title: RNA, Donor2, CBL (Cerebellum)-5

description:
Library name: BI272
scRNA-seq

data_processing:
Sequence alignment and processing: For hashing reactions, hashing indices were extracted from the DNA library barcode read and appended to the read name using in-house scripts. Barcode reads were then trimmed to 24 bp to meet Cell Ranger input requirements. DNA fastq files were aligned to the human reference genome (hg38) using ‘cellranger-atac count’ (Cell Ranger ATAC v2.0.0; 10x Genomics) with the ‘--chemistry=ARC-v1’ option. For hashing libraries, hashing indices were subsequently removed from the read names and added to the BAM barcode (CB) tag using in-house scripts to enable correct fragment generation and deduplication. Fragment files were generated from bam files using SnapATAC2 (v2.7.0) with the ‘.pp.make_fragment_file’ function162. Prior to quality control assessment, BAM files were deduplicated using Picard MarkDuplicates (v2.26.3) (http://broadinstitute.github.io/picard/). Standard quality control metrics were then calculated from the deduplicated BAM and fragment files. RNA fastq files were aligned to the custom GRCh38 reference genome using ‘cellranger count’ (Cell Ranger v6.1.2; 10x Genomics) with the options ‘--include-introns’ and ‘--chemistry=ARC-v1’. The resulting count matrices were used for all downstream transcriptomic analyses.
Preliminary quality control: Multiple complementary metrics were used to identify high-quality barcodes from both DNA and RNA modalities. For the DNA modality, histone modification data were first aggregated at the library level, and peak calling was performed using MACS2 (v2.1.2) to identify narrow peaks for H3K27ac and broad peaks for H3K27me3148. Per-cell fragment counts and the fraction of reads in peaks (FRiP) were then calculated for each barcode. DNA barcodes were retained based on thresholds applied to fragment number and FRiP. For hashing libraries, DNA bam files were first split by hashing indices prior to peak calling and FRiP calculation to ensure that quality metrics were computed separately for each hashed sample. For the RNA modality, barcodes were filtered based on the total number of unique molecular identifiers (UMIs) per cell, retaining barcodes with sufficient transcript coverage. High-quality cell barcodes were defined as those that passed quality control filters in both the DNA and RNA modalities and could be uniquely paired across modalities. For hashing libraries, RNA barcodes associated with more than two DNA barcodes were excluded to ensure unambiguous matching between modalities.
Assembly: GRCh38
Supplementary files format and content: Per-library AnnData (h5ad) containing filtered cells and cellranger output raw h5
Supplementary files format and content: Per-library AnnData (h5ad) containing filtered cells and cellranger-atac output fragments file

extract_protocol:
Ground frozen tissue was homogenized in 9 mL lysis buffer composed of 0.32 M sucrose, 0.1% Triton X-100, 5 mM MgCl₂, 25 mM KCl, 10 mM Tris-HCl (pH 8.0), 1 mM DTT, Roche cOmplete Mini Protease Inhibitor, 20 U/mL SUPERaseIN, and 20 μg/mL RNH1. Homogenization used glass Dounce homogenizers, followed by sequential filtration through 70 μm (Corning, 352350) and 30 μm (Sysmex, 04-004-2326) strainers. Myelin debris was removed by adding a sample-specific volume of myelin removal beads (Miltenyi Biotec, 130-096-433) to the homogenate, incubating on a rotating mixer at 4°C for 15 min, and passing the suspension through LS columns (Miltenyi Biotec, 130-042-401) on a QuadroMACS Separator (Miltenyi Biotec, 130-091-051). Bead volume was adjusted per sample based on tissue myelin content. Flow-through was collected and columns were washed with 2 mL wash buffer (0.1% Triton X-100, 5 mM MgCl₂, 25 mM KCl, 10 mM Tris-HCl pH 8.0, 1 mM DTT, Roche cOmplete Mini Protease Inhibitor, 20 U/mL SUPERaseIN, and 20 μg/mL RNH1). Samples were centrifuged at 1,000g for 10 min at 4°C in a Thermo Scientific Sorvall Legend RT+ benchtop centrifuge (Thermo, 75004377) with a swinging bucket rotor (Sorvall, 75006445). Supernatant was aspirated carefully and the pellet was resuspended in 1 mL sort buffer: DPBS, 1% BSA, 1 mM EDTA, 1 mM DTT, Roche cOmplete Mini Protease Inhibitor, 20 U/mL SUPERaseIN, and 20 μg/mL RNH1. For NeuN staining and FANS sorting, Mouse anti-NeuN conjugated to Alexa Fluor 488 (Millipore, MAB377X) and Hoechst 33342 (Invitrogen, H3570) were added at 1:1000. Nuclei were incubated on a rotating mixer at 4°C for 30 min and then diluted to 750,000 nuclei/mL using additional sort buffer prior to FANS. Sorting was performed on a BD Influx cell sorter (BD Biosciences, 646500) using “1-drop pure” mode with a 100 μm nozzle and sheath pressure of 20 PSI; 1× PBS served as sheath fluid, and the nuclei were kept at 4°C. Hoechst-positive nuclei with 2N DNA content were gated using SSC-Area × Hoechst-Area. Debris was excluded using FSC-Area × SSC-Area, and aggregates were excluded using FSC and SSC pulse Area- and Width-based parameters. Nuclei were then gated by NeuN (488), and NeuN-positive and NeuN-negative fractions were collected into separate 2 mL DNA LoBind tubes (Eppendorf, 022431048) containing 250 μL 5× collection buffer (DPBS, 5% BSA, Roche cOmplete Mini Protease Inhibitor, 100 U/μL SUPERaseIN, and 100 μg/mL RNH1). Collected nuclei were centrifuged at 300g for 5 min at 4°C, followed by 500g for 10 min, using an Eppendorf 5417R microcentrifuge with a swinging bucket rotor (Eppendorf A-8-11). Supernatant was removed to ~250 μL per tube. Nuclei from matching populations were pooled and quantified.
To assemble indexed pA-Tn5 complexes compatible with the Chromium Next GEM Single Cell Multiome kit (10x Genomics, 1000283), we synthesized all custom oligonucleotides at a concentration of 100 µM. Custom oligos were mixed in two separate PCR tubes (10 µL AdapterA + 10 µL pMENT-A, and 10 µL AdapterB + 10 µL pMENT-B) and annealed in a thermal cycler using the following program: 95 °C for 5 min, then slow cooling to 12 °C, at 0.1 °C/s. The 20 µL annealed oligos were mixed with 120 µL unloaded pA-Tn5 (0.5 mg/mL, MacroLab) in each tube and incubated at room temperature for 30 mins, followed by an additional 10 mins at 4 °C. Equal volumes of assembled pA-Tn5-AdapterA/pMENT-A and pA-Tn5-AdapterB/pMENT-B were then combined to form functional indexed pA-Tn5 complexes, which were stored at -20 °C. Sorted NeuN⁺ and NeuN⁻ nuclei were pelleted using a swinging-bucket centrifuge (5804R, Eppendorf) and counted using a cell counter (RWD C100-Pro) with DAPI staining. For nuclei extracted from the same tissue block, we aimed to obtain 0.5 million nuclei per histone mark. For cortical regions and pons, NeuN⁺ and NeuN⁻ nuclei were combined to achieve ~50% of NeuN⁺ nuclei. For cerebellum, NeuN⁺ and NeuN⁻ nuclei were combined to achieve ~50% of NeuN⁻ nuclei. In this study, we used antibodies against histone modification marks that performed well in prior studies: H3K27ac (Abcam, ab4729) and H3K27me3 (Abcam, ab192985). Indexed pA-Tn5-antibody conjugates were assembled by mixing 1 µg antibody with 1 µL assembled pA-Tn5 (0.4 mg/mL) in 30 µL MED#1 gently, rotating for 1 hr at room temperature, and then adding 45 µL MED#1. In parallel, 0.5 million nuclei per tube were permeabilized with OMNI buffer on ice for 4 min and washed once with high-salt MED#1 buffer. Permeabilized nuclei were resuspended in 75 µL of the conjugate-containing mixture and incubated at 4 °C overnight for epitope targeting. Indexed pA-Tn5 and antibodies were removed by washing twice with MED#2 buffer. Tagmentation was performed in 70 µL MED#2 buffer supplemented with 10 mM MgCl₂ (Invitrogen, AM9530G) at 37 °C for 1 h at 550 r.p.m. in a ThermoMixer (Eppendorf), and then the reaction was terminated by adding 2× stop solution. Nuclei were washed once with 1× nuclei buffer, concentrated within 20 µL 1× nuclei buffer, and counted again using DAPI. Nuclei tagmented with different indexed pA-Tn5 complexes were combined in equal proportions, and 25,000-30,000 nuclei were aliquoted and loaded for a single droplet-generation reaction using the Chromium Next GEM Single Cell Multiome kit. DNA and RNA library amplification was then performed according to the Chromium Next GEM Single Cell Multiome kit manual with increased amplification cycles for the DNA library. Final libraries were sequenced on a NovaSeq (Illumina) platform using standard Illumina primers. For DNA libraries, read lengths were 100 + 8 + 27 + 100 (Read 1 + Index 1 + Index 2 + Read 2). For RNA libraries, read lengths were 28 + 10 + 10 + 90 (Read 1 + Index 1 + Index 2 + Read 2)

value: Cerebellum


title: 9-6h

status: Public on Jun 26 2026

type: SRA

city: New Haven

first: Chuanpeng

last: Dong

state: CT

address: 850 West Campus Dr

department: Genetics

country: USA

institute: Yale University School of Medicine

description:
Library name: 9-6h
Bulk RNA-seq

library_source: transcriptomic

data_processing:
FASTQ files were aligned to the mouse genome reference version gencode.vM32 by STAR 2.7.10b. Reads mapped to each gene were counted using --quantMode GeneCounts in STAR.
Assembly: gencode.v45
Supplementary files format and content: tab-delimited text files include read counts for each Sample

molecule: polyA RNA

organism: Homo sapiens

source_name: Primary CD3 CAR-T cells

extract_protocol:
RNA was  extracted by TRIZOL. The RNA sequencing library was prepared using the NEBNext rRNA Depletion Kit v2 and NEBNext® Ultra™ II Directional RNA Library Prep Kit for Illumina
RNA-seq

tag: cell type

value: Primary CD3 CAR-T cells

tag: treatment

value: MMAE 6h


title: 8-6h

description:
Library name: 8-6h
Bulk RNA-seq


title: H3K27me3, Donor2, CBV (Cerebellum)

city: New York

first: Yang

last: Xie

state: NY

address: 101 6th Ave

institute: New York Genome Center

description:
Library name: BI264
scCUT&Tag

library_source: genomic

molecule: genomic DNA

source_name: Cerebellum

tag: tissue

tag: batch


title: Head, exposed to pathogen and ant food, 02

city: Graz

first: Danae

last: Nyckees

address: Universitätsplatz 2

country: Austria

institute: University of Graz

description: Library name: sample23

data_processing:
The raw paired-end sequencing reads from the released RNA-Seq library was subject to processing. First, sequencing adaptors and low-quality nucleotides (Phred score threshold 30, stringency 2) were trimmed using Trim Galore (v. 0.6.0). Reads shorter than 70 bp were discarded and only intact pairs were retained for further processing. Secondly, the genome of F. fusca was retrieved from the GAGA project (Vizueta et al., 2025) and used to generate a genome index with STAR (v. 2.7.10b). Read mapping to the indexed reference genome for each sample was performed with the same software. Thirdly, PCR duplicate removal was performed using Picard (v. 2.18.7). Finally, the total reads from exon were transformed into counts using featureCounts (v. 2.0.6).
Assembly: GCA_048541905.1
Supplementary files format and content: each processed data file contains the gene name and the respective number of reads

molecule: total RNA

organism: Formica fusca

source_name: head

extract_protocol:
RNA was isolated from each sample with a phenol-chlorophorm extraction method. First, samples were homogenized with 500 µl TRI Reagent (T9424, Sigma-Aldrich, Missouri, United States) with a TissueLyser II (Qiagen, Venlo, Netherlands) for 1min at 30/s. Then, the volume was adjusted to 1 ml with TRI Reagent and the samples were vortexed. A volume of 150 µl of chloroform (C2432, Sigma-Aldrich, Missouri, United States) was added and the samples were vortexed vigorously. The samples were incubated at room temperature for 2 min and then on ice for 5 min. The samples are then centrifuged for 10 min at 14,000 rpm and at 4 °C. The supernatant was then carefully transferred to a new clean tube and 500 µl of isopropanol (190764, Sigma-Aldrich, Missouri, United States) was added. The samples are then vortexed vigorously and stored at -20 °C for approx. 24 h. The samples were centrifuged for 30 min at 14,000 rpm and at 4 °C. The isopropanol was removed and 500 µl of 80 % ethanol was added. The samples were centrifuged for 10 min at 14,000 rpm and at 4 °C. The ethanol was removed, and the samples were spined down to allow a second removal of the remaining solution. The RNA pellets were allowed to air dry for approx. 10 min with open cap. Finally, 40 µl of miliQ H2O were added and the RNA concentration and purity were measured with the Nanodrop Onec (Thermo Fisher Scientific, Massachusetts, United States). RNA extracts that were under 1.8 from the 260/280 ratio were subjected to a clean-up with GeneJET RNA Cleanup and Concentration Micro Kit (K0842, Thermo Fisher Scientific, Massachusetts, United States). Twenty microliters of RNA extracts were used and adjusted with nuclease-free water to reach a volume of 200 µl. Then, the manufacturer protocol was followed. As the amount of RNA was large, 20 µl of nuclease-free water was added instead of 10 for the final elution volume. RNA concentration and purity were measured with a Nanodrop and the RNA extracts with low purity levels were subjected to another round of clean-up.
Library construction was performed by Novogen using Illumina NovaSeq™ X Plus instruments and a paired-end 150 bp sequencing strategy.

