!Series_title	"Microglial gene expression in Bmal1 cKO and WT mice"
!Series_geo_accession	"GSE214514"
!Series_status	"Public on Mar 01 2023"
!Series_submission_date	"Sep 30 2022"
!Series_last_update_date	"Mar 01 2023"
!Series_pubmed_id	"36829230"
!Series_summary	"To investigate the interaction between aging and microglial circadian rhythmicity, we examined mice deficient in the core clock transcription factor, BMAL1, in microglia."
!Series_overall_design	"Comparison of gene expression profiles in WT and mutant mice, at two ages in a 2x2 full factorial design."
!Series_type	"Expression profiling by high throughput sequencing"
!Series_contributor	"Chinyere,,Agbaegbu Iweka"
!Series_contributor	"Katrin,I,Andreasson"
!Series_sample_id	"GSM6607526 GSM6607527 GSM6607528 GSM6607529 GSM6607530 GSM6607531 GSM6607532 GSM6607533 GSM6607534 GSM6607535 GSM6607536 GSM6607537 GSM6607538 GSM6607539 GSM6607540 GSM6607541 GSM6607542 GSM6607543 GSM6607544 GSM6607545 GSM6607546 GSM6607547 GSM6607548 GSM6607549 GSM6607550 "
!Series_contact_name	"Sur,,Herrera Paredes"
!Series_contact_laboratory	"Fraser"
!Series_contact_department	"Biology"
!Series_contact_institute	"Stanford University"
!Series_contact_address	"371 Serra Mall,  Gilbert Building Room 109"
!Series_contact_city	"Stanford"
!Series_contact_state	"CA"
!Series_contact_zip/postal_code	"94305"
!Series_contact_country	"USA"
!Series_supplementary_file	"ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE214nnn/GSE214514/suppl/GSE214514_counts_all.tsv.gz"
!Series_platform_id	"GPL21103"
!Series_platform_taxid	"10090"
!Series_sample_taxid	"10090"
!Series_relation	"BioProject: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA885784"

!Sample_title	"Bmal1601, KO, Young"	"Bmal1602, KO, Young"	"Bmal1621, KO, Young"	"Bmal1631, KO, Young"	"Bmal1632, KO, Young"	"Bmal1633, KO, Young"	"Bmal1634, WT, Young"	"Bmal1641, WT, Young"	"Bmal1642, WT, Young"	"Bmal1643, WT, Young"	"Bmal1644, WT, Young"	"Bmal1645, WT, Young"	"Bmal121, WT, Aged"	"Bmal122, WT, Aged"	"Bmal131, WT, Aged"	"Bmal132, WT, Aged"	"Bmal133, WT, Aged"	"Bmal171, WT, Aged"	"Bmal141, KO, Aged"	"Bmal142, KO, Aged"	"Bmal151, KO, Aged"	"Bmal191, KO, Aged"	"Bmal192, KO, Aged"	"Bmal193, KO, Aged"	"Bmal1211, KO, Aged"
!Sample_geo_accession	"GSM6607526"	"GSM6607527"	"GSM6607528"	"GSM6607529"	"GSM6607530"	"GSM6607531"	"GSM6607532"	"GSM6607533"	"GSM6607534"	"GSM6607535"	"GSM6607536"	"GSM6607537"	"GSM6607538"	"GSM6607539"	"GSM6607540"	"GSM6607541"	"GSM6607542"	"GSM6607543"	"GSM6607544"	"GSM6607545"	"GSM6607546"	"GSM6607547"	"GSM6607548"	"GSM6607549"	"GSM6607550"
!Sample_status	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"	"Public on Mar 01 2023"
!Sample_submission_date	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"	"Sep 30 2022"
!Sample_last_update_date	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"	"Mar 01 2023"
!Sample_type	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"	"SRA"
!Sample_channel_count	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"	"1"
!Sample_source_name_ch1	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"	"Microglia"
!Sample_organism_ch1	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"	"Mus musculus"
!Sample_characteristics_ch1	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"	"cell type: Microglia"
!Sample_characteristics_ch1	"genotype: CD11b cre;Bmal1 lox/lox"	"genotype: CD11b cre;Bmal1 lox/lox"	"genotype: CD11b cre;Bmal1 lox/lox"	"genotype: CD11b cre;Bmal1 lox/lox"	"genotype: CD11b cre;Bmal1 lox/lox"	"genotype: CD11b cre;Bmal1 lox/lox"	"genotype: CD11b cre"	"genotype: CD11b cre"	"genotype: CD11b cre"	"genotype: CD11b cre"	"genotype: CD11b cre"	"genotype: CD11b cre"	"genotype: CD11b cre"	"genotype: CD11b cre"	"genotype: CD11b cre"	"genotype: CD11b cre"	"genotype: CD11b cre"	"genotype: CD11b cre"	"genotype: CD11b cre;Bmal1 lox/lox"	"genotype: CD11b cre;Bmal1 lox/lox"	"genotype: CD11b cre;Bmal1 lox/lox"	"genotype: CD11b cre;Bmal1 lox/lox"	"genotype: CD11b cre;Bmal1 lox/lox"	"genotype: CD11b cre;Bmal1 lox/lox"	"genotype: CD11b cre;Bmal1 lox/lox"
!Sample_characteristics_ch1	"age: Young"	"age: Young"	"age: Young"	"age: Young"	"age: Young"	"age: Young"	"age: Young"	"age: Young"	"age: Young"	"age: Young"	"age: Young"	"age: Young"	"age: Aged"	"age: Aged"	"age: Aged"	"age: Aged"	"age: Aged"	"age: Aged"	"age: Aged"	"age: Aged"	"age: Aged"	"age: Aged"	"age: Aged"	"age: Aged"	"age: Aged"
!Sample_growth_protocol_ch1	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."	"All animals were housed in an environmentally controlled, pathogen-free barrier facility on a 12-hour light–dark cycle, temperature, and humidity, with food and water available ad libitum. All tissue samples were isolated between ZT2 and ZT4 (zeitgebers time)."
