title: SM-J2NTQ_S115_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-J6

status: Public on Dec 14 2023

type: SRA

city: La Jolla

first: Joseph

middle: R

last: Ecker

state: CA

address: 10010 North Torrey Pines Road

department: Genomic Analysis Laboratory

country: USA

institute: HHMI-Salk-Institute

library_source: genomic

data_processing:
Reads trimmed with Cutadapt for adapters and low quality bases (Phred score >= 20)
The resulting files are mapped to in-silico bisulfite converted hg38 reference genome using Hisat-3n.
The raw BAM files were filtered using samtools to keep only uniquely mapped reads and use Picard to remove PCR duplicates.
From the filtered BAM file, DNA reads are selected by read-level mCH base coverage >= 3 and read-level mCH fraction < 0.5, selected reads will be processed by ALLCools package to produce ALLC files (allcools allc-to-bam function). The ALLC files are Tab-delimited files describing the quantity of unmethylated and methylated cytosine base calls.
Trimmed reads will also be mapped by Hisat2 to map to hg38 reference genome with GENCODE human v37 gene annotation. RNA reads are selected by read-level mCH base coverage >= 3 and read-level mCH fraction > 0.9, selected reads will be processed by featureCount to quantify gene level (exon + intron) RNA counts.
Assembly: hg38
Supplementary files format and content: tab-delimited files (ALLC files) describing the quantity of unmethylated and methylated cytosine base calls. Columns are: 1. Chromosome, 2. Position, 3. Strand, 4. Cytosin Context, 5. methylated base call, 6. total mapped base call, 7. not used, place holder column.
Library strategy: snmCT-seq

molecule: genomic DNA

organism: Homo sapiens

source_name: OF1B human BA46

extract_protocol: Library prepared following protocol discribed in Luo, Chongyuan, Hanqing Liu, Fangming Xie, Ethan J. Armand, Kimberly Siletti, Trygve E. Bakken, Rongxin Fang, et al. 2019. “Single Nucleus Multi-Omics Links Human Cortical Cell Regulatory Genome Diversity to Disease Risk Variants.” bioRxiv. https://doi.org/10.1101/2019.12.11.873398. https://www.protocols.io/view/snmcat-v1-bwubpesn

tag: brain region

value: Dorsolateral Prefrontal cortex (Brodmann area 46)

tag: age

tag: Sex

value: Female

tag: molecule subtype

value: nuclear RNA + genomic DNA


title: 3543_OF1B_3-3-J2-K17


title: 3543_OF1B_3-3-J2-J17


title: 3543_OF1B_3-3-J2-J18


title: SM-J2NTQ_S114_E1-50

city: Boston

first: Yu

last: Zhang

state: MA

address: 3 Blackfan Street, Room 13060

department: Neurobiology

institute: Boston Childrens Hospital

description: SmartSeq

library_source: transcriptomic single cell

data_processing:
For 10x samples, sequencing reads were aligned to the mouse reference transcriptome (mm10, version 2020-A) using CellRanger (version 6.1.2). For SSv4, samples were aligned to Mouse reference, mm10/genecode.vM23, using STAR (version 2.7.1a).
Assembly: mouse reference transcriptome (mm10)
Supplementary files format and content: .rda files. R object with count matrix

molecule: nuclear RNA

organism: Mus musculus

extract_protocol:
Single nuclei were isolated by adapting a protocol from the Allen Institue for Brain Science available at protocols.io (dx.doi.org/10.17504/protocols.io.bq7emzje). Spinal projecting neurons (SPNs) were enriched from the nucleus suspensions using fluorescence activated nucleus sorting (FANS). For 10x, single SPN nuclei were sorted using a BD FACSARIA II with a 70 µm custom pressure nozzle (50 psi). Briefly, single nuclei were captured by sorting on ‘four-way-purity mode’ and gating on DAPI-positive while excluding debris and aggregates, then gating on GFP and/or mScarlet signal. Nuclei were sorted (to a maximum number of 16,000 nuclei) using two-way sorting (GFP-positive separate from mScarlet- and double-positive) into PCR tubes (pre-coated with 5% BSA overnight) containing 20uL of sort buffer. After sorting, PCR tubes were briefly centrifuged and then placed on ice until proceeding with the 10x platform. For SSv4, single nuclei were sorted using a Sony SH800 Cell Sorter or MA900 Multi-Application Cell Sorter using a 100 µm chip. Briefly, single nuclei were sorted on ‘single-cell’ mode and captured by gating on singlet DAPI-positive, then gating on GFP and/or mScarlet signal to specifically sort cervical and/or lumbar project SPNs, respectively. Indexed plate-based sorting was used to sort GFP-, mScarlet, and double-positive nuclei into strip tubes containing 11.5uL of SMART-Seq v4 lysis buffer. Lysed FANS-sorted nuclei were then briefly centrifuged, frozen on dry ice, and stored at -80ºC until proceeding with the SSv4 platform.
10x processing was performed using the Chromium Next GEM Single Cell 3ʹ Kit v3.1 (1000268, 10x Genomics). To optimize yield, sorted nucleus suspensions were loaded directly into the 10x Chromium Controller without post-FANS spin down and re-suspension. Reverse transcription, cDNA amplification, and library construction were performed according to the manufacturer’s protocol. Libraries were sequenced on an Illumina NovaSeq 6000, targeted at a sequencing depth of 120,000 reads per nucleus. SMART-Seq v4 (SSv4) processing was performed according to previously established procedures47 available at protocols.io (dx.doi.org/10.17504/protocols.io.8epv517xdl1b/v2). Briefly, the SMART-Seq v4 Ultra Low Input RNA Kit for Sequencing (634894, Takara) was used to reverse transcribe poly(A) RNA and amplify full-length cDNA. Samples were amplified for 16-21 cycles in eight-well strips. Library preparation was then performed using Nextera XT DNA Library Preparation (FC-131-1096, Illumina) with a custom index set (Integrated DNA Technologies) according to the manufacturer’s instructions with modifications to reduce the volumes of all reagents and cDNA input to 0.2x of the original protocol. Libraries were sequenced on either an Illumina NovaSeqSP-XP or an Illumina NextSeq2000, targeting 500,000 reads per nucleus.
Single-nucleus RNA sequencing (snRNAseq)

tag: tissue

tag: cell type

value: Spinal Projecting Neuron (SPN)

