title: ENU53169B6G37_F6_neuro2009_S62_R1_001

description: Library name: ENU53169B6G37_F6_neuro2009_S62_R1_001


title: ENU53169B6G34_F4_neuro2009_S62_R1_001

status: Public on Apr 11 2026

type: SRA

city: South San Francisco

first: Mitchell

last: Rezzonico

state: CA

address: 1 DNA Way

country: USA

institute: Genentech

description: Library name: ENU53169B6G34_F4_neuro2009_S62_R1_001

library_source: transcriptomic

data_processing:
RNA-seq reads were aligned to the mouse reference genome GRCm38 using GSNAP 74. Only uniquely mapping reads were carried forward to downstream analysis. Sample quality was further assessed on a per-plate basis based on total read counts, percentage of reads mapping to the reference genome, and percentage of reads mapping to exons. Reads predominantly mapped to transcript 3’ ends, as expected from the library preparation method.
Assembly: GRCm38

molecule: total RNA

organism: Mus musculus

source_name: Whole brain

growth_protocol: Founder C57BL/6NCrl males were treated with 3 x 100 mg/kg ENU (Sigma) and mutations bred to homozygosity in three generations. Generation 3 mice were collected usually between 8-12 weeks old, and an ear notch for DNA and brain samples were collected. Typically, 12 siblings from each pedigree were screened.

extract_protocol:
To homogenize the tissue, RNAlater was removed, and a 5 mm stainless steel bead (Qiagen) and 1.6 mL of Qiazol (Qiagen) was added. The tissue was homogenized using a Tissue Lyser II (Qiagen) for at least 30 minutes until a homogenous solution was confirmed. 400 µL of the homogenate solution was transferred into a new tube and allowed to sit for 5 minutes before adding 100 µL of chloroform (Sigma). The homogenate-chloroform mixture was shaken vigorously, allowed to stand for 2 minutes before centrifugation for 5 minutes at 4°C and 1000 x g. The top clear layer was removed and stored at -80 °C. For RNA extraction, 120 µL was transferred into a QIAgen S-block and processed on the QIAcube using the RNeasy 96 QIAcube HT Kit.
cDNA fragment libraries were constructed using the SMART-Seq® v4 3’ DE Kit (Takara Bio) following manufacturer’s recommendations, with minor modifications. Total RNA samples were processed in batches of 1152, distributed across twelve 96-well plates. For each sample, 4 ng total RNA was used as input for cDNA synthesis, then amplified for 8 cycles, with each sample in a row receiving a unique in-line index. Amplified cDNAs within a row were then combined into a 12-plex pool, cleaned up with Ampure XP beads (Beckman Coulter) and quantified using the Qubit HS DNA assay kit (Thermo Fisher Scientific). For each of the 96 cDNA pools generated from 12 plates, 400 pg were carried into Nextera XT library preparations (Illumina Inc.), each assigned with one of the 96 unique combinations of Forward and Reverse HT Index Primers included in the SMART-Seq® v4 3’ DE kit. After Ampure XP clean up and Qubit quantification, the 96 pools were combined in an equimolar manner to generate a 1152-plex Illumina library.  This library was concentrated with Ampure XP beads, quantified with Qubit and assessed on the TapeStation with the High Sensitivity D1000 assay (Agilent Technologies).

treatment_protocol: Mice were euthanized by cervical dislocation, then whole brains were collected. Each cerebellum was removed and the remaining brain matter was transferred to RNAlater and stored at 4C for up to 5 days.

