7_S55/CRISPResso_on_MR912-2-MDA-MECOM-AMP_E7_S55_L001_R1_001_MR912-2-MDA-MECOM-AMP_E7_S55_L001_R2_001/Alleles_frequency_table.zip


title: S632_single cell rna seq by Smart Seq2


title: S639_single cell rna seq by Smart Seq2


title: 52_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_E4_S52/CRISPResso_on_MR912-2-MDA-MECOM-AMP_E4_S52_L001_R1_001_MR912-2-MDA-MECOM-AMP_E4_S52_L001_R2_001/Alleles_frequency_table.zip


title: S631_single cell rna seq by Smart Seq2


title: S630_single cell rna seq by Smart Seq2


title: S635_single cell rna seq by Smart Seq2


title: 43_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_D7_S43/CRISPResso_on_MR912-2-MDA-MECOM-AMP_D7_S43_L001_R1_001_MR912-2-MDA-MECOM-AMP_D7_S43_L001_R2_001/Alleles_frequency_table.zip


title: S637_single cell rna seq by Smart Seq2


title: 42_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_D6_S42/CRISPResso_on_MR912-2-MDA-MECOM-AMP_D6_S42_L001_R1_001_MR912-2-MDA-MECOM-AMP_D6_S42_L001_R2_001/Alleles_frequency_table.zip


title: 48_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_D12_S48/CRISPResso_on_MR912-2-MDA-MECOM-AMP_D12_S48_L001_R1_001_MR912-2-MDA-MECOM-AMP_D12_S48_L001_R2_001/Alleles_frequency_table.zip


title: S634_single cell rna seq by Smart Seq2


title: 41_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_D5_S41/CRISPResso_on_MR912-2-MDA-MECOM-AMP_D5_S41_L001_R1_001_MR912-2-MDA-MECOM-AMP_D5_S41_L001_R2_001/Alleles_frequency_table.zip


title: S627_single cell rna seq by Smart Seq2


title: 40_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_D4_S40/CRISPResso_on_MR912-2-MDA-MECOM-AMP_D4_S40_L001_R1_001_MR912-2-MDA-MECOM-AMP_D4_S40_L001_R2_001/Alleles_frequency_table.zip


title: 47_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_D11_S47/CRISPResso_on_MR912-2-MDA-MECOM-AMP_D11_S47_L001_R1_001_MR912-2-MDA-MECOM-AMP_D11_S47_L001_R2_001/Alleles_frequency_table.zip


title: S638_single cell rna seq by Smart Seq2


title: S633_single cell rna seq by Smart Seq2


title: 46_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_D10_S46/CRISPResso_on_MR912-2-MDA-MECOM-AMP_D10_S46_L001_R1_001_MR912-2-MDA-MECOM-AMP_D10_S46_L001_R2_001/Alleles_frequency_table.zip


title: 37_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_D1_S37/CRISPResso_on_MR912-2-MDA-MECOM-AMP_D1_S37_L001_R1_001_MR912-2-MDA-MECOM-AMP_D1_S37_L001_R2_001/Alleles_frequency_table.zip


title: S712_single cell rna seq by Smart Seq2

description:
single cell SS2 for MECOM KO
ss2_processed.tar
ss2_processed.tar/MR214_2.dge.txt.gz


title: S629_single cell rna seq by Smart Seq2


title: S622_single cell rna seq by Smart Seq2


title: 35_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_C11_S35/CRISPResso_on_MR912-2-MDA-MECOM-AMP_C11_S35_L001_R1_001_MR912-2-MDA-MECOM-AMP_C11_S35_L001_R2_001/Alleles_frequency_table.zip


title: S628_single cell rna seq by Smart Seq2

description:
single cell SS2 for MECOM KO
ss2_processed.tar
ss2_processed.tar/MR214_1.dge.txt.gz


title: S625_single cell rna seq by Smart Seq2


title: 39_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_D3_S39/CRISPResso_on_MR912-2-MDA-MECOM-AMP_D3_S39_L001_R1_001_MR912-2-MDA-MECOM-AMP_D3_S39_L001_R2_001/Alleles_frequency_table.zip


title: 36_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_C12_S36/CRISPResso_on_MR912-2-MDA-MECOM-AMP_C12_S36_L001_R1_001_MR912-2-MDA-MECOM-AMP_C12_S36_L001_R2_001/Alleles_frequency_table.zip


title: S624_single cell rna seq by Smart Seq2


title: 32_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_C8_S32/CRISPResso_on_MR912-2-MDA-MECOM-AMP_C8_S32_L001_R1_001_MR912-2-MDA-MECOM-AMP_C8_S32_L001_R2_001/Alleles_frequency_table.zip


title: 34_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_C10_S34/CRISPResso_on_MR912-2-MDA-MECOM-AMP_C10_S34_L001_R1_001_MR912-2-MDA-MECOM-AMP_C10_S34_L001_R2_001/Alleles_frequency_table.zip


title: 45_Mecom amplicon seq


title: S626_single cell rna seq by Smart Seq2


title: 31_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_C7_S31/CRISPResso_on_MR912-2-MDA-MECOM-AMP_C7_S31_L001_R1_001_MR912-2-MDA-MECOM-AMP_C7_S31_L001_R2_001/Alleles_frequency_table.zip


title: 44_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_D8_S44/CRISPResso_on_MR912-2-MDA-MECOM-AMP_D8_S44_L001_R1_001_MR912-2-MDA-MECOM-AMP_D8_S44_L001_R2_001/Alleles_frequency_table.zip


title: 29_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-WTA-MECOM-AMP_E1_S145/CRISPResso_on_MR912-2-WTA-MECOM-AMP_E1_S145_L001_R1_001_MR912-2-WTA-MECOM-AMP_E1_S145_L001_R2_001/Alleles_frequency_table.zip


title: S621_single cell rna seq by Smart Seq2


title: S620_single cell rna seq by Smart Seq2


title: S619_single cell rna seq by Smart Seq2


title: S623_single cell rna seq by Smart Seq2


title: 28_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_C4_S28/CRISPResso_on_MR912-2-MDA-MECOM-AMP_C4_S28_L001_R1_001_MR912-2-MDA-MECOM-AMP_C4_S28_L001_R2_001/Alleles_frequency_table.zip


title: S614_single cell rna seq by Smart Seq2


title: 27_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_C3_S27/CRISPResso_on_MR912-2-MDA-MECOM-AMP_C3_S27_L001_R1_001_MR912-2-MDA-MECOM-AMP_C3_S27_L001_R2_001/Alleles_frequency_table.zip


title: 26_Mecom amplicon seq

description:
single cell genotyping:
processed data file:
./MR912-2-MDA-MECOM-AMP_C2_S26/CRISPResso_on_MR912-2-MDA-MECOM-AMP_C2_S26_L001_R1_001_MR912-2-MDA-MECOM-AMP_C2_S26_L001_R2_001/Alleles_frequency_table.zip