biostudies-arrayexpressDavid VoehringerMus musculushttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-16580Many hookworm species migrate through the lung as part of their life cycle and thereby induce tissue damage which primes the development of type 2 immune responses . These responses are crucial for driving the resolution of pathology and for development of adaptive immunity to subsequent infections, something that occurs frequently in natural environments. It is known that ILC2s and Th2 cells, among others, are important for stimulating type 2 immunity but the relative contribution of these cells and whether they are redundant in priming immunity has not been established. Using different mouse strains with conditional Cre recombinase activity we study the relative contribution of ILC2 and Th2 - derived cytokines and ILC2 deficiency in a murine model of helminth infection.biostudies-arrayexpressSample Collection - Lungs were harvested at day 9 post infection. Tissues were minced with scissors and digested by adding LiberaseTM (Roche, Basel, Switzerland) and DNAse DN25 (Sigma-Aldrich) both at 100 μg/mL for 25 min at 37°C with continuous shaking. Erythrocytes were lysed with ACK buffer (155 mM NH4Cl, 9.99 mM KHCO3, 0.10 mM EDTA) and cells were then filtered (70 μm cell strainer) to generate single- cell suspensions.Library Construction - Sample Tag library and Whole Transcriptome Analysis library preparation were performed according to the manufacturers instructions. RNA quantity was determined using a Qubit Fluorometer (Thermo Fisher Scientific) and quality control of prepared libraries was done using an Agilent 4200 TapeStation and the Agilent High Sensitivity D5000 ScreenTape Assay (Agilent).Sequencing - Sequencing was performed on a NovaSeq 6000 instrument (Illumina).Sample Treatment - Mice were infected subcutaneously with 500 L3-stage larvae in the scruff of the neck.Nucleic Acid Extraction - Single-cell suspensions from lungs were processed with the Dead cell removal kit (Miltenyi Biotec), labelled with the BD™ Ms Single Cell Sample Multiplexing Kit (BD Bioscience) and stained for viable cells with DRAQ7TM and Calcein AM (both Thermo Fisher Scientific). RNA of single cells was transcribed to cDNA captured using the BD RhapsodyTM Single-Cell Analysis System following manufacturer's instructions.OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesSequence Alignment - BD Rhapsody WTA Pipeline version 1.12, including cell barcode and UMI processing, genome alignment, sample demultiplexing and data aggregation was used. Demultiplexing information: SampleTag01_mm, ILC2KO_1; SampleTag02_mm, Control_1 ; SampleTag03_mm, ILC2KO_2; SampleTag04_mm, CD4_Cre_1; SampleTag05_mm, CD4_Cre_2; SampleTag06_mm, KLRG1_Cre_2 ; SampleTag07_mm, KLRG1_Cre_1 ; SampleTag08_mm, Control_2 .Data Transformation - Molecules per cell were derived from the BD Rhapsody WTA analysis pipeline version 1.12.MetabolomicsUnknownTranscriptomicsGenomicsProteomicsIllumina NovaSeq 6000RNA-seq of coding RNA from single cellsMus musculusDaniel RadtkeDavid VoehringerJonathan PollockAndreas RuhlLisa-Marie GrafJhanvi Patelfalsesc-RNA seq of lung leukocytes isolated from ILC2 deficient , IL4 and IL13 conditional knockout and WT control mice at day 9 post N.brasiliensis infectionMany hookworm species migrate through the lung as part of their life cycle and thereby induce tissue damage which primes the development of type 2 immune responses . These responses are crucial for driving the resolution of pathology and for development of adaptive immunity to subsequent infections, something that occurs frequently in natural environments. It is known that ILC2s and Th2 cells, among others, are important for stimulating type 2 immunity but the relative contribution of these cells and whether they are redundant in priming immunity has not been established. Using different mouse strains with conditional Cre recombinase activity we study the relative contribution of ILC2 and Th2 - derived cytokines and ILC2 deficiency in a murine model of helminth infection.2026-09-25T00:00:00Z2026-09-25T12:33:30.732Z2026-01-22T19:38:08.048ZE-MTAB-16580ERP187931EFO_0002944EFO_0004170EFO_0005684EFO_0004917EFO_0005518EFO_0003816EFO_0004184EFO_0003969