tag: tissue

value: Whole brain

tag: partofsubset

value: FALSE


title: ENU53169B6G32_F2_neuro2009_S62_R1_001

description: Library name: ENU53169B6G32_F2_neuro2009_S62_R1_001


title: ENU53169B6G313_F12_neuro2009_S62_R1_001

description: Library name: ENU53169B6G313_F12_neuro2009_S62_R1_001


title: ENU53169B6G35_F5_neuro2009_S62_R1_001

description: Library name: ENU53169B6G35_F5_neuro2009_S62_R1_001


title: ENU53169B6G311_F10_neuro2009_S62_R1_001

description: Library name: ENU53169B6G311_F10_neuro2009_S62_R1_001


title: ENU53169B6G310_F9_neuro2009_S62_R1_001

description: Library name: ENU53169B6G310_F9_neuro2009_S62_R1_001


title: ENU53169B6G33_F3_neuro2009_S62_R1_001

description: Library name: ENU53169B6G33_F3_neuro2009_S62_R1_001


title: ENU53165B6G38_H10_neuro2005_S32_R1_001

description: Library name: ENU53165B6G38_H10_neuro2005_S32_R1_001


title: ENU53169B6G312_F11_neuro2009_S62_R1_001

description: Library name: ENU53169B6G312_F11_neuro2009_S62_R1_001


title: ENU53165B6G39_H11_neuro2005_S32_R1_001

description: Library name: ENU53165B6G39_H11_neuro2005_S32_R1_001


title: ENU53165B6G36_H6_neuro2005_S32_R1_001

description: Library name: ENU53165B6G36_H6_neuro2005_S32_R1_001


title: ENU53169B6G31_F1_neuro2009_S62_R1_001

description: Library name: ENU53169B6G31_F1_neuro2009_S62_R1_001


title: ENU53165B6G35_H5_neuro2005_S32_R1_001

description: Library name: ENU53165B6G35_H5_neuro2005_S32_R1_001


title: ENU53165B6G37_H9_neuro2005_S32_R1_001

description: Library name: ENU53165B6G37_H9_neuro2005_S32_R1_001


title: ENU53165B6G32_H2_neuro2005_S32_R1_001

description: Library name: ENU53165B6G32_H2_neuro2005_S32_R1_001


title: ENU53165B6G312_H12_neuro2005_S32_R1_001

description: Library name: ENU53165B6G312_H12_neuro2005_S32_R1_001


title: ENU53165B6G33_H3_neuro2005_S32_R1_001

description: Library name: ENU53165B6G33_H3_neuro2005_S32_R1_001


title: ENU53165B6G31_H1_neuro2005_S32_R1_001

description: Library name: ENU53165B6G31_H1_neuro2005_S32_R1_001


title: ENU53165B6G311_H8_neuro2005_S32_R1_001

description: Library name: ENU53165B6G311_H8_neuro2005_S32_R1_001


title: ENU53164B6G38_H6_neuro2010_S72_R1_001

description: Library name: ENU53164B6G38_H6_neuro2010_S72_R1_001


title: ENU53165B6G310_H7_neuro2005_S32_R1_001

description: Library name: ENU53165B6G310_H7_neuro2005_S32_R1_001


title: ENU53164B6G37_H5_neuro2010_S72_R1_001

description: Library name: ENU53164B6G37_H5_neuro2010_S72_R1_001


title: ENU53164B6G34_H2_neuro2010_S72_R1_001

description: Library name: ENU53164B6G34_H2_neuro2010_S72_R1_001


title: ENU53164B6G316_H7_neuro2010_S72_R1_001

description: Library name: ENU53164B6G316_H7_neuro2010_S72_R1_001


title: ENU53164B6G35_H3_neuro2010_S72_R1_001

description: Library name: ENU53164B6G35_H3_neuro2010_S72_R1_001


title: ENU53164B6G36_H4_neuro2010_S72_R1_001

description: Library name: ENU53164B6G36_H4_neuro2010_S72_R1_001


title: ENU53164B6G310_H9_neuro2010_S72_R1_001