tag: strain

value: 51 days


title: SM-J2NTQ_S112_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-L6


title: SM-J2NTQ_S196_E1-50

description: SmartSeq

value: 60 days


title: 3543_OF1B_3-3-J2-I6


title: SM-J2NTQ_S111_E1-50

description: SmartSeq


title: SM-J2NTQ_S110_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-I5


title: SM-J2NTQ_S109_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-I18


title: SM-J2NTQ_S119_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-I17


title: 3543_OF1B_3-3-J2-H5


title: SM-J2NTQ_S106_E1-50

description: SmartSeq


title: SM-J2NTQ_S107_E1-50

description: SmartSeq


title: SM-J2NTQ_S108_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-H18


title: 3543_OF1B_3-3-J2-H17


title: SM-J3A15_S584_E1-50

description: SmartSeq

value: 67 days


title: 3543_OF1B_3-3-J2-G6


title: 3543_OF1B_3-3-J2-G5


title: 3543_OF1B_3-3-J2-G17


title: SM-J3A15_S581_E1-50

description: SmartSeq


title: SM-J3A15_S583_E1-50

description: SmartSeq


title: SM-J3A15_S579_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-F6


title: 3543_OF1B_3-3-J2-F5


title: SM-J3A15_S578_E1-50

description: SmartSeq


title: SM-J3A15_S582_E1-50

description: SmartSeq


title: SM-J3A15_S575_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-H6


title: 3543_OF1B_3-3-J2-F17


title: SM-J3A15_S576_E1-50

description: SmartSeq


title: SM-J2NTQ_S105_E1-50

description: SmartSeq


title: SM-J3A15_S577_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-E5


title: 3543_OF1B_3-3-J2-E18


title: SM-J3A15_S574_E1-50

description: SmartSeq


title: SM-J3A15_S573_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-E6


title: SM-J3A15_S572_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-E17


title: 3543_OF1B_3-3-J2-G18


title: 3543_OF1B_3-3-J2-D5


title: SM-J3A15_S580_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-D6


title: 3543_OF1B_3-3-J2-D18


title: SM-J3A15_S569_E1-50

description: SmartSeq


title: SM-J3A15_S570_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-D17


title: 3543_OF1B_3-3-J2-C6


title: SM-J3A15_S567_E1-50

description: SmartSeq


title: SM-J3A15_S568_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-C5


title: SM-J3A15_S566_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-F18


title: SM-J3A15_S565_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-C17


title: 3543_OF1B_3-3-J2-B6


title: 3543_OF1B_3-3-J2-C18


title: SM-J3A15_S563_E1-50

description: SmartSeq


title: SM-J3A15_S571_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-B5


title: SM-J3A15_S561_E1-50

description: SmartSeq


title: SM-J3A15_S562_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-B18


title: SM-J3A15_S559_E1-50

description: SmartSeq


title: SM-J3A15_S560_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-A5


title: 3543_OF1B_3-3-J2-A6


title: SM-J3A15_S558_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-A17


title: SM-J3A15_S557_E1-50

description: SmartSeq


title: 3543_OF1B_3-3-J2-A18


title: 3543_OF1B_3-2-J2-P3


title: SM-J3A15_S555_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-P16


title: SM-J3A15_S556_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-P4


title: SM-J3A15_S554_E1-50

description: SmartSeq


title: SM-J3A15_S553_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-P15


title: SM-J3A15_S552_E1-50

description: SmartSeq


title: SM-J3A15_S564_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-O4


title: 3543_OF1B_3-2-J2-O3


title: 3543_OF1B_3-3-J2-B17


title: SM-J3A15_S550_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-O16


title: 3543_OF1B_3-2-J2-O15


title: SM-J3A15_S549_E1-50

description: SmartSeq


title: SM-J3A15_S551_E1-50

description: SmartSeq


title: SM-J3A15_S547_E1-50

description: SmartSeq


title: SM-J3A15_S548_E1-50

description: SmartSeq


title: SM-J3A15_S545_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-N15


title: 3543_OF1B_3-2-J2-N3


title: 3543_OF1B_3-2-J2-N4


title: 3543_OF1B_3-2-J2-N16


title: SM-J3A15_S542_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-M15


title: 3543_OF1B_3-2-J2-M16


title: SM-J3A15_S541_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-L4


title: SM-J3A15_S540_E1-50

description: SmartSeq


title: SM-J3A15_S543_E1-50

description: SmartSeq


title: SM-J3A15_S537_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-L16


title: 3543_OF1B_3-2-J2-L15


title: 3543_OF1B_3-2-J2-K4


title: SM-J3A15_S538_E1-50

description: SmartSeq


title: SM-J3A15_S539_E1-50

description: SmartSeq


title: SM-J3A15_S535_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-L3


title: SM-J3A15_S534_E1-50

description: SmartSeq


title: SM-J3A15_S536_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-K3


title: SM-J3A15_S546_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-K16


title: SM-J3A15_S533_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-M4


title: 3543_OF1B_3-2-J2-K15


title: 3543_OF1B_3-2-J2-J3


title: 3543_OF1B_3-2-J2-M3


title: 3543_OF1B_3-2-J2-J15


title: SM-J3A15_S544_E1-50

description: SmartSeq


title: SM-J3A15_S529_E1-50

description: SmartSeq


title: SM-J3A15_S530_E1-50

description: SmartSeq


title: SM-J3A15_S531_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-J16


title: 3543_OF1B_3-2-J2-J4


title: SM-J3A15_S528_E1-50

description: SmartSeq

value: 59 days


title: 3543_OF1B_3-2-J2-I4


title: SM-J3A15_S527_E1-50

description: SmartSeq


title: SM-J3A15_S526_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-I16


title: SM-J3A15_S525_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-H4


title: 3543_OF1B_3-2-J2-H3


title: 3543_OF1B_3-2-J2-I3


title: SM-J3A15_S524_E1-50

description: SmartSeq


title: SM-J3A15_S522_E1-50

description: SmartSeq


title: SM-J3A15_S521_E1-50

description: SmartSeq


title: SM-J3A15_S532_E1-50

description: SmartSeq


title: SM-J3A15_S523_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-H16


title: 3543_OF1B_3-2-J2-I15


title: SM-J3A15_S520_E1-50

description: SmartSeq


title: SM-J3A15_S518_E1-50

description: SmartSeq


title: SM-J3A15_S517_E1-50

description: SmartSeq


title: SM-J3A15_S519_E1-50

description: SmartSeq


title: SM-J3A15_S513_E1-50

description: SmartSeq


title: SM-J3A15_S516_E1-50

description: SmartSeq


title: SM-J3A15_S515_E1-50

description: SmartSeq


title: SM-J3A15_S514_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-G3


title: 3543_OF1B_3-2-J2-G4


title: 3543_OF1B_3-2-J2-G15


title: 3543_OF1B_3-2-J2-F3


title: 3543_OF1B_3-2-J2-F15


title: 3543_OF1B_3-2-J2-F4


title: 3543_OF1B_3-2-J2-E16


title: SM-J3A15_S510_E1-50

description: SmartSeq


title: SM-J3A15_S511_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-E15


title: SM-J3A15_S508_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-E4


title: SM-J3A15_S507_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-E3


title: 3543_OF1B_3-2-J2-D4


title: SM-J3A15_S512_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-D3


title: 3543_OF1B_3-2-J2-H15


title: 3543_OF1B_3-2-J2-F16


title: 3543_OF1B_3-6-J2-E24


title: 3543_OF1B_3-2-J2-G16


title: SM-J3A15_S506_E1-50

description: SmartSeq


title: SM-J3A15_S496_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-D16