treatment_protocol: Ten ants per experimental box were collected on day 4. Each ant was decapitated. Heads and bodies (thorax + abdomen) from each experimental colony and day were pooled respectively and conserved in RNAlater (R0901, Sigma-Aldrich, Missouri, United States). They were first stored at -20 °C for one night to allow the ants to sink and then at -80 °C until further analysis.

value: head

value: exposed to Beauveria bassiana + ant food


title: Body, exposed to pathogen and ant food, 01

description: Library name: sample22

source_name: thorax and abdomen

value: thorax and abdomen


title: breast cancer_ANON 12M

type: RNA

city: Houston

first: William

middle: Fraser

last: Symmans

state: TX

address: 2130 W Holcombe Blvd #11.4000

institute: University of Texas MD Anderson Cancer Center

hyb_protocol: Following fragmentation, 10 ug of cRNA were hybridized overnight at 46C on Affymetrix U133A arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.

scan_protocol: GeneChips were scanned using the diagnostic-grade Affymetrix scanner 3000DX.

data_processing:
Probe intensities were quantified with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings. CEL files were normalized using global scaling with a trimmed mean target intensity of each array arbitrarily set to 600 using the MAS5 algorithm from the simpleaffy package (http://bioconductor.org/packages/2.4/bioc/html/simpleaffy.html).
MAS5.0 signal intensity for each array was log2 transformed and scaled to a reference distribution of 600 breast cancer specific genes.

label: biotin

source_name: breast cancer sample

label_protocol: A single-round T7 amplification was used to generate biotin-labeled cRNA for hybridization. At least 1 ug of RNA is required for cRNA synthesis.

extract_protocol: Total RNA was extracted from tissue using Qiagen Rneasy columns

treatment_protocol: Patients consented to future tissue-based research sample collections from either prospective biopsy or surgical resection.

tag: er status

value: P

tag: pr status

tag: her2 status

value: N

tag: ajcc stage

value: IIA

tag: sample collection type

value: Tissue

tag: setting of sample collection

value: Surgical Tissue Sample


title: Head, exposed to pathogen and ant food, 01

description: Library name: sample21


title: breast cancer_ANON 12J


title: Body, sham and ant food, 05

description: Library name: sample20

value: sham + ant food


title: Head, sham and ant food, 05

description: Library name: sample19


title: breast cancer_ANON 11X


title: breast cancer_ANON 11V


title: Body, sham and ant food, 04

description: Library name: sample18


title: breast cancer_ANON 11U


title: Head, sham and ant food, 04

description: Library name: sample17


title: breast cancer_ANON 11O

value: III


title: breast cancer_ANON 11H

value: I


title: Head, sham and ant food, 03

description: Library name: sample15


title: breast cancer_ANON 11D


title: RNA, Donor1, M1C (Cortex)-2

description:
Library name: BI217
scRNA-seq

library_source: transcriptomic single cell

source_name: Cortex

value: Cortex


title: RNA, Donor2, A38 (Cortex)-2

description:
Library name: BI260
scRNA-seq


title: Body, sham and ant food, 02

description: Library name: sample14


title: breast cancer_G70


title: Head, sham and ant food, 02

description: Library name: sample13


title: breast cancer_G69


title: breast cancer_G66


title: lung alveolar organoid, Tigit knockout, plate4-4 well G11

city: South San Francisco

first: Anne

last: Biton

state: CA

address: 1 DNA way

institute: Genentech

description: Library name: 4-4_G11_TIGIT

data_processing:
The sequencing reads in each fastq file were first split between mouse and human using Xenome (Conway et al., 2012). Only reads unambiguously assigned to either mouse or human were kept and respectively aligned to their reference genome (mouse: GRCm38.p5, human: GRCh38.p10) through the HTSeqGenie v4.35 Bioconductor package (Pau and Reeder, 2012, https://doi.org/10.18129/B9.bioc.HTSeqGenie). First, reads with low nucleotide qualities (70% of bases with quality <23) or matches to rRNA and adapter sequences were removed. Then, reads were aligned using GSNAP (Wu et al., 2010; Wu et al., 2016) version ‘2013-10-10-v2’, allowing maximum of two mismatches per 75 base sequence (parameters: ‘-M 2 -n 10 -B 2 -i 1 -N 1 -w 200000 -E 1 --pairmax-rna=200000 --clip-overlap'). Transcript annotation was based on the Gencode genes database (human: GENCODE 27, mouse: GENCODE M15). Reads unambiguously mapping to exons were counted to get gene-level read counts.
Assembly: GRCm38.p5, GRCh38.p10
Supplementary files format and content: gene_counts.xlsx provides gene-level counts of reads unambiguously mapping to exons. There is one table for the reads assigned by Xenome to the Mus Musculus genome (originating from the mouse alveolar type 2 cells of the organoids in the well), and one table for the reads assigned to the Homo Sapiens genome (originating from the human fibroblasts of the organoids in the well).
Supplementary files format and content: plate_design.csv contains the sgRNA sequences used to target each gene and their location on the four plates.
Supplementary files format and content: imaging_outputs.csv contains the main outputs of the image analysis performed on each well at day 7 and day 14, in terms of number or organoids in the well, average area of the organoids in the well, and estimate of the percentage of the well covered by organoids.
Supplementary files format and content: xenome_stats.csv contains the summary of the sequencing read assignment made by Xenome (Conway et al., 2012).

organism:
Homo sapiens
Mus musculus

source_name: lung mouse alveolar type 2 cells and primary human fibroblasts

extract_protocol:
Libraries were prepared from extracted RNA using a modified Smart-seq3 protocol ( Hagemann-Jensen, M., Ziegenhain, C., Chen, P. et al. Single-cell RNA counting at allele and isoform resolution using Smart-seq3. Nat Biotechnol 38, 708–714 (2020). https://doi.org/10.1038/s41587-020-0497-0) Annealing reaction was performed with 4ul purified RNA, 0.8 ul 40% PEG 8000, 0.08 ul RNAse Inhibitor, 0.04 ul Smart-seq3 oligo dT (100µM), 0.3 ul dNTP (25mM each) and 1 ul water per 384 well reaction. 10 ul mineral oil was added on top to prevent evaporation. Reaction was sealed, spun and incubated at 70˚C for 10 min. Reverse translation was performed by adding 2 ul of RT mix (0.2ul Tris HCl, pH8.0 (1M), 0.24 ul NaCl (1M), 0.2 ul MgCl2 (100mM), 0.08 ul GTP (10mM), 0.64 ul DTT (100mM), 0.16 ul TSO (100µM), 0.08 ul Maxima H Minus RTase and 0.4 ul water) to each 384 well reaction. The RT reaction was incubated at 42°C for 90 min and repeated the following steps for 10 cycles: 50˚C for 2 min and 42˚C for 2 min, and was terminated at 85°C for 5 min.
cDNA amplification was performed by adding 12ul of PCR mix (0.1 ul cDNA fwd (100µM), 0.02 ul cDNA rev (100µM), 0.1 ul MgCl2 (100mM), 10 ul 2X Kapa HiFi Hotstart Readymix  and 1.78 ul water) to the RT reaction for a total of 20 ul. Reaction was thermal cycled at 95°C for 3 min, [98°C for 20 sec, 65°C for 30 sec, 72°C for 4 min] x 14 cycles, 72 °C 4min. cDNA was diluted 1:10 in water. 1 ul of each sample was transferred to a new 384 well plate to perform tagmentation. 3 ul of tagmentation mix (0.8 ul 5X TAPS Mg buffer, 0.1 ul Tn5 enzyme, 2.1 ul water) was added to each sample on ice. Plate was sealed, vortexed for 15 seconds and spun. The reaction mixture was incubated at 55 °C for 10 min. Reaction was quenched by adding 0.5µl of 0.2% SDS to each well, sealing, vortexing for 15 seconds, and spinning the plate. The plate was  incubated at room temperature for 5 min. Libraries were indexed by added 3.5 ul of PCR mix and 2 ul indexing primers  to each sample.  Reaction was thermal cycled at 72°C for 5 min, 95°C for 3 min, [98°C for 20 sec, 65°C for 30 sec, 72°C for 30 sec] x 10 cycles, 72 °C 4min. Libraries were pooled and sequenced on an Illumina NovaSeq X Plus system, targeting 8M reads per library.

tag: genotype

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_G52


title: lung alveolar organoid, Csf1r knockout, plate4-4 well G09

description: Library name: 4-4_G09_CSF1R

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Csf1r CRISPR/Cas9 knockout


title: lung alveolar organoid, Lrg1 knockout, plate4-4 well G08

description: Library name: 4-4_G08_LRG1

value: Lrg1 CRISPR/Cas9 knockout


title: breast cancer_G45


title: H3K27ac / H3K27me3, Donor2, Pro (Cortex)-3

description:
Library name: BI175
scCUT&Tag


title: breast cancer_G42


title: lung alveolar organoid, Usp6nl knockout, plate4-4 well G06

description: Library name: 4-4_G06_USP6NL

value: Usp6nl CRISPR/Cas9 knockout


title: breast cancer_G38


title: lung alveolar organoid, Pdlim2 knockout, plate4-4 well G05

description: Library name: 4-4_G05_PDLIM2

value: Pdlim2 CRISPR/Cas9 knockout


title: breast cancer_G37


title: lung alveolar organoid, Dvl1 knockout, plate4-4 well G04

description: Library name: 4-4_G04_DVL1

value: Dvl1 CRISPR/Cas9 knockout


title: H3K27ac / H3K27me3, Donor4, ITG (Cortex)-2

description:
Library name: BI134
scCUT&Tag


title: breast cancer_G22


title: breast cancer_G21


title: breast cancer_G59


title: lung alveolar organoid, Rnf43 knockout, plate4-4 well G02

description: Library name: 4-4_G02_RNF43

value: Rnf43 CRISPR/Cas9 knockout


title: breast cancer_G18

value: P


title: lung alveolar organoid, Tdtomato knockout, plate4-4 well G10

description: Library name: 4-4_G10_TDTOMATO

value: Tdtomato CRISPR/Cas9 knockout


title: breast cancer_G49

value: N


title: lung alveolar organoid, Npr1 knockout, plate4-4 well F11

description: Library name: 4-4_F11_NPR1

value: Npr1 CRISPR/Cas9 knockout


title: breast cancer_G46

value: Tissue

value: Surgical Tissue Sample


title: breast cancer_G14


title: breast cancer_G10


title: lung alveolar organoid, Zfp365 knockout, plate4-4 well F10

description: Library name: 4-4_F10_ZFP365

value: Zfp365 CRISPR/Cas9 knockout


title: RAW 264.7 Cells, LPS, 24h, rep2

city: Shanghai

first: Yue

address: No.801 Heqing Rd. Minhang District

country: China

institute: Fudan University

description: Library name: VEH_2

data_processing:
Raw sequencing reads in FASTQ format were filtered to remove adapter sequences, low-quality reads, and reads containing excessive ambiguous bases using TrimGalore. The filtered clean reads were used for downstream analysis.
Clean reads were aligned to the Mus musculus reference genome GRCm39 using HISAT2.
Gene-level read counts were generated using featureCounts based on the corresponding genome annotation file. Reads mapped to annotated gene regions were counted to estimate gene expression abundance in each sample.
Assembly: GRCm39
Supplementary files format and content: Raw gene count matrix is provided. Rows represent genes, and columns represent individual RNA-seq samples. Gene symbols, and read count values for each sample are included.

organism: Mus musculus

growth_protocol: RAW264.7 cells were maintained in DMEM supplemented with 10% fetal bovine serum and 1% penicillin-streptomycin at 37°C in a humidified atmosphere containing 5% CO2.

extract_protocol:
Total RNA was extracted from RAW264.7 cells. RNA integrity was assessed using a Qsep100 system, and RNA concentration was measured using a NanoDrop spectrophotometer. RNA samples that passed quality control were used for library construction.
RNA-seq libraries were prepared using an oligo(dT)-based mRNA-seq library construction protocol. Briefly, mRNA was enriched from total RNA, fragmented, reverse-transcribed into cDNA, end-repaired, A-tailed, adapter-ligated, PCR-amplified, and purified with magnetic beads. Library quality was assessed using Qubit and an Agilent Fragment Analyzer. Qualified libraries were sequenced on an Illumina NovaSeq 6000 platform to generate paired-end 150 bp reads.

treatment_protocol: RAW264.7 cells were divided into three groups: control, vehicle, and γ-tocopherol-treated groups. The control group consisted of untreated RAW264.7 cells. The vehicle group consisted of RAW264.7 cells stimulated with LPS at 100 ng/mL for 24 h and treated with solvent control. The γ-tocopherol group consisted of RAW264.7 cells stimulated with LPS at 100 ng/mL for 24 h and treated with 500 μM γ-tocopherol.