description: Library name: ENU53164B6G310_H9_neuro2010_S72_R1_001


title: ENU53164B6G312_H11_neuro2010_S72_R1_001

description: Library name: ENU53164B6G312_H11_neuro2010_S72_R1_001


title: ENU53164B6G313_H12_neuro2010_S72_R1_001

description: Library name: ENU53164B6G313_H12_neuro2010_S72_R1_001


title: ENU53161B6G36_G2_neuro2002_S23_R1_001

description: Library name: ENU53161B6G36_G2_neuro2002_S23_R1_001


title: ENU53164B6G33_H1_neuro2010_S72_R1_001

description: Library name: ENU53164B6G33_H1_neuro2010_S72_R1_001


title: ENU53164B6G39_H8_neuro2010_S72_R1_001

description: Library name: ENU53164B6G39_H8_neuro2010_S72_R1_001


title: ENU53161B6G38_G4_neuro2002_S23_R1_001

description: Library name: ENU53161B6G38_G4_neuro2002_S23_R1_001


title: ENU53164B6G311_H10_neuro2010_S72_R1_001

description: Library name: ENU53164B6G311_H10_neuro2010_S72_R1_001


title: ENU53161B6G39_G5_neuro2002_S23_R1_001

description: Library name: ENU53161B6G39_G5_neuro2002_S23_R1_001


title: ENU53161B6G316_G12_neuro2002_S23_R1_001

description: Library name: ENU53161B6G316_G12_neuro2002_S23_R1_001


title: ENU53165B6G34_H4_neuro2005_S32_R1_001

description: Library name: ENU53165B6G34_H4_neuro2005_S32_R1_001


title: ENU53161B6G315_G11_neuro2002_S23_R1_001

description: Library name: ENU53161B6G315_G11_neuro2002_S23_R1_001


title: ENU53161B6G35_G1_neuro2002_S23_R1_001

description: Library name: ENU53161B6G35_G1_neuro2002_S23_R1_001


title: ENU53161B6G37_G3_neuro2002_S23_R1_001

description: Library name: ENU53161B6G37_G3_neuro2002_S23_R1_001


title: ENU53161B6G314_G10_neuro2002_S23_R1_001

description: Library name: ENU53161B6G314_G10_neuro2002_S23_R1_001


title: ENU53161B6G313_G9_neuro2002_S23_R1_001

description: Library name: ENU53161B6G313_G9_neuro2002_S23_R1_001


title: ENU53161B6G311_G7_neuro2002_S23_R1_001

description: Library name: ENU53161B6G311_G7_neuro2002_S23_R1_001


title: ENU53161B6G310_G6_neuro2002_S23_R1_001

description: Library name: ENU53161B6G310_G6_neuro2002_S23_R1_001


title: ENU53158B6G36_G6_neuro2005_S31_R1_001

description: Library name: ENU53158B6G36_G6_neuro2005_S31_R1_001


title: ENU53161B6G312_G8_neuro2002_S23_R1_001

description: Library name: ENU53161B6G312_G8_neuro2002_S23_R1_001


title: ENU53158B6G33_G3_neuro2005_S31_R1_001

description: Library name: ENU53158B6G33_G3_neuro2005_S31_R1_001


title: ENU53158B6G32_G2_neuro2005_S31_R1_001

description: Library name: ENU53158B6G32_G2_neuro2005_S31_R1_001


title: ENU53158B6G34_G4_neuro2005_S31_R1_001

description: Library name: ENU53158B6G34_G4_neuro2005_S31_R1_001


title: ENU53158B6G31_G1_neuro2005_S31_R1_001

description: Library name: ENU53158B6G31_G1_neuro2005_S31_R1_001


title: ENU53158B6G315_G12_neuro2005_S31_R1_001

description: Library name: ENU53158B6G315_G12_neuro2005_S31_R1_001


title: ENU53158B6G35_G5_neuro2005_S31_R1_001

description: Library name: ENU53158B6G35_G5_neuro2005_S31_R1_001


title: ENU53158B6G314_G11_neuro2005_S31_R1_001