title: 3543_OF1B_3-2-J2-D15


title: SM-J3A15_S505_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-C4


title: SM-J3A15_S509_E1-50

description: SmartSeq


title: SM-J3A15_S495_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-C3


title: SM-J3A15_S494_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-C16


title: SM-J3A15_S493_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-C15


title: 3543_OF1B_3-2-J2-B4


title: 3543_OF1B_3-2-J2-A3


title: 3543_OF1B_3-2-J2-B3


title: SM-J3A15_S489_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-A16


title: SM-J3A15_S488_E1-50

description: SmartSeq


title: SM-J3A15_S492_E1-50

description: SmartSeq


title: SM-J3A15_S491_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-A15


title: SM-J3A15_S486_E1-50

description: SmartSeq


title: SM-J3A15_S490_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-B16


title: SM-J3A15_S484_E1-50

description: SmartSeq


title: 3543_OF1B_3-2-J2-B15


title: SM-J3A15_S487_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-P1


title: 3543_OF1B_3-2-J2-A4


title: SM-J3A15_S483_E1-50

description: SmartSeq


title: SM-J3A15_S485_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-P14


title: 3543_OF1B_3-1-J2-O2


title: 3543_OF1B_3-1-J2-O1


title: SM-J3A1D_S664_E1-50

description: SmartSeq


title: SM-J3A1D_S663_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-O14


title: SM-J3A15_S481_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-P13


title: SM-J3A1D_S661_E1-50

description: SmartSeq

value: 58 days


title: 3543_OF1B_3-1-J2-O13


title: 3543_OF1B_3-1-J2-N2


title: 3543_OF1B_3-1-J2-N1


title: 3543_OF1B_3-1-J2-N14


title: 3543_OF1B_3-1-J2-N13


title: SM-J3A1D_S659_E1-50

description: SmartSeq


title: SM-J3A1D_S658_E1-50

description: SmartSeq


title: SM-J3A1D_S657_E1-50

description: SmartSeq


title: SM-J3A1D_S655_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-M14


title: SM-J3A1D_S656_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-M1


title: SM-J3A15_S482_E1-50

description: SmartSeq


title: SM-J3A1D_S654_E1-50

description: SmartSeq


title: SM-J3A1D_S653_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-M2


title: SM-J3A1D_S652_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-L2


title: 3543_OF1B_3-1-J2-L1


title: SM-J3A1D_S662_E1-50

description: SmartSeq


title: SM-J3A1D_S651_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-L14


title: 3543_OF1B_3-1-J2-L13


title: SM-J3A1D_S660_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-K1


title: SM-J3A1D_S648_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-K2


title: SM-J3A1D_S649_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-K14


title: SM-J3A1D_S645_E1-50

description: SmartSeq


title: SM-J3A1D_S646_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-K13


title: SM-J3A1D_S643_E1-50

description: SmartSeq


title: SM-J3A1D_S644_E1-50

description: SmartSeq


title: SM-J3A1D_S650_E1-50

description: SmartSeq


title: SM-J3A1D_S641_E1-50

description: SmartSeq


title: SM-J3A1D_S639_E1-50

description: SmartSeq


title: SM-J3A1D_S638_E1-50

description: SmartSeq


title: SM-J3A1D_S647_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-H1


title: 3543_OF1B_3-1-J2-M13


title: 3543_OF1B_3-1-J2-I14


title: 3543_OF1B_3-1-J2-H2


title: 3543_OF1B_3-1-J2-J2


title: 3543_OF1B_3-1-J2-J1


title: 3543_OF1B_3-1-J2-J14


title: SM-J3A1D_S642_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-J13


title: 3543_OF1B_3-1-J2-I2


title: SM-J3A1D_S640_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-G2


title: 3543_OF1B_3-1-J2-G1


title: 3543_OF1B_3-1-J2-I1


title: SM-J3A1D_S637_E1-50

description: SmartSeq


title: SM-J3A1D_S631_E1-50

description: SmartSeq


title: SM-J3A1D_S630_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-I13


title: SM-J3A1D_S636_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-H14


title: SM-J3A1D_S635_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-F2


title: 3543_OF1B_3-1-J2-H13


title: SM-J3A1D_S629_E1-50

description: SmartSeq


title: SM-J3A1D_S633_E1-50

description: SmartSeq


title: SM-J3A1D_S632_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-F14


title: SM-J3A1D_S627_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-G14


title: SM-J3A1D_S625_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-G13


title: 3543_OF1B_3-1-J2-F1


title: SM-J3A1D_S628_E1-50

description: SmartSeq


title: SM-J3A1D_S623_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-E2


title: SM-J3A1D_S634_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-F13


title: 3543_OF1B_3-1-J2-D1


title: 3543_OF1B_3-1-J2-D14


title: 3543_OF1B_3-1-J2-D13


title: SM-J3A1D_S615_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-E1


title: 3543_OF1B_3-1-J2-C1


title: 3543_OF1B_3-1-J2-E13


title: 3543_OF1B_3-1-J2-E14


title: SM-J3A1D_S621_E1-50

description: SmartSeq


title: SM-J3A1D_S617_E1-50

description: SmartSeq


title: SM-J3A1D_S613_E1-50

description: SmartSeq


title: SM-J3A1D_S619_E1-50

description: SmartSeq


title: SM-J3A1D_S618_E1-50

description: SmartSeq


title: SM-J3A1D_S626_E1-50

description: SmartSeq


title: SM-J3A1D_S622_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-D2


title: SM-J3A1D_S612_E1-50

description: SmartSeq


title: SM-J3A1D_S620_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-C2


title: 3543_OF1B_3-1-J2-B14


title: 3543_OF1B_3-1-J2-B1


title: SM-J3A1D_S616_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-B13


title: 3543_OF1B_3-1-J2-C14


title: SM-J3A1D_S614_E1-50

description: SmartSeq


title: SM-J3A1D_S624_E1-50

description: SmartSeq


title: SM-J3A1D_S609_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-C13


title: 3543_OF1B_3-1-J2-B2


title: 3543_OF1B_3-1-J2-A14


title: 3543_OF1B_3-1-J2-A1


title: SM-J3A1D_S606_E1-50

description: SmartSeq


title: SM-J3A1D_S611_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-A13


title: SM-J3A1D_S605_E1-50

description: SmartSeq


title: SM-J3A1D_S610_E1-50

description: SmartSeq


title: 3543_OF1B_3-1-J2-A2


title: 3543_OF1B_2-6-J11-P12


title: SM-J3A1D_S607_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-P24


title: SM-J3A1D_S603_E1-50

description: SmartSeq


title: SM-J3A1D_S604_E1-50

description: SmartSeq


title: SM-J3A1D_S600_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-P23


title: SM-J3A1D_S601_E1-50

description: SmartSeq


title: SM-J3A1D_S602_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-O24


title: SM-J3A1D_S599_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-O12


title: SM-J3A1D_S608_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-N24


title: 3543_OF1B_2-6-J11-N23


title: SM-J3A1D_S598_E1-50

description: SmartSeq


title: SM-J3A1D_S597_E1-50

description: SmartSeq


title: SM-J3A1D_S595_E1-50

description: SmartSeq


title: SM-J3A1D_S596_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-N12


title: 3543_OF1B_2-6-J11-P11


title: SM-J3A1D_S592_E1-50

description: SmartSeq


title: SM-J3A1D_S594_E1-50

description: SmartSeq


title: SM-J3A1D_S593_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-O23