tag: cell line

value: macrophage

value: LPS


title: RNA, Donor1, Ig (Cortex)-1

description: Library name: BI114

value: Cortex


title: Block 15, Nkx2.1 KO

description:
Library name: LIB6241491
FFPE Spatial transcriptome sequencing

data_processing:
SpaceRanger v3.0.1 was run on the raw sequencing data, then aligned to gene expression counts using the mm10-2020-A reference genome from 10x, and the Visium v2.0 mouse transcriptome probeset.
High resolution H&E images were aligned with the CytAssist image using the landmark-based alignment tool in Loupe browser
Aligned H&E images were integrated with expression data (at the 8um bin size) using custom scripts to generate a SpatialData ZARR.
Assembly: GRCm38/mm10-2020-A
Supplementary files format and content: LIB[#]_SAM[#].sd.zarr.tar.gz: Gzipped SpatialData object
Supplementary files format and content: [SLIDE_ID]-fiducials-image-registration.json: Manual registration file for Visium coordinates to high-resolution H&E
Supplementary files format and content: LIB[#]_SAM[#]_spaceranger.tar.gz: Gzipped raw SpaceRanger outputs
Supplementary files format and content: LIB[#]_[CAPTUREAREA]_[SLIDE_ID]_[CAPTUREAREA]_[SAMPLE].tiff: CytAssist image associated with registration file
Library strategy: Spatial Transcriptomics

source_name: Lung

extract_protocol:
Lungs were inflated with low-melting point agarose and then embedded in PFA.  5um sections were cut from embedded tissue.
Spatial transcriptome sequencing libraries were prepared with 10xGenomics Visium HD Spatial Gene Expression Slides & Reagent kit according to manufacturer's construction

value: Lung

value: Nkx2.1 KO

value: Bleomycin


title: Block 10, Nkx2.1 KO

description:
Library name: LIB6241490
FFPE Spatial transcriptome sequencing


title: lung alveolar organoid, Bdnf knockout, plate4-4 well F09

description: Library name: 4-4_F09_BDNF

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Bdnf CRISPR/Cas9 knockout


title: breast cancer_G05

value: I


title: lung alveolar organoid, Zfp385b knockout, plate4-4 well F08

description: Library name: 4-4_F08_ZFP385B

value: Zfp385b CRISPR/Cas9 knockout


title: breast cancer_G03

value: P


title: breast cancer_ANON 14G

value: IIA


title: lung alveolar organoid, Spry1 knockout, plate4-4 well F07

description: Library name: 4-4_F07_SPRY1

value: Spry1 CRISPR/Cas9 knockout


title: Head, exposed to pathogen and caffeinated ant food, 04

description: Library name: sample47

value: head

value: exposed to Beauveria bassiana + ant food spiked with 100 ppm caffeine


title: lung alveolar organoid, Spry2 knockout, plate4-4 well G07

description: Library name: 4-4_G07_SPRY2

value: Spry2 CRISPR/Cas9 knockout


title: breast cancer_F99

value: N

value: Tissue

value: Surgical Tissue Sample


title: lung alveolar organoid, Celsr3 knockout, plate4-4 well F06

description: Library name: 4-4_F06_CELSR3

value: Celsr3 CRISPR/Cas9 knockout


title: breast cancer_ANON 13T


title: breast cancer_F98

value: III


title: lung alveolar organoid, Sh3rf1 knockout, plate4-4 well F05

description: Library name: 4-4_F05_SH3RF1

value: Sh3rf1 CRISPR/Cas9 knockout


title: breast cancer_F97


title: lung alveolar organoid, Usp6nl knockout, plate4-4 well F04

description: Library name: 4-4_F04_USP6NL

value: Usp6nl CRISPR/Cas9 knockout


title: lung alveolar organoid, Znrf3 knockout, plate4-4 well F03

description: Library name: 4-4_F03_ZNRF3

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Znrf3 CRISPR/Cas9 knockout


title: breast cancer_ANON 13K

value: IIB


title: breast cancer_F95

value: I


title: lung alveolar organoid, Slc34a2 knockout, plate4-4 well E11

description: Library name: 4-4_E11_SLC34A2

value: Slc34a2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Tigit knockout, plate4-4 well F02

description: Library name: 4-4_F02_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: Head, exposed to pathogen and caffeinated ant food, 01

description: Library name: sample41


title: breast cancer_F96

value: P


title: lung alveolar organoid, Sema3e knockout, plate4-4 well E10

description: Library name: 4-4_E10_SEMA3E

value: Sema3e CRISPR/Cas9 knockout


title: breast cancer_F93

value: IIA


title: breast cancer_F92


title: lung alveolar organoid, Cdkn2b knockout, plate4-4 well E09

description: Library name: 4-4_E09_CDKN2B

value: Cdkn2b CRISPR/Cas9 knockout


title: breast cancer_F91

value: N


title: lung alveolar organoid, Mlc1 knockout, plate4-4 well E08

description: Library name: 4-4_E08_MLC1

value: Mlc1 CRISPR/Cas9 knockout


title: breast cancer_F89

value: Tissue

value: Surgical Tissue Sample


title: breast cancer_F90

value: III


title: breast cancer_F87


title: breast cancer_F88


title: breast cancer_F86


title: lung alveolar organoid, Crispld2 knockout, plate4-4 well E02

description: Library name: 4-4_E02_CRISPLD2

value: Crispld2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Jup knockout, plate4-4 well E05

description: Library name: 4-4_E05_JUP

value: Jup CRISPR/Cas9 knockout


title: lung alveolar organoid, Tigit knockout, plate4-4 well E03

description: Library name: 4-4_E03_TIGIT

value: lung mouse alveolar type 2 cells and primary human fibroblasts


title: breast cancer_F84


title: lung alveolar organoid, Apc knockout, plate4-4 well E07

description: Library name: 4-4_E07_APC

value: Apc CRISPR/Cas9 knockout


title: lung alveolar organoid, Kcnj15 knockout, plate4-4 well D11

description: Library name: 4-4_D11_KCNJ15

value: Kcnj15 CRISPR/Cas9 knockout


title: breast cancer_F83


title: lung alveolar organoid, Hbegf knockout, plate4-4 well D10

description: Library name: 4-4_D10_HBEGF

value: Hbegf CRISPR/Cas9 knockout


title: breast cancer_F82

value: I


title: lung alveolar organoid, Pde7b knockout, plate4-4 well D09

description: Library name: 4-4_D09_PDE7B

value: Pde7b CRISPR/Cas9 knockout


title: breast cancer_F80

value: P

value: IIB


title: lung alveolar organoid, Gsk3b knockout, plate4-4 well D06

description: Library name: 4-4_D06_GSK3B

value: Gsk3b CRISPR/Cas9 knockout


title: lung alveolar organoid, Tigit knockout, plate4-4 well D07

description: Library name: 4-4_D07_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_F79

value: N

value: IIA


title: breast cancer_F81

value: Tissue


title: breast cancer_F78

value: Surgical Tissue Sample


title: lung alveolar organoid, Wif1 knockout, plate4-4 well D05

description: Library name: 4-4_D05_WIF1

value: Wif1 CRISPR/Cas9 knockout


title: breast cancer_F76


title: breast cancer_F75


title: breast cancer_F74


title: lung alveolar organoid, Cd36 knockout, plate4-4 well C11

description: Library name: 4-4_C11_CD36

value: Cd36 CRISPR/Cas9 knockout


title: breast cancer_F72


title: lung alveolar organoid, Hopx knockout, plate4-4 well C10

description: Library name: 4-4_C10_HOPX

value: Hopx CRISPR/Cas9 knockout


title: breast cancer_F70


title: lung alveolar organoid, Spry4 knockout, plate4-4 well C07

description: Library name: 4-4_C07_SPRY4

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Spry4 CRISPR/Cas9 knockout


title: lung alveolar organoid, Dvl2 knockout, plate4-4 well C06

description: Library name: 4-4_C06_DVL2

value: Dvl2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Siah1a knockout, plate4-4 well E04

description: Library name: 4-4_E04_SIAH1A

value: Siah1a CRISPR/Cas9 knockout


title: breast cancer_F85

value: I


title: breast cancer_F68


title: lung alveolar organoid, Dvl3 knockout, plate4-4 well C05

description: Library name: 4-4_C05_DVL3

value: Dvl3 CRISPR/Cas9 knockout


title: breast cancer_F67

value: P


title: breast cancer_F66


title: lung alveolar organoid, Lamp2 knockout, plate4-4 well C02

description: Library name: 4-4_C02_LAMP2

value: Lamp2 CRISPR/Cas9 knockout


title: breast cancer_F65


title: lung alveolar organoid, Lgr5 knockout, plate4-4 well C03

description: Library name: 4-4_C03_LGR5

value: Lgr5 CRISPR/Cas9 knockout


title: breast cancer_F64


title: lung alveolar organoid, Slc6a14 knockout, plate4-4 well B11

description: Library name: 4-4_B11_SLC6A14

value: Slc6a14 CRISPR/Cas9 knockout


title: lung alveolar organoid, Rbpjl knockout, plate4-4 well B10

description: Library name: 4-4_B10_RBPJL

value: Rbpjl CRISPR/Cas9 knockout


title: breast cancer_F62

value: N

value: IIA


title: lung alveolar organoid, Slc34a2 knockout, plate4-4 well B09

description: Library name: 4-4_B09_SLC34A2

value: Slc34a2 CRISPR/Cas9 knockout


title: breast cancer_F61

value: III

value: Tissue

value: Surgical Tissue Sample


title: breast cancer_F63


title: lung alveolar organoid, Nkd1 knockout, plate4-4 well B08

description: Library name: 4-4_B08_NKD1

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Nkd1 CRISPR/Cas9 knockout


title: breast cancer_F60


title: lung alveolar organoid, Rnf43 knockout, plate4-4 well B07

description: Library name: 4-4_B07_RNF43

value: Rnf43 CRISPR/Cas9 knockout


title: breast cancer_F59

value: IIB


title: breast cancer_F57

value: I


title: lung alveolar organoid, Tigit knockout, plate4-4 well B04

description: Library name: 4-4_B04_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_F56

value: P


title: lung alveolar organoid, Ctcf knockout, plate4-4 well B03

description: Library name: 4-4_B03_CTCF

value: Ctcf CRISPR/Cas9 knockout


title: breast cancer_F94


title: lung alveolar organoid, Ryk knockout, plate4-4 well B06

description: Library name: 4-4_B06_RYK

value: Ryk CRISPR/Cas9 knockout


title: breast cancer_F55


title: breast cancer_F58


title: lung alveolar organoid, Celsr2 knockout, plate4-4 well E06

description: Library name: 4-4_E06_CELSR2

value: Celsr2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Tdtomato knockout, plate4-4 well B05

description: Library name: 4-4_B05_TDTOMATO

value: Tdtomato CRISPR/Cas9 knockout


title: lung alveolar organoid, Tigit knockout, plate4-3 well G11

description: Library name: 4-3_G11_TIGIT


title: breast cancer_F54

value: N


title: lung alveolar organoid, Atf6 knockout, plate4-4 well B02

description: Library name: 4-4_B02_ATF6

value: Atf6 CRISPR/Cas9 knockout


title: breast cancer_F77


title: lung alveolar organoid, Tdtomato knockout, plate4-3 well G10

description: Library name: 4-3_G10_TDTOMATO


title: breast cancer_F53

value: IIA


title: breast cancer_F52


title: lung alveolar organoid, Fbxw11 knockout, plate4-4 well D08

description: Library name: 4-4_D08_FBXW11

value: Fbxw11 CRISPR/Cas9 knockout


title: lung alveolar organoid, Csf1r knockout, plate4-3 well G09

description: Library name: 4-3_G09_CSF1R

value: Csf1r CRISPR/Cas9 knockout


title: lung alveolar organoid, Lrg1 knockout, plate4-3 well G08

description: Library name: 4-3_G08_LRG1

value: Lrg1 CRISPR/Cas9 knockout


title: breast cancer_F51

value: III

value: Tissue

value: Surgical Tissue Sample


title: lung alveolar organoid, Porcn knockout, plate4-4 well D04

description: Library name: 4-4_D04_PORCN

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Porcn CRISPR/Cas9 knockout


title: lung alveolar organoid, Lgr6 knockout, plate4-4 well D03

description: Library name: 4-4_D03_LGR6

value: Lgr6 CRISPR/Cas9 knockout


title: breast cancer_F73

value: P

value: I


title: lung alveolar organoid, Creld1 knockout, plate4-4 well D02

description: Library name: 4-4_D02_CRELD1

value: Creld1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Spry2 knockout, plate4-3 well G07

description: Library name: 4-3_G07_SPRY2

value: Spry2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Tigit knockout, plate4-4 well C09

description: Library name: 4-4_C09_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_F49

value: N


title: breast cancer_F50


title: lung alveolar organoid, Usp6nl knockout, plate4-3 well G06

description: Library name: 4-3_G06_USP6NL

value: Usp6nl CRISPR/Cas9 knockout


title: breast cancer_F48


title: breast cancer_F47

value: IIB


title: lung alveolar organoid, Dvl1 knockout, plate4-3 well G04

description: Library name: 4-3_G04_DVL1

value: Dvl1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Pdlim2 knockout, plate4-3 well G05