description: Library name: ENU53158B6G314_G11_neuro2005_S31_R1_001


title: ENU53158B6G313_G10_neuro2005_S31_R1_001

description: Library name: ENU53158B6G313_G10_neuro2005_S31_R1_001


title: ENU53158B6G312_G9_neuro2005_S31_R1_001

description: Library name: ENU53158B6G312_G9_neuro2005_S31_R1_001


title: ENU53158B6G310_G7_neuro2005_S31_R1_001

description: Library name: ENU53158B6G310_G7_neuro2005_S31_R1_001


title: ENU53156B6G36_C6_neuro2005_S27_R1_001

description: Library name: ENU53156B6G36_C6_neuro2005_S27_R1_001


title: ENU53156B6G35_C5_neuro2005_S27_R1_001

description: Library name: ENU53156B6G35_C5_neuro2005_S27_R1_001


title: ENU53156B6G39_C7_neuro2005_S27_R1_001

description: Library name: ENU53156B6G39_C7_neuro2005_S27_R1_001


title: ENU53156B6G33_C3_neuro2005_S27_R1_001

description: Library name: ENU53156B6G33_C3_neuro2005_S27_R1_001


title: ENU53156B6G34_C4_neuro2005_S27_R1_001

description: Library name: ENU53156B6G34_C4_neuro2005_S27_R1_001


title: ENU53156B6G32_C2_neuro2005_S27_R1_001

description: Library name: ENU53156B6G32_C2_neuro2005_S27_R1_001


title: ENU53156B6G313_C11_neuro2005_S27_R1_001

description: Library name: ENU53156B6G313_C11_neuro2005_S27_R1_001


title: ENU53156B6G31_C1_neuro2005_S27_R1_001

description: Library name: ENU53156B6G31_C1_neuro2005_S27_R1_001


title: ENU53156B6G311_C9_neuro2005_S27_R1_001

description: Library name: ENU53156B6G311_C9_neuro2005_S27_R1_001


title: ENU53156B6G312_C10_neuro2005_S27_R1_001

description: Library name: ENU53156B6G312_C10_neuro2005_S27_R1_001


title: ENU53156B6G314_C12_neuro2005_S27_R1_001

description: Library name: ENU53156B6G314_C12_neuro2005_S27_R1_001


title: ENU53156B6G310_C8_neuro2005_S27_R1_001

description: Library name: ENU53156B6G310_C8_neuro2005_S27_R1_001


title: ENU53158B6G311_G8_neuro2005_S31_R1_001

description: Library name: ENU53158B6G311_G8_neuro2005_S31_R1_001


title: ENU53154B6G36_G6_neuro2006_S39_R1_001

description: Library name: ENU53154B6G36_G6_neuro2006_S39_R1_001


title: ENU53154B6G33_G3_neuro2006_S39_R1_001

description: Library name: ENU53154B6G33_G3_neuro2006_S39_R1_001


title: ENU53154B6G34_G4_neuro2006_S39_R1_001

description: Library name: ENU53154B6G34_G4_neuro2006_S39_R1_001


title: ENU53154B6G35_G5_neuro2006_S39_R1_001

description: Library name: ENU53154B6G35_G5_neuro2006_S39_R1_001


title: ENU53154B6G32_G2_neuro2006_S39_R1_001

description: Library name: ENU53154B6G32_G2_neuro2006_S39_R1_001


title: ENU53154B6G314_G9_neuro2006_S39_R1_001

description: Library name: ENU53154B6G314_G9_neuro2006_S39_R1_001


title: ENU53154B6G315_G10_neuro2006_S39_R1_001

description: Library name: ENU53154B6G315_G10_neuro2006_S39_R1_001


title: ENU53154B6G313_G8_neuro2006_S39_R1_001

description: Library name: ENU53154B6G313_G8_neuro2006_S39_R1_001


title: ENU53154B6G317_G12_neuro2006_S39_R1_001

description: Library name: ENU53154B6G317_G12_neuro2006_S39_R1_001