title: 3543_OF1B_2-6-J11-M12


title: 3543_OF1B_2-6-J11-M23


title: 3543_OF1B_2-6-J11-M11


title: SM-J3A1D_S589_E1-50

description: SmartSeq


title: SM-J3A1D_S588_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-L23


title: 3543_OF1B_2-6-J11-L24


title: 3543_OF1B_2-6-J11-O11


title: SM-J3A1D_S587_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-L11


title: SM-J3A1D_S585_E1-50

description: SmartSeq


title: SM-J3A1D_S586_E1-50

description: SmartSeq


title: SM-J3A1D_S582_E1-50

description: SmartSeq


title: SM-J3A1D_S584_E1-50

description: SmartSeq


title: SM-J3A1D_S583_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-K12


title: 3543_OF1B_2-6-J11-K24


title: 3543_OF1B_2-6-J11-M24


title: 3543_OF1B_2-6-J11-N11


title: 3543_OF1B_2-6-J11-K23


title: 3543_OF1B_2-6-J11-K11


title: 3543_OF1B_2-6-J11-J24


title: SM-J3A1D_S580_E1-50

description: SmartSeq


title: SM-J3A1D_S591_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-J23


title: SM-J3A1D_S578_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-J12


title: 3543_OF1B_2-6-J11-J11


title: 3543_OF1B_2-6-J11-I24


title: 3543_OF1B_2-6-J11-I23


title: SM-J3A1L_S696_E1-50

description: SmartSeq


title: SM-J3A1D_S577_E1-50

description: SmartSeq


title: SM-J3A1L_S695_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-I12


title: SM-J3A1L_S694_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-I11


title: SM-J3A1D_S590_E1-50

description: SmartSeq


title: SM-J3A1D_S581_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-H24


title: SM-J3A1L_S693_E1-50

description: SmartSeq


title: SM-J3A1L_S691_E1-50

description: SmartSeq


title: SM-J3A1L_S690_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-G24


title: SM-J3A1L_S689_E1-50

description: SmartSeq


title: SM-J3A1L_S692_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-H11


title: 3543_OF1B_2-6-J11-H23


title: SM-J3A1L_S688_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-H12


title: SM-J3A1D_S579_E1-50

description: SmartSeq


title: SM-J3A1L_S686_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-G12


title: 3543_OF1B_2-6-J11-G23


title: 3543_OF1B_2-6-J11-G11


title: 3543_OF1B_2-6-J11-F24


title: SM-J3A1L_S685_E1-50

description: SmartSeq


title: SM-J3A1L_S684_E1-50

description: SmartSeq


title: SM-J3A1L_S683_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-F23


title: SM-J3A1L_S682_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-F11


title: SM-J3A1L_S681_E1-50

description: SmartSeq


title: SM-J3A1L_S680_E1-50

description: SmartSeq


title: SM-J3A1L_S679_E1-50

description: SmartSeq


title: SM-J3A1L_S677_E1-50

description: SmartSeq


title: SM-J3A1L_S687_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-E11


title: SM-J3A1L_S678_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-D24


title: SM-J3A1L_S675_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-D12


title: SM-J3A1L_S674_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-D11


title: SM-J3A1L_S676_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-C24


title: SM-J3A1T_S768_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-E12


title: SM-J3A1T_S767_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-E24


title: 3543_OF1B_2-6-J11-D23


title: 3543_OF1B_2-6-J11-F12


title: 3543_OF1B_2-6-J11-E23


title: 3543_OF1B_2-6-J11-C12


title: 3543_OF1B_2-6-J11-C23


title: SM-J3A1T_S765_E1-50

description: SmartSeq


title: SM-J3A1T_S764_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-B24


title: 3543_OF1B_2-6-J11-B23


title: SM-J3A1T_S763_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-B12


title: SM-J3A1T_S761_E1-50

description: SmartSeq


title: SM-J3A1T_S762_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-B11


title: 3543_OF1B_2-6-J11-A23


title: 3543_OF1B_2-6-J11-A24


title: SM-J3A1T_S760_E1-50

description: SmartSeq


title: SM-J3A1T_S759_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-A12


title: SM-J3A1L_S673_E1-50

description: SmartSeq


title: SM-J3A1T_S757_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-P9


title: SM-J3A1T_S766_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-P21


title: 3543_OF1B_2-6-J11-A11


title: 3543_OF1B_2-5-J11-P10


title: SM-J3A1T_S756_E1-50

description: SmartSeq


title: SM-J3A1T_S758_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-P22


title: SM-J3A1T_S753_E1-50

description: SmartSeq


title: SM-J3A1T_S755_E1-50

description: SmartSeq


title: 3543_OF1B_2-6-J11-C11


title: 3543_OF1B_2-5-J11-O9


title: SM-J3A1T_S752_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-O22


title: 3543_OF1B_2-5-J11-O21


title: 3543_OF1B_2-5-J11-N9


title: SM-J3A1T_S749_E1-50

description: SmartSeq


title: SM-J3A1T_S748_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-N22


title: 3543_OF1B_2-5-J11-N21


title: 3543_OF1B_2-5-J11-N10


title: SM-J3A1T_S746_E1-50

description: SmartSeq


title: SM-J3A1T_S745_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-M9


title: SM-J3A1T_S744_E1-50

description: SmartSeq


title: SM-J3A1T_S743_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-L9


title: SM-J3A1T_S742_E1-50

description: SmartSeq


title: SM-J3A1T_S741_E1-50

description: SmartSeq


title: SM-J3A1T_S740_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-M22


title: 3543_OF1B_2-5-J11-M21


title: 3543_OF1B_2-5-J11-L22


title: 3543_OF1B_2-5-J11-L21


title: SM-J3A1T_S754_E1-50

description: SmartSeq


title: SM-J3A1T_S739_E1-50

description: SmartSeq


title: SM-J3A1T_S751_E1-50

description: SmartSeq


title: SM-J3A1T_S738_E1-50

description: SmartSeq


title: SM-J3A1T_S750_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-O10


title: SM-J3A1T_S737_E1-50

description: SmartSeq


title: SM-J3A1T_S747_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-L10


title: SM-J3A1T_S736_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-K22


title: SM-J3A1T_S734_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-K21


title: 3543_OF1B_2-5-J11-K10


title: SM-J3A1T_S735_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-M10


title: SM-J3A1T_S733_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-J22


title: SM-J3A1T_S731_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-J21


title: 3543_OF1B_2-5-J11-J9


title: SM-J3A1T_S729_E1-50

description: SmartSeq


title: SM-J3A1T_S730_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-I22


title: 3543_OF1B_2-5-J11-J10


title: 3543_OF1B_2-5-J11-I9


title: SM-J3A1T_S727_E1-50

description: SmartSeq


title: SM-J3A1T_S726_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-I21


title: SM-J3A1T_S725_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-I10


title: SM-J3A1T_S728_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-K9


title: 3543_OF1B_2-5-J11-H22


title: 3543_OF1B_2-5-J11-H9


title: 3543_OF1B_2-5-J11-H21


title: SM-J3A1T_S723_E1-50

description: SmartSeq


title: SM-J3A1T_S722_E1-50

description: SmartSeq


title: SM-J3A1T_S721_E1-50

description: SmartSeq


title: SM-J3A1T_S719_E1-50

description: SmartSeq

value: 57 days


title: SM-J3A1T_S720_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-G22


title: 3543_OF1B_2-5-J11-H10