description: Library name: 4-3_G05_PDLIM2

value: Pdlim2 CRISPR/Cas9 knockout


title: breast cancer_F46


title: lung alveolar organoid, Lgr4 knockout, plate4-3 well G03

description: Library name: 4-3_G03_LGR4

value: Lgr4 CRISPR/Cas9 knockout


title: breast cancer_F71


title: lung alveolar organoid, Nkd2 knockout, plate4-4 well C08

description: Library name: 4-4_C08_NKD2

value: Nkd2 CRISPR/Cas9 knockout


title: breast cancer_F45

value: IIA

value: Tissue


title: lung alveolar organoid, Rnf43 knockout, plate4-3 well G02

description: Library name: 4-3_G02_RNF43

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Rnf43 CRISPR/Cas9 knockout


title: breast cancer_F69

value: Surgical Tissue Sample


title: breast cancer_F44

value: P


title: lung alveolar organoid, Zfp365 knockout, plate4-3 well F10

description: Library name: 4-3_F10_ZFP365

value: Zfp365 CRISPR/Cas9 knockout


title: lung alveolar organoid, Npr1 knockout, plate4-3 well F11

description: Library name: 4-3_F11_NPR1

value: Npr1 CRISPR/Cas9 knockout


title: breast cancer_F42


title: breast cancer_F43


title: breast cancer_F41


title: lung alveolar organoid, Bdnf knockout, plate4-3 well F09

description: Library name: 4-3_F09_BDNF

value: Bdnf CRISPR/Cas9 knockout


title: lung alveolar organoid, Zfp385b knockout, plate4-3 well F08

description: Library name: 4-3_F08_ZFP385B

value: Zfp385b CRISPR/Cas9 knockout


title: breast cancer_F40

value: N


title: lung alveolar organoid, Spry1 knockout, plate4-3 well F07

description: Library name: 4-3_F07_SPRY1

value: Spry1 CRISPR/Cas9 knockout


title: breast cancer_F39


title: lung alveolar organoid, Celsr3 knockout, plate4-3 well F06

description: Library name: 4-3_F06_CELSR3

value: Celsr3 CRISPR/Cas9 knockout


title: breast cancer_F38

value: IIB


title: lung alveolar organoid, Sh3rf1 knockout, plate4-3 well F05

description: Library name: 4-3_F05_SH3RF1

value: Sh3rf1 CRISPR/Cas9 knockout


title: breast cancer_F37

value: I


title: lung alveolar organoid, Usp6nl knockout, plate4-3 well F04

description: Library name: 4-3_F04_USP6NL

value: Usp6nl CRISPR/Cas9 knockout


title: breast cancer_F36

value: III


title: breast cancer_F35

value: Tissue


title: lung alveolar organoid, Tigit knockout, plate4-3 well F02

description: Library name: 4-3_F02_TIGIT

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Tigit CRISPR/Cas9 knockout


title: lung alveolar organoid, Slc34a2 knockout, plate4-3 well E11

description: Library name: 4-3_E11_SLC34A2

value: Slc34a2 CRISPR/Cas9 knockout


title: breast cancer_F33

value: P

value: Surgical Tissue Sample


title: lung alveolar organoid, Sema3e knockout, plate4-3 well E10

description: Library name: 4-3_E10_SEMA3E

value: Sema3e CRISPR/Cas9 knockout


title: breast cancer_F32

value: IIA


title: lung alveolar organoid, Cdkn2b knockout, plate4-3 well E09

description: Library name: 4-3_E09_CDKN2B

value: Cdkn2b CRISPR/Cas9 knockout


title: breast cancer_F30

value: N


title: lung alveolar organoid, Mlc1 knockout, plate4-3 well E08

description: Library name: 4-3_E08_MLC1

value: Mlc1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Apc knockout, plate4-3 well E07

description: Library name: 4-3_E07_APC

value: Apc CRISPR/Cas9 knockout


title: breast cancer_F29


title: lung alveolar organoid, Celsr2 knockout, plate4-3 well E06

description: Library name: 4-3_E06_CELSR2

value: Celsr2 CRISPR/Cas9 knockout


title: breast cancer_F28


title: breast cancer_F27


title: lung alveolar organoid, Siah1a knockout, plate4-3 well E04

description: Library name: 4-3_E04_SIAH1A

value: Siah1a CRISPR/Cas9 knockout


title: breast cancer_F26


title: breast cancer_F25


title: lung alveolar organoid, Crispld2 knockout, plate4-3 well E02

description: Library name: 4-3_E02_CRISPLD2

value: Crispld2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Tigit knockout, plate4-3 well E03

description: Library name: 4-3_E03_TIGIT


title: lung alveolar organoid, Kcnj15 knockout, plate4-3 well D11

description: Library name: 4-3_D11_KCNJ15

value: Kcnj15 CRISPR/Cas9 knockout


title: breast cancer_F24


title: breast cancer_F23


title: lung alveolar organoid, Hbegf knockout, plate4-3 well D10

description: Library name: 4-3_D10_HBEGF

value: Hbegf CRISPR/Cas9 knockout


title: breast cancer_F22

value: Tissue


title: lung alveolar organoid, Pde7b knockout, plate4-3 well D09

description: Library name: 4-3_D09_PDE7B

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Pde7b CRISPR/Cas9 knockout


title: lung alveolar organoid, Fbxw11 knockout, plate4-3 well D08

description: Library name: 4-3_D08_FBXW11

value: Fbxw11 CRISPR/Cas9 knockout


title: breast cancer_F20

value: P


title: lung alveolar organoid, Gsk3b knockout, plate4-3 well D06

description: Library name: 4-3_D06_GSK3B

value: Gsk3b CRISPR/Cas9 knockout


title: breast cancer_F19

value: Surgical Tissue Sample


title: breast cancer_F17

value: I


title: lung alveolar organoid, Wif1 knockout, plate4-3 well D05

description: Library name: 4-3_D05_WIF1

value: Wif1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Porcn knockout, plate4-3 well D04

description: Library name: 4-3_D04_PORCN

value: Porcn CRISPR/Cas9 knockout


title: breast cancer_F16

value: N

value: IIB


title: lung alveolar organoid, Lgr6 knockout, plate4-3 well D03

description: Library name: 4-3_D03_LGR6

value: Lgr6 CRISPR/Cas9 knockout


title: lung alveolar organoid, Creld1 knockout, plate4-3 well D02

description: Library name: 4-3_D02_CRELD1

value: Creld1 CRISPR/Cas9 knockout


title: breast cancer_F15


title: breast cancer_F13


title: breast cancer_F12

value: IIA


title: breast cancer_F11


title: lung alveolar organoid, Tigit knockout, plate4-3 well C09

description: Library name: 4-3_C09_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_F10


title: lung alveolar organoid, Nkd2 knockout, plate4-3 well C08

description: Library name: 4-3_C08_NKD2

value: Nkd2 CRISPR/Cas9 knockout


title: breast cancer_F09

value: Tissue


title: lung alveolar organoid, Dvl2 knockout, plate4-3 well C06

description: Library name: 4-3_C06_DVL2

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Dvl2 CRISPR/Cas9 knockout


title: breast cancer_F07


title: lung alveolar organoid, Dvl3 knockout, plate4-3 well C05

description: Library name: 4-3_C05_DVL3

value: Dvl3 CRISPR/Cas9 knockout


title: lung alveolar organoid, Ctnnb1 knockout, plate4-3 well C04

description: Library name: 4-3_C04_CTNNB1

value: Ctnnb1 CRISPR/Cas9 knockout


title: breast cancer_F05

value: P


title: lung alveolar organoid, Lgr5 knockout, plate4-3 well C03

description: Library name: 4-3_C03_LGR5

value: Lgr5 CRISPR/Cas9 knockout


title: breast cancer_F06

value: Surgical Tissue Sample


title: lung alveolar organoid, Lamp2 knockout, plate4-3 well C02

description: Library name: 4-3_C02_LAMP2

value: Lamp2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Slc6a14 knockout, plate4-3 well B11

description: Library name: 4-3_B11_SLC6A14

value: Slc6a14 CRISPR/Cas9 knockout


title: breast cancer_F03

value: N


title: lung alveolar organoid, Rbpjl knockout, plate4-3 well B10

description: Library name: 4-3_B10_RBPJL

value: Rbpjl CRISPR/Cas9 knockout


title: breast cancer_F02

value: III


title: lung alveolar organoid, Slc34a2 knockout, plate4-3 well B09

description: Library name: 4-3_B09_SLC34A2

value: Slc34a2 CRISPR/Cas9 knockout


title: breast cancer_F01

value: IIB


title: lung alveolar organoid, Nkd1 knockout, plate4-3 well B08

description: Library name: 4-3_B08_NKD1

value: Nkd1 CRISPR/Cas9 knockout


title: breast cancer_A101

value: U


title: lung alveolar organoid, Rnf43 knockout, plate4-3 well B07

description: Library name: 4-3_B07_RNF43

value: Rnf43 CRISPR/Cas9 knockout


title: breast cancer_A100

value: IIA

value: Tissue


title: lung alveolar organoid, Ryk knockout, plate4-3 well B06

description: Library name: 4-3_B06_RYK

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Ryk CRISPR/Cas9 knockout


title: breast cancer_A99

value: P

value: I


title: lung alveolar organoid, Tdtomato knockout, plate4-3 well B05

description: Library name: 4-3_B05_TDTOMATO

value: Tdtomato CRISPR/Cas9 knockout


title: breast cancer_A98

value: Surgical Tissue Sample


title: lung alveolar organoid, Tigit knockout, plate4-3 well B04

description: Library name: 4-3_B04_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_F04

value: N


title: breast cancer_A97


title: lung alveolar organoid, Ctcf knockout, plate4-3 well B03

description: Library name: 4-3_B03_CTCF

value: Ctcf CRISPR/Cas9 knockout


title: breast cancer_A96


title: lung alveolar organoid, Atf6 knockout, plate4-3 well B02

description: Library name: 4-3_B02_ATF6

value: Atf6 CRISPR/Cas9 knockout


title: lung alveolar organoid, Tigit knockout, plate4-2 well G11

description: Library name: 4-2_G11_TIGIT


title: breast cancer_A95

value: III


title: breast cancer_A94


title: lung alveolar organoid, Tdtomato knockout, plate4-2 well G10

description: Library name: 4-2_G10_TDTOMATO


title: lung alveolar organoid, Csf1r knockout, plate4-2 well G09

description: Library name: 4-2_G09_CSF1R

value: Csf1r CRISPR/Cas9 knockout


title: breast cancer_A93


title: breast cancer_F34

value: IIB


title: lung alveolar organoid, Znrf3 knockout, plate4-3 well F03

description: Library name: 4-3_F03_ZNRF3

value: Znrf3 CRISPR/Cas9 knockout


title: breast cancer_A92

value: U


title: breast cancer_F31

value: IIA


title: lung alveolar organoid, Lrg1 knockout, plate4-2 well G08

description: Library name: 4-2_G08_LRG1

value: Lrg1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Spry2 knockout, plate4-2 well G07

description: Library name: 4-2_G07_SPRY2

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Spry2 CRISPR/Cas9 knockout


title: breast cancer_A91

value: P

value: Tissue


title: lung alveolar organoid, Usp6nl knockout, plate4-2 well G06

description: Library name: 4-2_G06_USP6NL

value: Usp6nl CRISPR/Cas9 knockout


title: breast cancer_A89

value: Surgical Tissue Sample


title: lung alveolar organoid, Pdlim2 knockout, plate4-2 well G05

description: Library name: 4-2_G05_PDLIM2

value: Pdlim2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Jup knockout, plate4-3 well E05

description: Library name: 4-3_E05_JUP

value: Jup CRISPR/Cas9 knockout


title: breast cancer_A90

value: N


title: breast cancer_A88

value: I


title: lung alveolar organoid, Dvl1 knockout, plate4-2 well G04

description: Library name: 4-2_G04_DVL1

value: Dvl1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Lgr4 knockout, plate4-2 well G03

description: Library name: 4-2_G03_LGR4

value: Lgr4 CRISPR/Cas9 knockout


title: breast cancer_A87

value: III


title: breast cancer_F21


title: lung alveolar organoid, Rnf43 knockout, plate4-2 well G02

description: Library name: 4-2_G02_RNF43

value: Rnf43 CRISPR/Cas9 knockout


title: breast cancer_A86

value: U


title: breast cancer_A85


title: breast cancer_F18

value: IIA


title: lung alveolar organoid, Npr1 knockout, plate4-2 well F11

description: Library name: 4-2_F11_NPR1

value: Npr1 CRISPR/Cas9 knockout


title: breast cancer_A84


title: lung alveolar organoid, Tigit knockout, plate4-3 well D07

description: Library name: 4-3_D07_TIGIT

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Tigit CRISPR/Cas9 knockout


title: lung alveolar organoid, Zfp365 knockout, plate4-2 well F10

description: Library name: 4-2_F10_ZFP365

value: Zfp365 CRISPR/Cas9 knockout


title: lung alveolar organoid, Bdnf knockout, plate4-2 well F09

description: Library name: 4-2_F09_BDNF

value: Bdnf CRISPR/Cas9 knockout


title: breast cancer_A83

value: P

value: Tissue


title: breast cancer_A82

value: Surgical Tissue Sample


title: breast cancer_A81


title: lung alveolar organoid, Zfp385b knockout, plate4-2 well F08

description: Library name: 4-2_F08_ZFP385B

value: Zfp385b CRISPR/Cas9 knockout


title: lung alveolar organoid, Cd36 knockout, plate4-3 well C11

description: Library name: 4-3_C11_CD36

value: Cd36 CRISPR/Cas9 knockout


title: lung alveolar organoid, Celsr3 knockout, plate4-2 well F06

description: Library name: 4-2_F06_CELSR3

value: Celsr3 CRISPR/Cas9 knockout


title: lung alveolar organoid, Spry1 knockout, plate4-2 well F07

description: Library name: 4-2_F07_SPRY1

value: Spry1 CRISPR/Cas9 knockout


title: breast cancer_F14

value: N

value: I


title: breast cancer_A80


title: breast cancer_A79


title: lung alveolar organoid, Sh3rf1 knockout, plate4-2 well F05

description: Library name: 4-2_F05_SH3RF1

value: Sh3rf1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Hopx knockout, plate4-3 well C10