title: ENU53154B6G312_G7_neuro2006_S39_R1_001

description: Library name: ENU53154B6G312_G7_neuro2006_S39_R1_001


title: ENU53153B6G34_F4_neuro2002_S22_R1_001

description: Library name: ENU53153B6G34_F4_neuro2002_S22_R1_001


title: ENU53153B6G38_F7_neuro2002_S22_R1_001

description: Library name: ENU53153B6G38_F7_neuro2002_S22_R1_001


title: ENU53153B6G39_F8_neuro2002_S22_R1_001

description: Library name: ENU53153B6G39_F8_neuro2002_S22_R1_001


title: ENU53153B6G35_F5_neuro2002_S22_R1_001

description: Library name: ENU53153B6G35_F5_neuro2002_S22_R1_001


title: ENU53153B6G32_F2_neuro2002_S22_R1_001

description: Library name: ENU53153B6G32_F2_neuro2002_S22_R1_001


title: ENU53153B6G36_F6_neuro2002_S22_R1_001

description: Library name: ENU53153B6G36_F6_neuro2002_S22_R1_001


title: ENU53153B6G33_F3_neuro2002_S22_R1_001

description: Library name: ENU53153B6G33_F3_neuro2002_S22_R1_001


title: ENU53153B6G31_F1_neuro2002_S22_R1_001

description: Library name: ENU53153B6G31_F1_neuro2002_S22_R1_001


title: ENU53153B6G310_F9_neuro2002_S22_R1_001

description: Library name: ENU53153B6G310_F9_neuro2002_S22_R1_001


title: ENU53152B6G39_C9_neuro2010_S67_R1_001

description: Library name: ENU53152B6G39_C9_neuro2010_S67_R1_001


title: ENU53153B6G313_F12_neuro2002_S22_R1_001

description: Library name: ENU53153B6G313_F12_neuro2002_S22_R1_001


title: ENU53152B6G38_C8_neuro2010_S67_R1_001

description: Library name: ENU53152B6G38_C8_neuro2010_S67_R1_001


title: ENU53152B6G37_C7_neuro2010_S67_R1_001

description: Library name: ENU53152B6G37_C7_neuro2010_S67_R1_001


title: ENU53152B6G33_C3_neuro2010_S67_R1_001

description: Library name: ENU53152B6G33_C3_neuro2010_S67_R1_001


title: ENU53152B6G36_C6_neuro2010_S67_R1_001

description: Library name: ENU53152B6G36_C6_neuro2010_S67_R1_001


title: ENU53152B6G34_C4_neuro2010_S67_R1_001

description: Library name: ENU53152B6G34_C4_neuro2010_S67_R1_001


title: ENU53152B6G35_C5_neuro2010_S67_R1_001

description: Library name: ENU53152B6G35_C5_neuro2010_S67_R1_001


title: ENU53152B6G32_C2_neuro2010_S67_R1_001

description: Library name: ENU53152B6G32_C2_neuro2010_S67_R1_001


title: ENU53152B6G31_C1_neuro2010_S67_R1_001

description: Library name: ENU53152B6G31_C1_neuro2010_S67_R1_001


title: ENU53153B6G312_F11_neuro2002_S22_R1_001

description: Library name: ENU53153B6G312_F11_neuro2002_S22_R1_001


title: ENU53152B6G315_C12_neuro2010_S67_R1_001

description: Library name: ENU53152B6G315_C12_neuro2010_S67_R1_001


title: ENU53152B6G310_C10_neuro2010_S67_R1_001

description: Library name: ENU53152B6G310_C10_neuro2010_S67_R1_001


title: ENU53152B6G314_C11_neuro2010_S67_R1_001

description: Library name: ENU53152B6G314_C11_neuro2010_S67_R1_001


title: ENU53151B6G38_B8_neuro2009_S58_R1_001

description: Library name: ENU53151B6G38_B8_neuro2009_S58_R1_001


title: ENU53153B6G311_F10_neuro2002_S22_R1_001

description: Library name: ENU53153B6G311_F10_neuro2002_S22_R1_001