title: SM-J3A1T_S732_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-G21


title: SM-J3A1T_S718_E1-50

description: SmartSeq


title: SM-J3A1T_S717_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-G10


title: 3543_OF1B_2-5-J11-F22


title: SM-J3A1T_S715_E1-50

description: SmartSeq


title: SM-J3A1T_S716_E1-50

description: SmartSeq


title: SM-J3A1T_S714_E1-50

description: SmartSeq


title: SM-J3A1T_S724_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-F10


title: 3543_OF1B_2-5-J11-E9


title: SM-J3A1T_S713_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-E22


title: 3543_OF1B_2-5-J11-E21


title: 3543_OF1B_2-6-J11-L12


title: SM-J3A1T_S703_E1-50

description: SmartSeq


title: SM-J3A1T_S701_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-E10


title: SM-J3A1T_S702_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-G9


title: 3543_OF1B_2-5-J11-D9


title: SM-J3A1T_S700_E1-50

description: SmartSeq


title: SM-J3A1T_S699_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-D22


title: 3543_OF1B_2-5-J11-D21


title: 3543_OF1B_2-5-J11-D10


title: 3543_OF1B_2-5-J11-F21


title: SM-J3A1T_S697_E1-50

description: SmartSeq


title: SM-J3A1T_S695_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-C9


title: 3543_OF1B_2-5-J11-C22


title: SM-J3A1T_S696_E1-50

description: SmartSeq


title: SM-J3A1T_S694_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-C10


title: 3543_OF1B_2-5-J11-C21


title: SM-J3A1T_S692_E1-50

description: SmartSeq


title: SM-J3A1T_S704_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-B9


title: 3543_OF1B_2-5-J11-B22


title: SM-J3A1T_S693_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-B21


title: 3543_OF1B_2-5-J11-B10


title: 3543_OF1B_2-5-J11-F9


title: SM-J3A1T_S688_E1-50

description: SmartSeq


title: SM-J3A1T_S690_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-A9


title: 3543_OF1B_2-5-J11-A22


title: SM-J3A1T_S687_E1-50

description: SmartSeq


title: SM-J3A1T_S689_E1-50

description: SmartSeq


title: SM-J3A1T_S698_E1-50

description: SmartSeq


title: SM-J3A1T_S686_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-A21


title: SM-J3A1T_S685_E1-50

description: SmartSeq


title: 3543_OF1B_2-5-J11-A10


title: 3543_OF1B_2-4-J11-P8


title: 3543_OF1B_2-4-J11-P7


title: SM-J3A1T_S682_E1-50

description: SmartSeq


title: SM-J3A1T_S681_E1-50

description: SmartSeq


title: SM-J3A1T_S680_E1-50

description: SmartSeq


title: SM-J3A1T_S691_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-P19


title: SM-J3A1T_S679_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-O8


title: 3543_OF1B_2-4-J11-O7


title: SM-J3A1T_S678_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-O20


title: 3543_OF1B_2-4-J11-O19


title: 3543_OF1B_2-4-J11-N8


title: SM-J3A1T_S676_E1-50

description: SmartSeq


title: SM-J3A1T_S677_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-N7


title: SM-J3A1T_S673_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-N20


title: 3543_OF1B_2-4-J11-N19


title: SM-J3A1T_S675_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-M8


title: SM-J3A1T_S674_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-M7


title: SM-J3A1T_S671_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-M20


title: SM-J3A1T_S683_E1-50

description: SmartSeq


title: SM-J3A1T_S670_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-P20


title: SM-J3A1T_S669_E1-50

description: SmartSeq


title: SM-J3A1T_S668_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-L7


title: 3543_OF1B_2-4-J11-M19


title: SM-J3A1T_S667_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-L8


title: 3543_OF1B_2-4-J11-L20


title: SM-J3A1T_S666_E1-50

description: SmartSeq


title: SM-J3A1T_S665_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-L19


title: SM-J3A1T_S684_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-K8


title: 3543_OF1B_2-4-J11-K7


title: SM-J3A1T_S663_E1-50

description: SmartSeq


title: SM-J3A1T_S672_E1-50

description: SmartSeq


title: SM-J3A1T_S662_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-K20


title: 3543_OF1B_2-4-J11-K19


title: 3543_OF1B_2-4-J11-J8


title: SM-J3A1T_S664_E1-50

description: SmartSeq


title: SM-J3A1T_S660_E1-50

description: SmartSeq


title: SM-J3A1T_S658_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-J7


title: 3543_OF1B_2-4-J11-J20


title: 3543_OF1B_2-4-J11-J19


title: SM-J3A1T_S657_E1-50

description: SmartSeq


title: SM-J3A1T_S656_E1-50

description: SmartSeq


title: SM-J3A1T_S659_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-I8


title: 3543_OF1B_2-4-J11-I7


title: SM-J3A1T_S652_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-I20


title: SM-J3A1T_S654_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-I19


title: 3543_OF1B_2-4-J11-H8


title: SM-J3A1T_S653_E1-50

description: SmartSeq


title: SM-J3A1T_S651_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-H7


title: 3543_OF1B_2-4-J11-H20


title: SM-J3A1T_S650_E1-50

description: SmartSeq


title: SM-J3A1T_S661_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-G8


title: 3543_OF1B_2-4-J11-H19


title: SM-J3A1T_S649_E1-50

description: SmartSeq


title: SM-J3A1T_S648_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-G7


title: SM-J3A1T_S646_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-G20


title: 3543_OF1B_2-4-J11-G19


title: SM-J3A1T_S655_E1-50

description: SmartSeq


title: SM-J3A1T_S645_E1-50

description: SmartSeq


title: SM-J3A1T_S643_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-F7


title: 3543_OF1B_2-4-J11-F8


title: 3543_OF1B_2-4-J11-F19


title: 3543_OF1B_2-4-J11-F20


title: SM-J3A1T_S642_E1-50

description: SmartSeq


title: SM-J3A1T_S641_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-E8


title: 3543_OF1B_2-4-J11-E20


title: SM-J3A1T_S637_E1-50

description: SmartSeq


title: SM-J3A1T_S638_E1-50

description: SmartSeq


title: SM-J3A1T_S640_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-E19


title: 3543_OF1B_2-4-J11-D8


title: SM-J3A1T_S647_E1-50

description: SmartSeq


title: SM-J3A1T_S636_E1-50

description: SmartSeq


title: SM-J3A1T_S635_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-D20


title: SM-J3A1T_S634_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-D7


title: 3543_OF1B_2-4-J11-D19


title: SM-J3A1T_S633_E1-50

description: SmartSeq


title: SM-J3A1T_S632_E1-50

description: SmartSeq


title: SM-J3A1T_S644_E1-50

description: SmartSeq


title: SM-J3A1T_S630_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-C8


title: 3543_OF1B_2-4-J11-C19


title: 3543_OF1B_2-4-J11-C7


title: SM-J3A1T_S631_E1-50

description: SmartSeq


title: SM-J3A1T_S628_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-B8


title: SM-J3A1T_S639_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-C20


title: 3543_OF1B_2-4-J11-E7


title: 3543_OF1B_2-4-J11-B7


title: 3543_OF1B_2-4-J11-B20


title: SM-J3A1T_S629_E1-50

description: SmartSeq


title: SM-J3A1T_S626_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-A8


title: SM-J3A1T_S624_E1-50

description: SmartSeq


title: SM-J3A1T_S623_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-B19


title: 3543_OF1B_2-4-J11-A7


title: SM-J3A1T_S622_E1-50

description: SmartSeq