description: Library name: 4-3_C10_HOPX

value: Hopx CRISPR/Cas9 knockout


title: breast cancer_A78

value: U

value: III


title: lung alveolar organoid, Usp6nl knockout, plate4-2 well F04

description: Library name: 4-2_F04_USP6NL

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Usp6nl CRISPR/Cas9 knockout


title: breast cancer_A77

value: IIA


title: lung alveolar organoid, Znrf3 knockout, plate4-2 well F03

description: Library name: 4-2_F03_ZNRF3

value: Znrf3 CRISPR/Cas9 knockout


title: lung alveolar organoid, Tigit knockout, plate4-2 well F02

description: Library name: 4-2_F02_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_A75

value: P

value: Tissue


title: lung alveolar organoid, Slc34a2 knockout, plate4-2 well E11

description: Library name: 4-2_E11_SLC34A2

value: Slc34a2 CRISPR/Cas9 knockout


title: breast cancer_A74

value: Surgical Tissue Sample


title: breast cancer_A73


title: breast cancer_A76


title: breast cancer_A72


title: lung alveolar organoid, Cdkn2b knockout, plate4-2 well E09

description: Library name: 4-2_E09_CDKN2B

value: Cdkn2b CRISPR/Cas9 knockout


title: lung alveolar organoid, Sema3e knockout, plate4-2 well E10

description: Library name: 4-2_E10_SEMA3E

value: Sema3e CRISPR/Cas9 knockout


title: lung alveolar organoid, Spry4 knockout, plate4-3 well C07

description: Library name: 4-3_C07_SPRY4

value: Spry4 CRISPR/Cas9 knockout


title: lung alveolar organoid, Mlc1 knockout, plate4-2 well E08

description: Library name: 4-2_E08_MLC1

value: Mlc1 CRISPR/Cas9 knockout


title: breast cancer_A71

value: N

value: I


title: breast cancer_F08


title: lung alveolar organoid, Apc knockout, plate4-2 well E07

description: Library name: 4-2_E07_APC

value: Apc CRISPR/Cas9 knockout


title: breast cancer_A70

value: U

value: III


title: lung alveolar organoid, Celsr2 knockout, plate4-2 well E06

description: Library name: 4-2_E06_CELSR2

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Celsr2 CRISPR/Cas9 knockout


title: breast cancer_A69


title: lung alveolar organoid, Jup knockout, plate4-2 well E05

description: Library name: 4-2_E05_JUP

value: Jup CRISPR/Cas9 knockout


title: breast cancer_A67

value: IIA


title: lung alveolar organoid, Siah1a knockout, plate4-2 well E04

description: Library name: 4-2_E04_SIAH1A

value: Siah1a CRISPR/Cas9 knockout


title: breast cancer_A66

value: P

value: IIB

value: Tissue


title: lung alveolar organoid, Crispld2 knockout, plate4-2 well E02

description: Library name: 4-2_E02_CRISPLD2

value: Crispld2 CRISPR/Cas9 knockout


title: breast cancer_A65

value: Surgical Tissue Sample


title: lung alveolar organoid, Tigit knockout, plate4-2 well E03

description: Library name: 4-2_E03_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: lung alveolar organoid, Kcnj15 knockout, plate4-2 well D11

description: Library name: 4-2_D11_KCNJ15

value: Kcnj15 CRISPR/Cas9 knockout


title: lung alveolar organoid, Hbegf knockout, plate4-2 well D10

description: Library name: 4-2_D10_HBEGF

value: Hbegf CRISPR/Cas9 knockout


title: breast cancer_A64

value: N


title: breast cancer_A62


title: breast cancer_A61


title: lung alveolar organoid, Fbxw11 knockout, plate4-2 well D08

description: Library name: 4-2_D08_FBXW11

value: Fbxw11 CRISPR/Cas9 knockout


title: breast cancer_A60

value: U


title: lung alveolar organoid, Tigit knockout, plate4-2 well D07

description: Library name: 4-2_D07_TIGIT


title: breast cancer_A59

value: III


title: lung alveolar organoid, Gsk3b knockout, plate4-2 well D06

description: Library name: 4-2_D06_GSK3B

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Gsk3b CRISPR/Cas9 knockout


title: lung alveolar organoid, Wif1 knockout, plate4-2 well D05

description: Library name: 4-2_D05_WIF1

value: Wif1 CRISPR/Cas9 knockout


title: breast cancer_A57

value: IIA


title: breast cancer_A55


title: lung alveolar organoid, Lgr6 knockout, plate4-2 well D03

description: Library name: 4-2_D03_LGR6

value: Lgr6 CRISPR/Cas9 knockout


title: lung alveolar organoid, Porcn knockout, plate4-2 well D04

description: Library name: 4-2_D04_PORCN

value: Porcn CRISPR/Cas9 knockout


title: breast cancer_A54

value: P


title: lung alveolar organoid, Creld1 knockout, plate4-2 well D02

description: Library name: 4-2_D02_CRELD1

value: Creld1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Cd36 knockout, plate4-2 well C11

description: Library name: 4-2_C11_CD36

value: Cd36 CRISPR/Cas9 knockout


title: lung alveolar organoid, Hopx knockout, plate4-2 well C10

description: Library name: 4-2_C10_HOPX

value: Hopx CRISPR/Cas9 knockout


title: breast cancer_A51

value: Tissue

value: Surgical Tissue Sample


title: lung alveolar organoid, Tigit knockout, plate4-2 well C09

description: Library name: 4-2_C09_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_A50

value: N


title: lung alveolar organoid, Spry4 knockout, plate4-2 well C07

description: Library name: 4-2_C07_SPRY4

value: Spry4 CRISPR/Cas9 knockout


title: lung alveolar organoid, Nkd2 knockout, plate4-2 well C08

description: Library name: 4-2_C08_NKD2

value: Nkd2 CRISPR/Cas9 knockout


title: breast cancer_A49

value: U

value: IIB


title: breast cancer_A48


title: lung alveolar organoid, Dvl2 knockout, plate4-2 well C06

description: Library name: 4-2_C06_DVL2

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Dvl2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Dvl3 knockout, plate4-2 well C05

description: Library name: 4-2_C05_DVL3

value: Dvl3 CRISPR/Cas9 knockout


title: breast cancer_A68

value: I


title: breast cancer_A47


title: breast cancer_A46

value: III


title: lung alveolar organoid, Lgr5 knockout, plate4-2 well C03

description: Library name: 4-2_C03_LGR5

value: Lgr5 CRISPR/Cas9 knockout


title: lung alveolar organoid, Lamp2 knockout, plate4-2 well C02

description: Library name: 4-2_C02_LAMP2

value: Lamp2 CRISPR/Cas9 knockout


title: breast cancer_A45

value: P

value: IIA


title: lung alveolar organoid, Ctnnb1 knockout, plate4-2 well C04

description: Library name: 4-2_C04_CTNNB1

value: Ctnnb1 CRISPR/Cas9 knockout


title: breast cancer_A43

value: Tissue

value: Surgical Tissue Sample


title: lung alveolar organoid, Rbpjl knockout, plate4-2 well B10

description: Library name: 4-2_B10_RBPJL

value: Rbpjl CRISPR/Cas9 knockout


title: lung alveolar organoid, Slc6a14 knockout, plate4-2 well B11

description: Library name: 4-2_B11_SLC6A14

value: Slc6a14 CRISPR/Cas9 knockout


title: breast cancer_A44

value: N


title: lung alveolar organoid, Slc34a2 knockout, plate4-2 well B09

description: Library name: 4-2_B09_SLC34A2

value: Slc34a2 CRISPR/Cas9 knockout


title: breast cancer_A42

value: U


title: breast cancer_A41


title: breast cancer_A40


title: lung alveolar organoid, Nkd1 knockout, plate4-2 well B08

description: Library name: 4-2_B08_NKD1

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Nkd1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Rnf43 knockout, plate4-2 well B07

description: Library name: 4-2_B07_RNF43

value: Rnf43 CRISPR/Cas9 knockout


title: breast cancer_A39

value: I


title: lung alveolar organoid, Ryk knockout, plate4-2 well B06

description: Library name: 4-2_B06_RYK

value: Ryk CRISPR/Cas9 knockout


title: breast cancer_A38


title: lung alveolar organoid, Tdtomato knockout, plate4-2 well B05

description: Library name: 4-2_B05_TDTOMATO

value: Tdtomato CRISPR/Cas9 knockout


title: breast cancer_A35


title: breast cancer_A36


title: lung alveolar organoid, Ctcf knockout, plate4-2 well B03

description: Library name: 4-2_B03_CTCF

value: Ctcf CRISPR/Cas9 knockout


title: lung alveolar organoid, Tigit knockout, plate4-2 well B04

description: Library name: 4-2_B04_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_A33

value: P

value: III


title: lung alveolar organoid, Atf6 knockout, plate4-2 well B02

description: Library name: 4-2_B02_ATF6

value: Atf6 CRISPR/Cas9 knockout


title: lung alveolar organoid, Tigit knockout, plate4-1 well G11

description: Library name: 4-1_G11_TIGIT


title: breast cancer_A31

value: Tissue

value: Surgical Tissue Sample


title: lung alveolar organoid, Tdtomato knockout, plate4-1 well G10

description: Library name: 4-1_G10_TDTOMATO


title: breast cancer_A32

value: IIB


title: breast cancer_A56

value: N

value: IIA


title: breast cancer_A58

value: U


title: breast cancer_A30


title: lung alveolar organoid, Lrg1 knockout, plate4-1 well G08

description: Library name: 4-1_G08_LRG1

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Lrg1 CRISPR/Cas9 knockout


title: breast cancer_A28


title: lung alveolar organoid, Csf1r knockout, plate4-1 well G09

description: Library name: 4-1_G09_CSF1R

value: Csf1r CRISPR/Cas9 knockout


title: breast cancer_A29


title: lung alveolar organoid, Spry2 knockout, plate4-1 well G07

description: Library name: 4-1_G07_SPRY2

value: Spry2 CRISPR/Cas9 knockout


title: breast cancer_A53


title: breast cancer_A27


title: breast cancer_A26


title: lung alveolar organoid, Usp6nl knockout, plate4-1 well G06

description: Library name: 4-1_G06_USP6NL

value: Usp6nl CRISPR/Cas9 knockout


title: lung alveolar organoid, Pdlim2 knockout, plate4-1 well G05

description: Library name: 4-1_G05_PDLIM2

value: Pdlim2 CRISPR/Cas9 knockout


title: breast cancer_A52


title: breast cancer_A24


title: breast cancer_A25


title: lung alveolar organoid, Lgr4 knockout, plate4-1 well G03

description: Library name: 4-1_G03_LGR4

value: Lgr4 CRISPR/Cas9 knockout


title: lung alveolar organoid, Dvl1 knockout, plate4-1 well G04

description: Library name: 4-1_G04_DVL1

value: Dvl1 CRISPR/Cas9 knockout


title: breast cancer_A23

value: P

value: I


title: lung alveolar organoid, Rnf43 knockout, plate4-1 well G02

description: Library name: 4-1_G02_RNF43

value: Rnf43 CRISPR/Cas9 knockout


title: breast cancer_A22

value: Tissue


title: lung alveolar organoid, Npr1 knockout, plate4-1 well F11

description: Library name: 4-1_F11_NPR1

value: Npr1 CRISPR/Cas9 knockout


title: breast cancer_A21

value: Surgical Tissue Sample


title: lung alveolar organoid, Zfp365 knockout, plate4-1 well F10

description: Library name: 4-1_F10_ZFP365

value: Zfp365 CRISPR/Cas9 knockout


title: breast cancer_A20

value: N

value: III


title: breast cancer_A18

value: U

value: IIB


title: breast cancer_A19


title: lung alveolar organoid, Zfp385b knockout, plate4-1 well F08

description: Library name: 4-1_F08_ZFP385B

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Zfp385b CRISPR/Cas9 knockout


title: lung alveolar organoid, Spry1 knockout, plate4-1 well F07

description: Library name: 4-1_F07_SPRY1

value: Spry1 CRISPR/Cas9 knockout


title: breast cancer_A17


title: lung alveolar organoid, Bdnf knockout, plate4-1 well F09

description: Library name: 4-1_F09_BDNF

value: Bdnf CRISPR/Cas9 knockout


title: lung alveolar organoid, Celsr3 knockout, plate4-1 well F06

description: Library name: 4-1_F06_CELSR3

value: Celsr3 CRISPR/Cas9 knockout


title: breast cancer_A16


title: lung alveolar organoid, Sh3rf1 knockout, plate4-1 well F05

description: Library name: 4-1_F05_SH3RF1

value: Sh3rf1 CRISPR/Cas9 knockout


title: breast cancer_A15

value: P

value: IIA


title: lung alveolar organoid, Usp6nl knockout, plate4-1 well F04

description: Library name: 4-1_F04_USP6NL

value: Usp6nl CRISPR/Cas9 knockout


title: breast cancer_A14

value: Tissue


title: lung alveolar organoid, Znrf3 knockout, plate4-1 well F03

description: Library name: 4-1_F03_ZNRF3

value: Znrf3 CRISPR/Cas9 knockout


title: breast cancer_A13

value: Surgical Tissue Sample


title: breast cancer_A12


title: lung alveolar organoid, Tigit knockout, plate4-1 well F02

description: Library name: 4-1_F02_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_A11