title: ENU53151B6G35_B5_neuro2009_S58_R1_001

description: Library name: ENU53151B6G35_B5_neuro2009_S58_R1_001


title: ENU53151B6G36_B6_neuro2009_S58_R1_001

description: Library name: ENU53151B6G36_B6_neuro2009_S58_R1_001


title: ENU53151B6G37_B7_neuro2009_S58_R1_001

description: Library name: ENU53151B6G37_B7_neuro2009_S58_R1_001


title: ENU53151B6G316_B12_neuro2009_S58_R1_001

description: Library name: ENU53151B6G316_B12_neuro2009_S58_R1_001


title: ENU53151B6G31_B1_neuro2009_S58_R1_001

description: Library name: ENU53151B6G31_B1_neuro2009_S58_R1_001


title: ENU53151B6G34_B4_neuro2009_S58_R1_001

description: Library name: ENU53151B6G34_B4_neuro2009_S58_R1_001


title: ENU53151B6G313_B9_neuro2009_S58_R1_001

description: Library name: ENU53151B6G313_B9_neuro2009_S58_R1_001


title: ENU53151B6G315_B11_neuro2009_S58_R1_001

description: Library name: ENU53151B6G315_B11_neuro2009_S58_R1_001


title: ENU53151B6G314_B10_neuro2009_S58_R1_001

description: Library name: ENU53151B6G314_B10_neuro2009_S58_R1_001


title: ENU53149B6G39_H8_neuro2006_S40_R1_001

description: Library name: ENU53149B6G39_H8_neuro2006_S40_R1_001


title: ENU53149B6G35_H5_neuro2006_S40_R1_001

description: Library name: ENU53149B6G35_H5_neuro2006_S40_R1_001


title: ENU53151B6G33_B3_neuro2009_S58_R1_001

description: Library name: ENU53151B6G33_B3_neuro2009_S58_R1_001


title: ENU53149B6G32_H2_neuro2006_S40_R1_001

description: Library name: ENU53149B6G32_H2_neuro2006_S40_R1_001


title: ENU53149B6G33_H3_neuro2006_S40_R1_001

description: Library name: ENU53149B6G33_H3_neuro2006_S40_R1_001


title: ENU53149B6G31_H1_neuro2006_S40_R1_001

description: Library name: ENU53149B6G31_H1_neuro2006_S40_R1_001


title: ENU53149B6G36_H6_neuro2006_S40_R1_001

description: Library name: ENU53149B6G36_H6_neuro2006_S40_R1_001


title: ENU53151B6G32_B2_neuro2009_S58_R1_001

description: Library name: ENU53151B6G32_B2_neuro2009_S58_R1_001


title: ENU53149B6G34_H4_neuro2006_S40_R1_001

description: Library name: ENU53149B6G34_H4_neuro2006_S40_R1_001


title: ENU53149B6G316_H12_neuro2006_S40_R1_001

description: Library name: ENU53149B6G316_H12_neuro2006_S40_R1_001


title: ENU53149B6G310_H7_neuro2006_S40_R1_001

description: Library name: ENU53149B6G310_H7_neuro2006_S40_R1_001


title: ENU53147B6G33_G6_neuro2007_S47_R1_001

description: Library name: ENU53147B6G33_G6_neuro2007_S47_R1_001


title: ENU53149B6G312_H9_neuro2006_S40_R1_001

description: Library name: ENU53149B6G312_H9_neuro2006_S40_R1_001


title: ENU53147B6G32_G5_neuro2007_S47_R1_001

description: Library name: ENU53147B6G32_G5_neuro2007_S47_R1_001


title: ENU53149B6G313_H10_neuro2006_S40_R1_001

description: Library name: ENU53149B6G313_H10_neuro2006_S40_R1_001


title: ENU53147B6G31_G1_neuro2007_S47_R1_001

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description: Library name: ENU58414B6G322_E12_neuro2227_S93_R1_2367729280


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