title: 3543_OF1B_2-4-J11-A20


title: 3543_OF1B_2-4-J11-A19


title: SM-J3A1T_S621_E1-50

description: SmartSeq


title: SM-J3A1T_S620_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-P5


title: 3543_OF1B_2-3-J11-P18


title: SM-J3A1T_S618_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-O6


title: SM-J3A1T_S616_E1-50

description: SmartSeq


title: SM-J3A1T_S627_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-O5


title: SM-J3A1T_S617_E1-50

description: SmartSeq


title: SM-J3A1T_S615_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-P17


title: 3543_OF1B_2-3-J11-O17


title: SM-J3A1T_S614_E1-50

description: SmartSeq


title: SM-J3A1T_S625_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-N6


title: SM-J3A1T_S613_E1-50

description: SmartSeq


title: SM-J3A1T_S612_E1-50

description: SmartSeq


title: SM-J3A1T_S611_E1-50

description: SmartSeq


title: SM-J3A1T_S610_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-N5


title: 3543_OF1B_2-3-J11-N18


title: SM-J3A1T_S600_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-M5


title: 3543_OF1B_2-3-J11-N17


title: SM-J3A1T_S619_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-M6


title: SM-J3A1T_S599_E1-50

description: SmartSeq


title: SM-J3A1T_S609_E1-50

description: SmartSeq


title: SM-J3A1T_S597_E1-50

description: SmartSeq


title: SM-J3A1T_S596_E1-50

description: SmartSeq


title: SM-J3A1T_S598_E1-50

description: SmartSeq


title: SM-J3A1T_S595_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-L5


title: 3543_OF1B_2-3-J11-M17


title: 3543_OF1B_2-3-J11-P6


title: 3543_OF1B_2-3-J11-L17


title: 3543_OF1B_2-3-J11-K6


title: SM-J3A1T_S592_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-L6


title: 3543_OF1B_2-3-J11-O18


title: SM-J3A1T_S593_E1-50

description: SmartSeq


title: SM-J3A1T_S589_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-J5


title: 3543_OF1B_2-3-J11-K18


title: SM-J3A1T_S590_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-K17


title: SM-J3A1T_S586_E1-50

description: SmartSeq


title: SM-J3A1T_S585_E1-50

description: SmartSeq


title: SM-J3A1T_S588_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-I6


title: 3543_OF1B_2-3-J11-L18


title: SM-J3A1T_S583_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-I18


title: 3543_OF1B_2-3-J11-J18


title: 3543_OF1B_2-3-J11-H6


title: 3543_OF1B_2-3-J11-J17


title: SM-J3A1T_S584_E1-50

description: SmartSeq


title: SM-J3A1T_S582_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-I5


title: SM-J3A1T_S581_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-K5


title: 3543_OF1B_2-3-J11-I17


title: SM-J3A1T_S580_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-H18


title: SM-J3A1T_S579_E1-50

description: SmartSeq


title: SM-J3A1T_S578_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-H5


title: SM-J3A1T_S591_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-G6


title: 3543_OF1B_2-3-J11-H17


title: SM-J3A1T_S587_E1-50

description: SmartSeq


title: SM-J3A1T_S577_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-M18


title: SM-J3A1T_S576_E1-50

description: SmartSeq


title: SM-J3A1T_S594_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-F6


title: SM-J3A1T_S569_E1-50

description: SmartSeq


title: SM-J3A1T_S572_E1-50

description: SmartSeq


title: SM-J3A1T_S575_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-G17


title: SM-J3A1T_S573_E1-50

description: SmartSeq


title: SM-J3A1T_S574_E1-50

description: SmartSeq


title: SM-J3A1T_S568_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-E18


title: 3543_OF1B_2-3-J11-E6


title: SM-J3A1T_S565_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-F18


title: 3543_OF1B_2-3-J11-G5


title: SM-J3A1T_S563_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-D18


title: SM-J3A1T_S570_E1-50

description: SmartSeq


title: SM-J3A1T_S562_E1-50

description: SmartSeq


title: SM-J3A1T_S571_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-F5


title: 3543_OF1B_2-3-J11-E5


title: SM-J3A1T_S567_E1-50

description: SmartSeq


title: SM-J3A1T_S566_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-G18


title: 3543_OF1B_2-3-J11-D6


title: 3543_OF1B_2-3-J11-D5


title: 3543_OF1B_2-3-J11-C5


title: SM-J3A1T_S559_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-D17


title: SM-J3A1T_S561_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-F17


title: 3543_OF1B_2-3-J11-C6


title: SM-J3A1T_S557_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-B5


title: SM-J3A1T_S560_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-J6


title: 3543_OF1B_2-3-J11-C18


title: 3543_OF1B_2-3-J11-A6


title: SM-J3A1T_S553_E1-50

description: SmartSeq


title: SM-J3A1T_S558_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-A5


title: 3543_OF1B_2-3-J11-A18


title: 3543_OF1B_2-3-J11-E17


title: SM-J3A1T_S550_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-C17


title: SM-J3A1T_S556_E1-50

description: SmartSeq


title: SM-J3A1T_S549_E1-50

description: SmartSeq


title: SM-J3A1T_S555_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-B6


title: 3543_OF1B_2-2-J11-P4


title: SM-J3A1T_S548_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-B18


title: 3543_OF1B_2-3-J11-B17


title: SM-J3A1T_S554_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-P16


title: 3543_OF1B_2-2-J11-O4


title: SM-J3A1T_S545_E1-50

description: SmartSeq


title: SM-J3A1T_S552_E1-50

description: SmartSeq


title: SM-J3A1T_S551_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-O15


title: SM-J3A1T_S543_E1-50

description: SmartSeq


title: 3543_OF1B_2-3-J11-A17


title: 3543_OF1B_2-2-J11-P3


title: 3543_OF1B_2-2-J11-N4


title: SM-J3A1T_S547_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-O16


title: 3543_OF1B_2-2-J11-N3


title: 3543_OF1B_2-2-J11-P15


title: 3543_OF1B_2-2-J11-N15


title: 3543_OF1B_2-2-J11-N16


title: SM-J3A1T_S537_E1-50

description: SmartSeq


title: SM-J3A1T_S538_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-O3


title: SM-J3A1T_S542_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-M4


title: 3543_OF1B_2-2-J11-M3


title: SM-J3A1T_S539_E1-50

description: SmartSeq


title: SM-J3A1T_S540_E1-50

description: SmartSeq


title: SM-J3A1T_S532_E1-50

description: SmartSeq


title: SM-J3A1T_S536_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-L15


title: SM-J3A1T_S546_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-K4


title: SM-J3A1T_S535_E1-50

description: SmartSeq


title: SM-J3A1T_S527_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-M16


title: 3543_OF1B_2-2-J11-M15


title: SM-J3A1T_S534_E1-50

description: SmartSeq


title: SM-J3A1T_S544_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-J4


title: 3543_OF1B_2-2-J11-K15


title: SM-J3A1T_S533_E1-50

description: SmartSeq


title: SM-J3A1T_S541_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-L4


title: 3543_OF1B_2-2-J11-L16


title: 3543_OF1B_2-2-J11-J16


title: SM-J3A1T_S531_E1-50

description: SmartSeq


title: SM-J3A1T_S530_E1-50

description: SmartSeq


title: SM-J3A1T_S529_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-L3


title: 3543_OF1B_2-2-J11-I4


title: SM-J3A1T_S520_E1-50