value: N


title: lung alveolar organoid, Slc34a2 knockout, plate4-1 well E11

description: Library name: 4-1_E11_SLC34A2

value: Slc34a2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Sema3e knockout, plate4-1 well E10

description: Library name: 4-1_E10_SEMA3E

value: Sema3e CRISPR/Cas9 knockout


title: breast cancer_A07

value: U


title: lung alveolar organoid, Cdkn2b knockout, plate4-1 well E09

description: Library name: 4-1_E09_CDKN2B

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Cdkn2b CRISPR/Cas9 knockout


title: lung alveolar organoid, Mlc1 knockout, plate4-1 well E08

description: Library name: 4-1_E08_MLC1

value: Mlc1 CRISPR/Cas9 knockout


title: breast cancer_A06

value: III


title: breast cancer_A08

value: IIB


title: lung alveolar organoid, Apc knockout, plate4-1 well E07

description: Library name: 4-1_E07_APC

value: Apc CRISPR/Cas9 knockout


title: lung alveolar organoid, Celsr2 knockout, plate4-1 well E06

description: Library name: 4-1_E06_CELSR2

value: Celsr2 CRISPR/Cas9 knockout


title: breast cancer_A05

value: P

value: I


title: breast cancer_A04

value: Tissue


title: lung alveolar organoid, Jup knockout, plate4-1 well E05

description: Library name: 4-1_E05_JUP

value: Jup CRISPR/Cas9 knockout


title: breast cancer_A03

value: Surgical Tissue Sample


title: lung alveolar organoid, Siah1a knockout, plate4-1 well E04

description: Library name: 4-1_E04_SIAH1A

value: Siah1a CRISPR/Cas9 knockout


title: breast cancer_A02

value: N

value: IIA


title: breast cancer_A01


title: lung alveolar organoid, Tigit knockout, plate4-1 well E03

description: Library name: 4-1_E03_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: lung alveolar organoid, Crispld2 knockout, plate4-1 well E02

description: Library name: 4-1_E02_CRISPLD2

value: Crispld2 CRISPR/Cas9 knockout


title: breast cancer_ER 325

value: L

value: IV

value: Cytology

value: Recurrent Tumor Biopsy


title: lung alveolar organoid, Kcnj15 knockout, plate4-1 well D11

description: Library name: 4-1_D11_KCNJ15

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Kcnj15 CRISPR/Cas9 knockout


title: breast cancer_ER 323


title: lung alveolar organoid, Hbegf knockout, plate4-1 well D10

description: Library name: 4-1_D10_HBEGF

value: Hbegf CRISPR/Cas9 knockout


title: breast cancer_ER 319

value: P


title: lung alveolar organoid, Pde7b knockout, plate4-1 well D09

description: Library name: 4-1_D09_PDE7B

value: Pde7b CRISPR/Cas9 knockout


title: breast cancer_ER 317


title: breast cancer_ER 316


title: lung alveolar organoid, Tigit knockout, plate4-1 well D07

description: Library name: 4-1_D07_TIGIT


title: breast cancer_ER 313


title: breast cancer_ER 311


title: lung alveolar organoid, Gsk3b knockout, plate4-1 well D06

description: Library name: 4-1_D06_GSK3B

value: Gsk3b CRISPR/Cas9 knockout


title: lung alveolar organoid, Fbxw11 knockout, plate4-1 well D08

description: Library name: 4-1_D08_FBXW11

value: Fbxw11 CRISPR/Cas9 knockout


title: lung alveolar organoid, Wif1 knockout, plate4-1 well D05

description: Library name: 4-1_D05_WIF1

value: Wif1 CRISPR/Cas9 knockout


title: breast cancer_ER 309


title: lung alveolar organoid, Porcn knockout, plate4-1 well D04

description: Library name: 4-1_D04_PORCN

value: Porcn CRISPR/Cas9 knockout


title: lung alveolar organoid, Lgr6 knockout, plate4-1 well D03

description: Library name: 4-1_D03_LGR6

value: Lgr6 CRISPR/Cas9 knockout


title: breast cancer_ER 302

value: N


title: lung alveolar organoid, Creld1 knockout, plate4-1 well D02

description: Library name: 4-1_D02_CRELD1

value: Creld1 CRISPR/Cas9 knockout


title: breast cancer_ER 307


title: breast cancer_ER 301


title: lung alveolar organoid, Cd36 knockout, plate4-1 well C11

description: Library name: 4-1_C11_CD36

value: Cd36 CRISPR/Cas9 knockout


title: lung alveolar organoid, Hopx knockout, plate4-1 well C10

description: Library name: 4-1_C10_HOPX

value: Hopx CRISPR/Cas9 knockout


title: lung alveolar organoid, Tigit knockout, plate4-1 well C09

description: Library name: 4-1_C09_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_ER 263

value: IV

value: Cytology


title: breast cancer_ER 262

value: Recurrent Tumor Biopsy


title: lung alveolar organoid, Nkd2 knockout, plate4-1 well C08

description: Library name: 4-1_C08_NKD2

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Nkd2 CRISPR/Cas9 knockout


title: breast cancer_ER 260


title: breast cancer_ER 261

value: P


title: lung alveolar organoid, Spry4 knockout, plate4-1 well C07

description: Library name: 4-1_C07_SPRY4

value: Spry4 CRISPR/Cas9 knockout


title: lung alveolar organoid, Dvl2 knockout, plate4-1 well C06

description: Library name: 4-1_C06_DVL2

value: Dvl2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Dvl3 knockout, plate4-1 well C05

description: Library name: 4-1_C05_DVL3

value: Dvl3 CRISPR/Cas9 knockout


title: lung alveolar organoid, Ctnnb1 knockout, plate4-1 well C04

description: Library name: 4-1_C04_CTNNB1

value: Ctnnb1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Lgr5 knockout, plate4-1 well C03

description: Library name: 4-1_C03_LGR5

value: Lgr5 CRISPR/Cas9 knockout


title: lung alveolar organoid, Slc6a14 knockout, plate4-1 well B11

description: Library name: 4-1_B11_SLC6A14

value: Slc6a14 CRISPR/Cas9 knockout


title: lung alveolar organoid, Rbpjl knockout, plate4-1 well B10

description: Library name: 4-1_B10_RBPJL

value: Rbpjl CRISPR/Cas9 knockout


title: lung alveolar organoid, Slc34a2 knockout, plate4-1 well B09

description: Library name: 4-1_B09_SLC34A2

value: Slc34a2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Lamp2 knockout, plate4-1 well C02

description: Library name: 4-1_C02_LAMP2

value: Lamp2 CRISPR/Cas9 knockout


title: breast cancer_ER 246

value: N


title: breast cancer_ER 250


title: breast cancer_ER 252


title: breast cancer_ER 251


title: breast cancer_ER 244


title: breast cancer_ER 253

value: L


title: breast cancer_ER 258

value: IV


title: breast cancer_ER 249

value: Cytology

value: Needle Biopsy Sample


title: breast cancer_ER 254

value: Recurrent Tumor Biopsy


title: lung alveolar organoid, Nkd1 knockout, plate4-1 well B08

description: Library name: 4-1_B08_NKD1

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Nkd1 CRISPR/Cas9 knockout


title: breast cancer_ER 243

value: P


title: breast cancer_ER 242

value: U


title: lung alveolar organoid, Ryk knockout, plate4-1 well B06

description: Library name: 4-1_B06_RYK

value: Ryk CRISPR/Cas9 knockout


title: breast cancer_ER 241


title: lung alveolar organoid, Rnf43 knockout, plate4-1 well B07

description: Library name: 4-1_B07_RNF43

value: Rnf43 CRISPR/Cas9 knockout


title: lung alveolar organoid, Tdtomato knockout, plate4-1 well B05

description: Library name: 4-1_B05_TDTOMATO

value: Tdtomato CRISPR/Cas9 knockout


title: breast cancer_ER 239


title: lung alveolar organoid, Tigit knockout, plate4-1 well B04

description: Library name: 4-1_B04_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_ER 240


title: lung alveolar organoid, Tigit knockout, plate3-4 well G11

description: Library name: 3-4_G11_TIGIT


title: lung alveolar organoid, Ctcf knockout, plate4-1 well B03

description: Library name: 4-1_B03_CTCF

value: Ctcf CRISPR/Cas9 knockout


title: breast cancer_ER 237


title: breast cancer_ER 235


title: lung alveolar organoid, Atf6 knockout, plate4-1 well B02

description: Library name: 4-1_B02_ATF6

value: Atf6 CRISPR/Cas9 knockout


title: lung alveolar organoid, Tdtomato knockout, plate3-4 well G10

description: Library name: 3-4_G10_TDTOMATO


title: lung alveolar organoid, Map3k2 knockout, plate3-4 well G09

description: Library name: 3-4_G09_MAP3K2

value: Map3k2 CRISPR/Cas9 knockout


title: breast cancer_ER 232

value: N


title: lung alveolar organoid, Map2k1 knockout, plate3-4 well G08

description: Library name: 3-4_G08_MAP2K1

value: Map2k1 CRISPR/Cas9 knockout


title: breast cancer_ER 231

value: IV


title: breast cancer_ER 230

value: Cytology


title: breast cancer_ER 228


title: breast cancer_ER 229


title: lung alveolar organoid, Vangl2 knockout, plate3-4 well G05

description: Library name: 3-4_G05_VANGL2

value: Vangl2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Soat1 knockout, plate3-4 well G04

description: Library name: 3-4_G04_SOAT1

value: Soat1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Socs2 knockout, plate3-4 well G03

description: Library name: 3-4_G03_SOCS2

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Socs2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Atp6v0e knockout, plate3-4 well G07

description: Library name: 3-4_G07_ATP6V0E

value: Atp6v0e CRISPR/Cas9 knockout


title: lung alveolar organoid, Erbb3 knockout, plate3-4 well G02

description: Library name: 3-4_G02_ERBB3

value: Erbb3 CRISPR/Cas9 knockout


title: breast cancer_ER 226

value: P

value: Recurrent Tumor Biopsy


title: breast cancer_ER 224


title: lung alveolar organoid, Bmp2 knockout, plate3-4 well F11

description: Library name: 3-4_F11_BMP2

value: Bmp2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Mapk1 knockout, plate3-4 well F10

description: Library name: 3-4_F10_MAPK1

value: Mapk1 CRISPR/Cas9 knockout


title: breast cancer_ER 221


title: breast cancer_ER 219


title: lung alveolar organoid, Map3k1 knockout, plate3-4 well F09

description: Library name: 3-4_F09_MAP3K1

value: Map3k1 CRISPR/Cas9 knockout


title: breast cancer_ER 218


title: lung alveolar organoid, Tspan11 knockout, plate3-4 well F08

description: Library name: 3-4_F08_TSPAN11

value: Tspan11 CRISPR/Cas9 knockout


title: breast cancer_ER 217


title: lung alveolar organoid, Areg knockout, plate3-4 well F07

description: Library name: 3-4_F07_AREG

value: Areg CRISPR/Cas9 knockout


title: breast cancer_ER 216

value: N


title: lung alveolar organoid, Tinag knockout, plate3-4 well F06

description: Library name: 3-4_F06_TINAG

value: Tinag CRISPR/Cas9 knockout


title: breast cancer_ER 215

value: IV


title: lung alveolar organoid, Vangl1 knockout, plate3-4 well F05

description: Library name: 3-4_F05_VANGL1

value: Vangl1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Slc39a8 knockout, plate3-4 well F04

description: Library name: 3-4_F04_SLC39A8

value: Slc39a8 CRISPR/Cas9 knockout


title: breast cancer_ER 212

value: Cytology


title: lung alveolar organoid, Tigit knockout, plate3-4 well F02

description: Library name: 3-4_F02_TIGIT

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_ER 213


title: breast cancer_ER 210


title: lung alveolar organoid, Erbb4 knockout, plate3-4 well F03

description: Library name: 3-4_F03_ERBB4

value: Erbb4 CRISPR/Cas9 knockout


title: breast cancer_ER 211


title: lung alveolar organoid, Ccn2 knockout, plate3-4 well E11

description: Library name: 3-4_E11_CCN2

value: Ccn2 CRISPR/Cas9 knockout


title: breast cancer_ER 208

value: P


title: lung alveolar organoid, Map4k4 knockout, plate3-4 well E10

description: Library name: 3-4_E10_MAP4K4

value: Map4k4 CRISPR/Cas9 knockout


title: breast cancer_ER 205

value: Recurrent Tumor Biopsy


title: lung alveolar organoid, Map2k4 knockout, plate3-4 well E09

description: Library name: 3-4_E09_MAP2K4

value: Map2k4 CRISPR/Cas9 knockout


title: breast cancer_ER 204


title: lung alveolar organoid, Antxr1 knockout, plate3-4 well E08

description: Library name: 3-4_E08_ANTXR1

value: Antxr1 CRISPR/Cas9 knockout


title: breast cancer_ER 176

value: U


title: lung alveolar organoid, Gnai1 knockout, plate3-4 well E07

description: Library name: 3-4_E07_GNAI1

value: Gnai1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Myo5c knockout, plate3-4 well E06