!Sample_molecule_ch1	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"	"polyA RNA"
!Sample_extract_protocol_ch1	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."	"Microglia where issolated from brain tissue. Brain tissue was homogenized in Dounce buffer, supplemented with RNAase inhibitor and then passed through a 70 um cell strainer. Cells were pelleted at 400 xg for 5 minutes at 4C and resuspended in MACS buffer. Cells were incubated with myelin removal beads at 4C for 15 min and then washed in 2 ml MACS buffer supplemented with RNAase inhibitor. Cells were then run through the Miltenyi LD column placed in the MACS magnet and columns were subsequently rinsed twice with MACS buffer. Cells were pelleted at 300 xg for 5 min at 4C, resuspended in MACS buffer and incubated with CD11b microbeads for 15 min at 4C. Cells were washed in MACS buffer at 300 xg for 10 min at 4C and resuspended in MACS Buffer. Cells were separated by Miltenyi LS columns. Cells were then centrifuged at 300 xg for 10 min at 4C and resuspended in TRIzol LS."
!Sample_extract_protocol_ch1	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."	"mRNA was purified from total RNA using poly-T oligo-attached magnetic beads.  1 ug RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturer's recommendations and index codes were added to attribute sequences to each sample."
!Sample_taxid_ch1	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"	"10090"
!Sample_description	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"	"Gene expression profile of mouse microglia"
!Sample_description	"Bmal1601"	"Bmal1602"	"Bmal1621"	"Bmal1631"	"Bmal1632"	"Bmal1633"	"Bmal1634"	"Bmal1641"	"Bmal1642"	"Bmal1643"	"Bmal1644"	"Bmal1645"	"Bmal121"	"Bmal122"	"Bmal131"	"Bmal132"	"Bmal133"	"Bmal171"	"Bmal141"	"Bmal142"	"Bmal151"	"Bmal191"	"Bmal192"	"Bmal193"	"Bmal1211"
!Sample_data_processing	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."	"Raw mRNA sequencing data was processed with the nf-core/rnaseq pipeline (v3.8.1). Default parameters were used except for the additional –remove_ribo_rna parameter to remove reads derived from ribosomal RNA."
!Sample_data_processing	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"	"Assembly: GRCm38"
!Sample_data_processing	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"	"Supplementary files format and content: tab-separated text file include counts per gene per sample as estimated from Salmon via the nf-core/rnaseq pipeline"
!Sample_platform_id	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"	"GPL21103"
!Sample_contact_name	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"	"Sur,,Herrera Paredes"
!Sample_contact_laboratory	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"	"Fraser"
!Sample_contact_department	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"	"Biology"
!Sample_contact_institute	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"	"Stanford University"
!Sample_contact_address	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"	"371 Serra Mall,  Gilbert Building Room 109"
!Sample_contact_city	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"	"Stanford"
!Sample_contact_state	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"	"CA"
!Sample_contact_zip/postal_code	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"	"94305"
!Sample_contact_country	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"	"USA"
!Sample_data_row_count	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"0"
!Sample_instrument_model	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"	"Illumina HiSeq 4000"
!Sample_library_selection	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"	"cDNA"
!Sample_library_source	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"	"transcriptomic"
!Sample_library_strategy	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"	"RNA-Seq"
!Sample_relation	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104564"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104563"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104562"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104561"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104560"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104559"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104558"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104557"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104556"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104555"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104554"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104553"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104552"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104551"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104550"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104549"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104548"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104547"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104546"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104545"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104544"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104543"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104542"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104541"	"BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN31104540"
!Sample_relation	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760697"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760698"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760699"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760700"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760701"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760702"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760703"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760704"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760705"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760706"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760707"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760708"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760709"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760710"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760711"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760712"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760713"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760714"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760715"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760716"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760717"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760718"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760719"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760720"	"SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX17760721"
!Sample_supplementary_file_1	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"	"NONE"
!series_matrix_table_begin
"ID_REF"	"GSM6607526"	"GSM6607527"	"GSM6607528"	"GSM6607529"	"GSM6607530"	"GSM6607531"	"GSM6607532"	"GSM6607533"	"GSM6607534"	"GSM6607535"	"GSM6607536"	"GSM6607537"	"GSM6607538"	"GSM6607539"	"GSM6607540"	"GSM6607541"	"GSM6607542"	"GSM6607543"	"GSM6607544"	"GSM6607545"	"GSM6607546"	"GSM6607547"	"GSM6607548"	"GSM6607549"	"GSM6607550"
!series_matrix_table_end