description: SmartSeq


title: SM-J3A1T_S528_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-K3


title: SM-J3A1T_S518_E1-50

description: SmartSeq


title: SM-J3A1T_S526_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-I15


title: SM-J3A1T_S525_E1-50

description: SmartSeq


title: SM-J3A1T_S524_E1-50

description: SmartSeq


title: SM-J3A1T_S523_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-J3


title: SM-J3A1T_S516_E1-50

description: SmartSeq


title: SM-J3A1T_S521_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-I3


title: 3543_OF1B_2-2-J11-J15


title: 3543_OF1B_2-2-J11-K16


title: 3543_OF1B_2-2-J11-I16


title: SM-J3A1T_S519_E1-50

description: SmartSeq


title: SM-J3A1T_S517_E1-50

description: SmartSeq


title: SM-J3A1T_S522_E1-50

description: SmartSeq


title: SM-J3A1T_S515_E1-50

description: SmartSeq


title: SM-J3A1T_S513_E1-50

description: SmartSeq


title: SM-J3A1T_S512_E1-50

description: SmartSeq


title: SM-J3A1T_S511_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-H3


title: SM-J3A1T_S514_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-G4


title: 3543_OF1B_2-2-J11-G16


title: SM-J3A1T_S510_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-H16


title: 3543_OF1B_2-2-J11-G15


title: SM-J3A1T_S509_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-F4


title: 3543_OF1B_2-2-J11-G3


title: 3543_OF1B_2-2-J11-H4


title: 3543_OF1B_2-2-J11-F3


title: 3543_OF1B_2-2-J11-F16


title: SM-J3A1T_S505_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-F15


title: 3543_OF1B_2-2-J11-E4


title: SM-J3A1T_S507_E1-50

description: SmartSeq


title: SM-J3A1T_S506_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-E3


title: SM-J3A1T_S496_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-E16


title: SM-J3A1T_S494_E1-50

description: SmartSeq


title: SM-J3A1T_S495_E1-50

description: SmartSeq


title: SM-J3A1T_S493_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-E15


title: 3543_OF1B_2-2-J11-H15


title: 3543_OF1B_2-2-J11-D4


title: SM-J3A1T_S491_E1-50

description: SmartSeq


title: SM-J3A1T_S492_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-D3


title: 3543_OF1B_2-2-J11-D16


title: SM-J3A1T_S508_E1-50

description: SmartSeq


title: SM-J3A1T_S489_E1-50

description: SmartSeq


title: SM-J3A1T_S490_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-C4


title: 3543_OF1B_2-2-J11-D15


title: SM-J3A1T_S487_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-C3


title: SM-J3A1T_S486_E1-50

description: SmartSeq


title: SM-J3A1T_S484_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-C15


title: 3543_OF1B_2-2-J11-B4


title: 3543_OF1B_2-2-J11-B3


title: SM-J3A1T_S485_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-C16


title: SM-J3A1T_S483_E1-50

description: SmartSeq


title: SM-J3A1T_S481_E1-50

description: SmartSeq


title: SM-J3A1T_S482_E1-50

description: SmartSeq


title: SM-J3A1T_S480_E1-50

description: SmartSeq


title: SM-J3A1T_S479_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-A4


title: 3543_OF1B_2-2-J11-B15


title: 3543_OF1B_2-2-J11-A3


title: 3543_OF1B_2-2-J11-A16


title: SM-J3A1T_S488_E1-50

description: SmartSeq


title: SM-J3A1T_S478_E1-50

description: SmartSeq


title: 3543_OF1B_2-2-J11-A15


title: SM-J3A1T_S476_E1-50

description: SmartSeq


title: SM-J3A1T_S477_E1-50

description: SmartSeq


title: SM-J3A1T_S474_E1-50

description: SmartSeq


title: SM-J3A1T_S475_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-P14


title: 3543_OF1B_2-1-J11-P13


title: SM-J3A1T_S473_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-O1


title: 3543_OF1B_2-2-J11-B16


title: SM-J3A1T_S472_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-O14


title: SM-J3A1T_S471_E1-50

description: SmartSeq


title: SM-J3A1T_S470_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-O13


title: SM-J3A1T_S469_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-N2


title: SM-J3A1T_S468_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-N1


title: SM-J3A1T_S467_E1-50

description: SmartSeq


title: SM-J3A1T_S466_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-P1


title: SM-J3A1T_S465_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-N13


title: SM-J3A1T_S463_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-M14


title: 3543_OF1B_2-1-J11-M13


title: 3543_OF1B_2-1-J11-M2


title: 3543_OF1B_2-1-J11-N14


title: SM-J3A1T_S461_E1-50

description: SmartSeq


title: SM-J3A1T_S462_E1-50

description: SmartSeq


title: SM-J3A1T_S459_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-M1


title: SM-J3A1T_S458_E1-50

description: SmartSeq


title: SM-J3A1T_S460_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-L1


title: 3543_OF1B_2-1-J11-K2


title: 3543_OF1B_2-1-J11-K1


title: SM-J3A1T_S457_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-L2


title: 3543_OF1B_2-1-J11-O2


title: SM-J3A1T_S456_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-K14


title: SM-J3A1T_S455_E1-50

description: SmartSeq


title: SM-J3A1T_S464_E1-50

description: SmartSeq


title: SM-J3A1T_S453_E1-50

description: SmartSeq


title: SM-J3A1T_S452_E1-50

description: SmartSeq


title: SM-J3A1T_S454_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-K13


title: SM-J3A1T_S451_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-J13


title: 3543_OF1B_2-1-J11-J2


title: 3543_OF1B_2-1-J11-I2


title: 3543_OF1B_2-1-J11-J1


title: 3543_OF1B_2-1-J11-L14


title: 3543_OF1B_2-1-J11-J14


title: SM-J3A1T_S449_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-L13


title: 3543_OF1B_2-1-J11-I1


title: SM-J3A1T_S448_E1-50

description: SmartSeq


title: SM-J3A1T_S447_E1-50

description: SmartSeq


title: SM-J3A1T_S445_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-I13


title: 3543_OF1B_2-1-J11-I14


title: 3543_OF1B_2-1-J11-H1


title: 3543_OF1B_2-1-J11-H14


title: 3543_OF1B_2-1-J11-H13


title: 3543_OF1B_2-1-J11-H2


title: SM-J3A1T_S564_E1-50

description: SmartSeq


title: SM-J3A1T_S443_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-G2


title: SM-J3A1T_S441_E1-50

description: SmartSeq


title: SM-J3A1T_S450_E1-50

description: SmartSeq


title: SM-J3A1T_S442_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-G14


title: 3543_OF1B_2-1-J11-G1


title: SM-J3A1T_S439_E1-50

description: SmartSeq


title: SM-J3A1T_S440_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-G13


title: 3543_OF1B_2-1-J11-F2


title: 3543_OF1B_2-1-J11-F1


title: 3543_OF1B_2-1-J11-F14


title: SM-J3A1T_S437_E1-50

description: SmartSeq


title: SM-J3A1T_S435_E1-50

description: SmartSeq


title: SM-J3A1T_S436_E1-50

description: SmartSeq


title: SM-J3A1T_S446_E1-50

description: SmartSeq


title: SM-J3A1T_S434_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-F13


title: SM-J3A1T_S433_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-E1


title: 3543_OF1B_2-1-J11-E2


title: SM-J3A1T_S432_E1-50

description: SmartSeq


title: SM-J3A1T_S444_E1-50

description: SmartSeq


title: SM-J3A1T_S431_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-E13


title: 3543_OF1B_2-1-J11-D2


title: SM-J3A1T_S430_E1-50

description: SmartSeq


title: SM-J3A1T_S429_E1-50

description: SmartSeq