description: Library name: 3-4_E06_MYO5C

value: Myo5c CRISPR/Cas9 knockout


title: breast cancer_ER 203

value: L

value: N


title: lung alveolar organoid, Csnk2a1 knockout, plate3-4 well E05

description: Library name: 3-4_E05_CSNK2A1

value: Csnk2a1 CRISPR/Cas9 knockout


title: breast cancer_ER 202

value: IV


title: lung alveolar organoid, Ctsh knockout, plate3-4 well E04

description: Library name: 3-4_E04_CTSH

value: Ctsh CRISPR/Cas9 knockout


title: breast cancer_ER 236

value: Cytology


title: breast cancer_ER 199


title: lung alveolar organoid, Tigit knockout, plate3-4 well E03

description: Library name: 3-4_E03_TIGIT

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_ER 234


title: breast cancer_ER 198


title: breast cancer_ER 197

value: Tissue


title: lung alveolar organoid, Tlr2 knockout, plate3-4 well E02

description: Library name: 3-4_E02_TLR2

value: Tlr2 CRISPR/Cas9 knockout


title: breast cancer_ER 196

value: P


title: lung alveolar organoid, Elf5 knockout, plate3-4 well D11

description: Library name: 3-4_D11_ELF5

value: Elf5 CRISPR/Cas9 knockout


title: lung alveolar organoid, Map4k3 knockout, plate3-4 well D10

description: Library name: 3-4_D10_MAP4K3

value: Map4k3 CRISPR/Cas9 knockout


title: breast cancer_ER 195

value: Recurrent Tumor Biopsy


title: breast cancer_ER 194


title: lung alveolar organoid, Map2k3 knockout, plate3-4 well D09

description: Library name: 3-4_D09_MAP2K3

value: Map2k3 CRISPR/Cas9 knockout


title: breast cancer_ER 192

value: Needle Biopsy Sample


title: lung alveolar organoid, Tigit knockout, plate3-4 well D07

description: Library name: 3-4_D07_TIGIT


title: breast cancer_ER 187

value: U


title: breast cancer_ER 183


title: breast cancer_ER 189


title: lung alveolar organoid, Egfl6 knockout, plate3-4 well D04

description: Library name: 3-4_D04_EGFL6

value: Egfl6 CRISPR/Cas9 knockout


title: lung alveolar organoid, Ank3 knockout, plate3-4 well D06

description: Library name: 3-4_D06_ANK3

value: Ank3 CRISPR/Cas9 knockout


title: breast cancer_ER 181

value: N


title: lung alveolar organoid, Slc22a3 knockout, plate3-4 well D02

description: Library name: 3-4_D02_SLC22A3

value: Slc22a3 CRISPR/Cas9 knockout


title: breast cancer_ER 180

value: L

value: IV


title: breast cancer_ER 179

value: Cytology


title: lung alveolar organoid, Cish knockout, plate3-4 well C11

description: Library name: 3-4_C11_CISH

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Cish CRISPR/Cas9 knockout


title: lung alveolar organoid, Map3k7 knockout, plate3-4 well C10

description: Library name: 3-4_C10_MAP3K7

value: Map3k7 CRISPR/Cas9 knockout


title: breast cancer_ER 174

value: P


title: lung alveolar organoid, Tigit knockout, plate3-4 well C09

description: Library name: 3-4_C09_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: lung alveolar organoid, Ociad2 knockout, plate3-4 well C08

description: Library name: 3-4_C08_OCIAD2

value: Ociad2 CRISPR/Cas9 knockout


title: breast cancer_ER 173

value: Recurrent Tumor Biopsy


title: breast cancer_ER 171


title: breast cancer_ER 172

value: E


title: lung alveolar organoid, Csnk1a1 knockout, plate3-4 well C05

description: Library name: 3-4_C05_CSNK1A1

value: Csnk1a1 CRISPR/Cas9 knockout


title: breast cancer_ER 166

value: Needle Biopsy Sample


title: lung alveolar organoid, Dram1 knockout, plate3-4 well C04

description: Library name: 3-4_C04_DRAM1

value: Dram1 CRISPR/Cas9 knockout


title: breast cancer_ER 165

value: U


title: lung alveolar organoid, Itgb6 knockout, plate3-4 well C02

description: Library name: 3-4_C02_ITGB6

value: Itgb6 CRISPR/Cas9 knockout


title: breast cancer_ER 164

value: N


title: breast cancer_ER 160


title: lung alveolar organoid, Map3k5 knockout, plate3-4 well B10

description: Library name: 3-4_B10_MAP3K5

value: Map3k5 CRISPR/Cas9 knockout


title: breast cancer_ER 158

value: IV


title: breast cancer_ER 157

value: Cytology


title: breast cancer_ER 156


title: lung alveolar organoid, Celsr1 knockout, plate3-4 well B07

description: Library name: 3-4_B07_CELSR1

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Celsr1 CRISPR/Cas9 knockout


title: breast cancer_ER 155


title: lung alveolar organoid, Map2k2 knockout, plate3-4 well B09

description: Library name: 3-4_B09_MAP2K2

value: Map2k2 CRISPR/Cas9 knockout


title: breast cancer_ER 154

value: P


title: lung alveolar organoid, Tdtomato knockout, plate3-4 well B05

description: Library name: 3-4_B05_TDTOMATO

value: Tdtomato CRISPR/Cas9 knockout


title: breast cancer_ER 201


title: breast cancer_ER 153


title: lung alveolar organoid, Tigit knockout, plate3-4 well B04

description: Library name: 3-4_B04_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_ER 152

value: Recurrent Tumor Biopsy


title: lung alveolar organoid, Elovl1 knockout, plate3-4 well D08

description: Library name: 3-4_D08_ELOVL1

value: Elovl1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Csnk2a1 knockout, plate3-4 well D05

description: Library name: 3-4_D05_CSNK2A1

value: Csnk2a1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Erbb2 knockout, plate3-4 well D03

description: Library name: 3-4_D03_ERBB2

value: Erbb2 CRISPR/Cas9 knockout


title: breast cancer_ER 150


title: breast cancer_ER 182

value: L


title: lung alveolar organoid, Cd81 knockout, plate3-4 well B03

description: Library name: 3-4_B03_CD81

value: Cd81 CRISPR/Cas9 knockout


title: lung alveolar organoid, Tgif1 knockout, plate3-4 well B06

description: Library name: 3-4_B06_TGIF1

value: Tgif1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Kidins220 knockout, plate3-4 well B02

description: Library name: 3-4_B02_KIDINS220

value: Kidins220 CRISPR/Cas9 knockout


title: breast cancer_ER 149

value: U

value: Needle Biopsy Sample


title: lung alveolar organoid, Tigit knockout, plate3-3 well G11

description: Library name: 3-3_G11_TIGIT


title: breast cancer_ER 147

value: IV

value: Cytology


title: lung alveolar organoid, Tdtomato knockout, plate3-3 well G10

description: Library name: 3-3_G10_TDTOMATO

value: lung mouse alveolar type 2 cells and primary human fibroblasts


title: breast cancer_ER 178

value: N

value: Tissue


title: breast cancer_ER 145

value: P


title: breast cancer_ER 144


title: lung alveolar organoid, Map3k2 knockout, plate3-3 well G09

description: Library name: 3-3_G09_MAP3K2

value: Map3k2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Gnai2 knockout, plate3-4 well C07

description: Library name: 3-4_C07_GNAI2

value: Gnai2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Map2k1 knockout, plate3-3 well G08

description: Library name: 3-3_G08_MAP2K1

value: Map2k1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Adk knockout, plate3-4 well C06

description: Library name: 3-4_C06_ADK

value: Adk CRISPR/Cas9 knockout


title: breast cancer_ER 142

value: Recurrent Tumor Biopsy


title: lung alveolar organoid, Atp6v0e knockout, plate3-3 well G07

description: Library name: 3-3_G07_ATP6V0E

value: Atp6v0e CRISPR/Cas9 knockout


title: breast cancer_ER 167


title: lung alveolar organoid, Irf4 knockout, plate3-3 well G06

description: Library name: 3-3_G06_IRF4

value: Irf4 CRISPR/Cas9 knockout


title: breast cancer_ER 141

value: L


title: breast cancer_ER 140


title: lung alveolar organoid, Vangl2 knockout, plate3-3 well G05

description: Library name: 3-3_G05_VANGL2

value: Vangl2 CRISPR/Cas9 knockout


title: breast cancer_ER 139

value: U


title: lung alveolar organoid, Soat1 knockout, plate3-3 well G04

description: Library name: 3-3_G04_SOAT1

value: Soat1 CRISPR/Cas9 knockout


title: breast cancer_ER 138

value: IV


title: lung alveolar organoid, Egfr knockout, plate3-4 well C03

description: Library name: 3-4_C03_EGFR

value: Egfr CRISPR/Cas9 knockout


title: lung alveolar organoid, Socs2 knockout, plate3-3 well G03

description: Library name: 3-3_G03_SOCS2

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Socs2 CRISPR/Cas9 knockout


title: breast cancer_ER 137

value: Cytology


title: breast cancer_ER 136

value: P

value: N

value: Needle Biopsy Sample


title: lung alveolar organoid, Erbb3 knockout, plate3-3 well G02

description: Library name: 3-3_G02_ERBB3

value: Erbb3 CRISPR/Cas9 knockout


title: lung alveolar organoid, Bmp2 knockout, plate3-3 well F11

description: Library name: 3-3_F11_BMP2

value: Bmp2 CRISPR/Cas9 knockout


title: breast cancer_ER 135


title: lung alveolar organoid, Mapk1 knockout, plate3-3 well F10

description: Library name: 3-3_F10_MAPK1

value: Mapk1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Mapk3 knockout, plate3-4 well B11

description: Library name: 3-4_B11_MAPK3

value: Mapk3 CRISPR/Cas9 knockout


title: breast cancer_ER 134

value: Recurrent Tumor Biopsy


title: lung alveolar organoid, Map3k1 knockout, plate3-3 well F09

description: Library name: 3-3_F09_MAP3K1

value: Map3k1 CRISPR/Cas9 knockout


title: breast cancer_ER 133


title: lung alveolar organoid, Tspan11 knockout, plate3-3 well F08

description: Library name: 3-3_F08_TSPAN11

value: Tspan11 CRISPR/Cas9 knockout


title: lung alveolar organoid, Ctnnb1 knockout, plate4-4 well C04

description: Library name: 4-4_C04_CTNNB1

value: Ctnnb1 CRISPR/Cas9 knockout


title: breast cancer_ER 132


title: lung alveolar organoid, Areg knockout, plate3-3 well F07

description: Library name: 3-3_F07_AREG

value: Areg CRISPR/Cas9 knockout


title: breast cancer_ER 131

value: IV


title: breast cancer_ER 126

value: U


title: breast cancer_ER 128


title: lung alveolar organoid, Vangl1 knockout, plate3-3 well F05

description: Library name: 3-3_F05_VANGL1

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Vangl1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Slc39a8 knockout, plate3-3 well F04

description: Library name: 3-3_F04_SLC39A8

value: Slc39a8 CRISPR/Cas9 knockout


title: breast cancer_ER 124

value: P

value: Cytology


title: lung alveolar organoid, Erbb4 knockout, plate3-3 well F03

description: Library name: 3-3_F03_ERBB4

value: Erbb4 CRISPR/Cas9 knockout


title: breast cancer_ER 122

value: L

value: N


title: breast cancer_ER 121

value: Needle Biopsy Sample


title: breast cancer_ER 120


title: lung alveolar organoid, Tigit knockout, plate3-3 well F02

description: Library name: 3-3_F02_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: lung alveolar organoid, Ccn2 knockout, plate3-3 well E11

description: Library name: 3-3_E11_CCN2

value: Ccn2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Map4k4 knockout, plate3-3 well E10

description: Library name: 3-3_E10_MAP4K4

value: Map4k4 CRISPR/Cas9 knockout


title: breast cancer_ER 119


title: breast cancer_ER 118

value: Recurrent Tumor Biopsy


title: lung alveolar organoid, Map2k4 knockout, plate3-3 well E09

description: Library name: 3-3_E09_MAP2K4

value: Map2k4 CRISPR/Cas9 knockout


title: lung alveolar organoid, Antxr1 knockout, plate3-3 well E08

description: Library name: 3-3_E08_ANTXR1

value: Antxr1 CRISPR/Cas9 knockout


title: breast cancer_ER 115

value: IV


title: lung alveolar organoid, Pi4k2b knockout, plate3-4 well B08

description: Library name: 3-4_B08_PI4K2B

value: Pi4k2b CRISPR/Cas9 knockout


title: breast cancer_ER 114

value: U


title: lung alveolar organoid, Myo5c knockout, plate3-3 well E06

description: Library name: 3-3_E06_MYO5C

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Myo5c CRISPR/Cas9 knockout


title: breast cancer_ER 113

value: P


title: lung alveolar organoid, Csnk2a1 knockout, plate3-3 well E05

description: Library name: 3-3_E05_CSNK2A1

value: Csnk2a1 CRISPR/Cas9 knockout


title: breast cancer_ER 112

value: Cytology


title: lung alveolar organoid, Ctsh knockout, plate3-3 well E04

description: Library name: 3-3_E04_CTSH

value: Ctsh CRISPR/Cas9 knockout


title: breast cancer_ER 110

value: N


title: lung alveolar organoid, Tigit knockout, plate3-3 well E03

description: Library name: 3-3_E03_TIGIT


title: breast cancer_ER 107


title: lung alveolar organoid, Tlr2 knockout, plate3-3 well E02

description: Library name: 3-3_E02_TLR2

value: Tlr2 CRISPR/Cas9 knockout


title: breast cancer_ER 108

value: Needle Biopsy Sample


title: lung alveolar organoid, Elf5 knockout, plate3-3 well D11

description: Library name: 3-3_D11_ELF5

value: Elf5 CRISPR/Cas9 knockout


title: breast cancer_ER 105


title: lung alveolar organoid, Map4k3 knockout, plate3-3 well D10

description: Library name: 3-3_D10_MAP4K3

value: Map4k3 CRISPR/Cas9 knockout


title: breast cancer_ER 101


title: breast cancer_ER 100

value: Recurrent Tumor Biopsy


title: breast cancer_ER 97


title: lung alveolar organoid, Tigit knockout, plate3-3 well D07

description: Library name: 3-3_D07_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: lung alveolar organoid, Elovl1 knockout, plate3-3 well D08

description: Library name: 3-3_D08_ELOVL1

value: Elovl1 CRISPR/Cas9 knockout


title: breast cancer_ER 96

value: IV


title: lung alveolar organoid, Map2k3 knockout, plate3-3 well D09

description: Library name: 3-3_D09_MAP2K3

value: Map2k3 CRISPR/Cas9 knockout


title: lung alveolar organoid, Csnk2a1 knockout, plate3-3 well D05

description: Library name: 3-3_D05_CSNK2A1


title: breast cancer_ER 94


title: breast cancer_ER 95


title: lung alveolar organoid, Ank3 knockout, plate3-3 well D06

description: Library name: 3-3_D06_ANK3

value: Ank3 CRISPR/Cas9 knockout


title: lung alveolar organoid, Egfl6 knockout, plate3-3 well D04

description: Library name: 3-3_D04_EGFL6

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Egfl6 CRISPR/Cas9 knockout


title: breast cancer_ER 93

value: P


title: lung alveolar organoid, Erbb2 knockout, plate3-3 well D03

description: Library name: 3-3_D03_ERBB2

value: Erbb2 CRISPR/Cas9 knockout


title: breast cancer_ER 91

value: U

value: Cytology


title: lung alveolar organoid, Slc22a3 knockout, plate3-3 well D02

description: Library name: 3-3_D02_SLC22A3

value: Slc22a3 CRISPR/Cas9 knockout


title: breast cancer_ER 88

value: L

value: N


title: breast cancer_ER 87


title: lung alveolar organoid, Cish knockout, plate3-3 well C11

description: Library name: 3-3_C11_CISH

value: Cish CRISPR/Cas9 knockout


title: lung alveolar organoid, Map3k7 knockout, plate3-3 well C10

description: Library name: 3-3_C10_MAP3K7

value: Map3k7 CRISPR/Cas9 knockout


title: breast cancer_ER 86

value: Recurrent Tumor Biopsy


title: breast cancer_ER 85


title: breast cancer_ER 84


title: lung alveolar organoid, Tigit knockout, plate3-3 well C09

description: Library name: 3-3_C09_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: lung alveolar organoid, Ociad2 knockout, plate3-3 well C08

description: Library name: 3-3_C08_OCIAD2

value: Ociad2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Gnai2 knockout, plate3-3 well C07

description: Library name: 3-3_C07_GNAI2

value: Gnai2 CRISPR/Cas9 knockout


title: breast cancer_ER 82

value: IV


title: breast cancer_ER 78


title: lung alveolar organoid, Adk knockout, plate3-3 well C06

description: Library name: 3-3_C06_ADK

value: Adk CRISPR/Cas9 knockout


title: breast cancer_ER 75

value: Needle Biopsy Sample


title: breast cancer_ER 74


title: lung alveolar organoid, Csnk1a1 knockout, plate3-3 well C05

description: Library name: 3-3_C05_CSNK1A1

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Csnk1a1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Dram1 knockout, plate3-3 well C04

description: Library name: 3-3_C04_DRAM1

value: Dram1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Egfr knockout, plate3-3 well C03

description: Library name: 3-3_C03_EGFR

value: Egfr CRISPR/Cas9 knockout


title: lung alveolar organoid, Tinag knockout, plate3-3 well F06

description: Library name: 3-3_F06_TINAG

value: Tinag CRISPR/Cas9 knockout


title: breast cancer_ER 72

value: P

value: U

value: Cytology


title: lung alveolar organoid, Itgb6 knockout, plate3-3 well C02

description: Library name: 3-3_C02_ITGB6

value: Itgb6 CRISPR/Cas9 knockout


title: breast cancer_ER 70

value: N


title: lung alveolar organoid, Mapk3 knockout, plate3-3 well B11

description: Library name: 3-3_B11_MAPK3

value: Mapk3 CRISPR/Cas9 knockout


title: breast cancer_ER 69

value: Recurrent Tumor Biopsy


title: lung alveolar organoid, Map3k5 knockout, plate3-3 well B10

description: Library name: 3-3_B10_MAP3K5

value: Map3k5 CRISPR/Cas9 knockout


title: breast cancer_ER 67


title: breast cancer_ER 65


title: lung alveolar organoid, Pi4k2b knockout, plate3-3 well B08

description: Library name: 3-3_B08_PI4K2B

value: Pi4k2b CRISPR/Cas9 knockout


title: lung alveolar organoid, Map2k2 knockout, plate3-3 well B09

description: Library name: 3-3_B09_MAP2K2

value: Map2k2 CRISPR/Cas9 knockout


title: breast cancer_ER 64

value: L

value: IV


title: lung alveolar organoid, Celsr1 knockout, plate3-3 well B07

description: Library name: 3-3_B07_CELSR1

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Celsr1 CRISPR/Cas9 knockout


title: breast cancer_ER 59


title: lung alveolar organoid, Tgif1 knockout, plate3-3 well B06

description: Library name: 3-3_B06_TGIF1

value: Tgif1 CRISPR/Cas9 knockout


title: breast cancer_ER 63


title: lung alveolar organoid, Tdtomato knockout, plate3-3 well B05

description: Library name: 3-3_B05_TDTOMATO

value: Tdtomato CRISPR/Cas9 knockout


title: breast cancer_ER 58

value: Needle Biopsy Sample


title: lung alveolar organoid, Tigit knockout, plate3-3 well B04

description: Library name: 3-3_B04_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_ER 57

value: P


title: lung alveolar organoid, Cd81 knockout, plate3-3 well B03

description: Library name: 3-3_B03_CD81

value: Cd81 CRISPR/Cas9 knockout


title: lung alveolar organoid, Gnai1 knockout, plate3-3 well E07

description: Library name: 3-3_E07_GNAI1

value: Gnai1 CRISPR/Cas9 knockout


title: breast cancer_ER 54

value: N

value: Cytology


title: lung alveolar organoid, Kidins220 knockout, plate3-3 well B02

description: Library name: 3-3_B02_KIDINS220

value: Kidins220 CRISPR/Cas9 knockout


title: lung alveolar organoid, Tigit knockout, plate3-2 well G11

description: Library name: 3-2_G11_TIGIT


title: breast cancer_ER 53

value: Recurrent Tumor Biopsy


title: breast cancer_ER 52

value: U


title: breast cancer_ER 48


title: breast cancer_ER 26


title: lung alveolar organoid, Tdtomato knockout, plate3-2 well G10

description: Library name: 3-2_G10_TDTOMATO


title: lung alveolar organoid, Map3k2 knockout, plate3-2 well G09

description: Library name: 3-2_G09_MAP3K2

value: Map3k2 CRISPR/Cas9 knockout


title: breast cancer_ER 47


title: lung alveolar organoid, Map2k1 knockout, plate3-2 well G08

description: Library name: 3-2_G08_MAP2K1

value: Map2k1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Atp6v0e knockout, plate3-2 well G07

description: Library name: 3-2_G07_ATP6V0E

value: Atp6v0e CRISPR/Cas9 knockout


title: breast cancer_ER 44

value: IV


title: lung alveolar organoid, Irf4 knockout, plate3-2 well G06

description: Library name: 3-2_G06_IRF4

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Irf4 CRISPR/Cas9 knockout


title: breast cancer_ER 45


title: lung alveolar organoid, Vangl2 knockout, plate3-2 well G05

description: Library name: 3-2_G05_VANGL2

value: Vangl2 CRISPR/Cas9 knockout


title: breast cancer_ER 39


title: breast cancer_ER 37


title: lung alveolar organoid, Soat1 knockout, plate3-2 well G04

description: Library name: 3-2_G04_SOAT1

value: Soat1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Socs2 knockout, plate3-2 well G03

description: Library name: 3-2_G03_SOCS2

value: Socs2 CRISPR/Cas9 knockout


title: breast cancer_ER 35

value: P

value: Needle Biopsy Sample


title: lung alveolar organoid, Erbb3 knockout, plate3-2 well G02

description: Library name: 3-2_G02_ERBB3

value: Erbb3 CRISPR/Cas9 knockout


title: breast cancer_ER 34

value: N

value: Tissue


title: breast cancer_ER 28

value: L

value: Cytology


title: lung alveolar organoid, Mapk1 knockout, plate3-2 well F10

description: Library name: 3-2_F10_MAPK1

value: Mapk1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Bmp2 knockout, plate3-2 well F11

description: Library name: 3-2_F11_BMP2

value: Bmp2 CRISPR/Cas9 knockout


title: breast cancer_ER 27

value: U

value: Recurrent Tumor Biopsy


title: breast cancer_ER 23

value: IV


title: lung alveolar organoid, Map3k1 knockout, plate3-2 well F09

description: Library name: 3-2_F09_MAP3K1

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Map3k1 CRISPR/Cas9 knockout


title: lung alveolar organoid, Tspan11 knockout, plate3-2 well F08

description: Library name: 3-2_F08_TSPAN11

value: Tspan11 CRISPR/Cas9 knockout


title: breast cancer_ER 22


title: lung alveolar organoid, Areg knockout, plate3-2 well F07

description: Library name: 3-2_F07_AREG

value: Areg CRISPR/Cas9 knockout


title: breast cancer_ER 21


title: breast cancer_ER 19


title: lung alveolar organoid, Vangl1 knockout, plate3-2 well F05

description: Library name: 3-2_F05_VANGL1

value: Vangl1 CRISPR/Cas9 knockout


title: breast cancer_ER 16

value: P


title: lung alveolar organoid, Slc39a8 knockout, plate3-2 well F04

description: Library name: 3-2_F04_SLC39A8

value: Slc39a8 CRISPR/Cas9 knockout


title: lung alveolar organoid, Erbb4 knockout, plate3-2 well F03

description: Library name: 3-2_F03_ERBB4

value: Erbb4 CRISPR/Cas9 knockout


title: breast cancer_ER 17


title: lung alveolar organoid, Tinag knockout, plate3-2 well F06

description: Library name: 3-2_F06_TINAG

value: Tinag CRISPR/Cas9 knockout


title: breast cancer_ER 14

value: N

value: Tissue


title: breast cancer_ER 13

value: Cytology


title: lung alveolar organoid, Tigit knockout, plate3-2 well F02

description: Library name: 3-2_F02_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_ER 11


title: lung alveolar organoid, Ccn2 knockout, plate3-2 well E11

description: Library name: 3-2_E11_CCN2

value: Ccn2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Map4k4 knockout, plate3-2 well E10

description: Library name: 3-2_E10_MAP4K4

value: Map4k4 CRISPR/Cas9 knockout


title: breast cancer_ER 9

value: Recurrent Tumor Biopsy


title: lung alveolar organoid, Map2k4 knockout, plate3-2 well E09

description: Library name: 3-2_E09_MAP2K4

value: Map2k4 CRISPR/Cas9 knockout


title: breast cancer_ER 8

value: IV


title: lung alveolar organoid, Antxr1 knockout, plate3-2 well E08

description: Library name: 3-2_E08_ANTXR1

value: lung mouse alveolar type 2 cells and primary human fibroblasts

value: Antxr1 CRISPR/Cas9 knockout


title: breast cancer_ER 7

value: U


title: lung alveolar organoid, Gnai1 knockout, plate3-2 well E07

description: Library name: 3-2_E07_GNAI1

value: Gnai1 CRISPR/Cas9 knockout


title: breast cancer_ER 6

value: P


title: lung alveolar organoid, Myo5c knockout, plate3-2 well E06

description: Library name: 3-2_E06_MYO5C

value: Myo5c CRISPR/Cas9 knockout


title: breast cancer_ER 4


title: lung alveolar organoid, Csnk2a1 knockout, plate3-2 well E05

description: Library name: 3-2_E05_CSNK2A1

value: Csnk2a1 CRISPR/Cas9 knockout


title: breast cancer_ER 3


title: lung alveolar organoid, Ctsh knockout, plate3-2 well E04

description: Library name: 3-2_E04_CTSH

value: Ctsh CRISPR/Cas9 knockout


title: breast cancer_ER 1

value: N


title: breast cancer_MD87_S

value: IIB

value: Tissue

value: Surgical Tissue Sample


title: lung alveolar organoid, Tlr2 knockout, plate3-2 well E02

description: Library name: 3-2_E02_TLR2

value: Tlr2 CRISPR/Cas9 knockout


title: lung alveolar organoid, Tigit knockout, plate3-2 well E03

description: Library name: 3-2_E03_TIGIT

value: Tigit CRISPR/Cas9 knockout


title: breast cancer_MD72_S


title: lung alveolar organoid, Elf5 knockout, plate3-2 well D11

description: Library name: 3-2_D11_ELF5

value: Elf5 CRISPR/Cas9 knockout


title: breast cancer_MD44_S

value: III


title: breast cancer_MD41_S


title: lung alveolar organoid, Map4k3 knockout, plate3-2 well D10

description: Library name: 3-2_D10_MAP4K3

value: Map4k3 CRISPR/Cas9 knockout