title: SM-J3A1T_S428_E1-50

description: SmartSeq


title: SM-J3A1T_S427_E1-50

description: SmartSeq


title: SM-J3A1T_S425_E1-50

description: SmartSeq


title: SM-J3A1T_S426_E1-50

description: SmartSeq


title: SM-J3A1T_S424_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-D1


title: 3543_OF1B_2-1-J11-C1


title: 3543_OF1B_2-1-J11-D14


title: SM-J3A1T_S438_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-D13


title: SM-J3A1T_S423_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-C2


title: 3543_OF1B_2-1-J11-C14


title: 3543_OF1B_2-1-J11-C13


title: SM-J3A1T_S422_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-B2


title: SM-J3A1T_S421_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-E14


title: 3543_OF1B_2-1-J11-B1


title: SM-J3A1T_S418_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-B13


title: 3543_OF1B_2-1-J11-A2


title: SM-J3A1T_S419_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-B14


title: SM-J3A1T_S416_E1-50

description: SmartSeq


title: SM-J3A1T_S415_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-A1


title: SM-J3A1T_S417_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-A14


title: SM-J3A1T_S414_E1-50

description: SmartSeq


title: 3543_OF1B_2-1-J11-A13


title: SM-J3A1T_S412_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-P24


title: SM-J3A1T_S413_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-O23


title: 3543_OF1B_1-6-B11-P23


title: 3543_OF1B_1-6-B11-O12


title: SM-J3A1T_S407_E1-50

description: SmartSeq


title: SM-J3A1T_S406_E1-50

description: SmartSeq


title: SM-J3A1T_S410_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-O24


title: SM-J3A1T_S411_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-P11


title: 3543_OF1B_1-6-B11-N23


title: SM-J3A1T_S420_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-N12


title: 3543_OF1B_1-6-B11-N24


title: SM-J3A1T_S409_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-N11


title: 3543_OF1B_1-6-B11-O11


title: SM-J3A1T_S404_E1-50

description: SmartSeq


title: SM-J3A1T_S405_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-M23


title: SM-J3A1T_S391_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-M24


title: SM-J3A1T_S401_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-M12


title: 3543_OF1B_1-6-B11-M11


title: SM-J3A1T_S392_E1-50

description: SmartSeq


title: SM-J3A1T_S408_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-L23


title: SM-J3A1T_S403_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-L24


title: SM-J3A1T_S402_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-L12


title: 3543_OF1B_1-6-B11-K24


title: SM-J3A1T_S388_E1-50

description: SmartSeq


title: SM-J3A1T_S387_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-J24


title: 3543_OF1B_1-6-B11-K12


title: 3543_OF1B_1-6-B11-K11


title: SM-J3A1T_S318_E1-50

description: SmartSeq


title: SM-J3A1T_S385_E1-50

description: SmartSeq


title: SM-J3A1T_S386_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-L11


title: SM-J3A1T_S315_E1-50

description: SmartSeq


title: SM-J3A1T_S389_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-K23


title: SM-J3A1T_S320_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-I23


title: SM-J3A1T_S317_E1-50

description: SmartSeq


title: SM-J3A1T_S314_E1-50

description: SmartSeq


title: SM-J3A1T_S390_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-I12


title: 3543_OF1B_1-6-B11-J12


title: 3543_OF1B_1-6-B11-J11


title: SM-J3A1T_S313_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-I11


title: 3543_OF1B_1-6-B11-I24


title: SM-J3A1T_S316_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-J23


title: SM-J3A1T_S311_E1-50

description: SmartSeq

value: 55 days


title: SM-J3A1T_S312_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-H24


title: SM-J3A1T_S310_E1-50

description: SmartSeq


title: SM-J3A1T_S308_E1-50

description: SmartSeq


title: SM-J3A1T_S309_E1-50

description: SmartSeq


title: SM-J3A1T_S319_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-H12


title: 3543_OF1B_1-6-B11-H11


title: 3543_OF1B_1-6-B11-H23


title: SM-J3A1T_S304_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-P12


title: SM-J3A1T_S305_E1-50

description: SmartSeq


title: SM-J3A1T_S307_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-G24


title: 3543_OF1B_1-6-B11-G23


title: 3543_OF1B_1-6-B11-G11


title: SM-J3A1T_S303_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-F24


title: SM-J3A1T_S302_E1-50

description: SmartSeq


title: SM-J3A1T_S301_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-F12


title: SM-J3A1T_S298_E1-50

description: SmartSeq


title: SM-J3A1T_S299_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-F11


title: SM-J3A1T_S300_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-F23


title: SM-J3A1T_S297_E1-50

description: SmartSeq


title: SM-J39S6_S063_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-E23


title: 3543_OF1B_1-6-B11-D24


title: 3543_OF1B_1-6-B11-E12


title: SM-J39S6_S062_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-E11


title: 3543_OF1B_1-6-B11-D23


title: SM-J39S6_S064_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-G12


title: SM-J39S6_S059_E1-50

description: SmartSeq


title: SM-J39S6_S060_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-C24


title: SM-J39S6_S057_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-D12


title: 3543_OF1B_1-6-B11-D11


title: 3543_OF1B_1-6-B11-C12


title: SM-J39S6_S056_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-E24


title: 3543_OF1B_1-6-B11-C23


title: SM-J3A1T_S306_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-B24


title: 3543_OF1B_1-6-B11-C11


title: 3543_OF1B_1-6-B11-B23


title: SM-J39S6_S054_E1-50

description: SmartSeq


title: SM-J39S6_S052_E1-50

description: SmartSeq


title: SM-J39S6_S055_E1-50

description: SmartSeq


title: SM-J39S6_S061_E1-50

description: SmartSeq


title: SM-J39S6_S049_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-A24


title: 3543_OF1B_1-6-B11-B11


title: 3543_OF1B_1-6-B11-B12


title: SM-J39S6_S050_E1-50

description: SmartSeq


title: SM-J39S6_S051_E1-50

description: SmartSeq


title: SM-J39S6_S047_E1-50

description: SmartSeq


title: 3543_OF1B_1-6-B11-A12


title: SM-J39S6_S048_E1-50

description: SmartSeq


title: SM-J39S6_S058_E1-50

description: SmartSeq


title: SM-J39S6_S046_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-P9


title: SM-J39S6_S045_E1-50

description: SmartSeq


title: SM-J39S6_S044_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-P22


title: SM-J39S6_S043_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-P10


title: 3543_OF1B_1-6-B11-A11


title: SM-J39S6_S041_E1-50

description: SmartSeq


title: SM-J39S6_S042_E1-50

description: SmartSeq


title: SM-J39S6_S040_E1-50

description: SmartSeq


title: SM-J39S6_S053_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-O22


title: SM-J39S6_S038_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-O9


title: 3543_OF1B_1-5-B11-O21


title: 3543_OF1B_1-6-B11-A23


title: 3543_OF1B_1-5-B11-O10


title: SM-J39S6_S036_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-N9


title: 3543_OF1B_1-5-B11-N22


title: 3543_OF1B_1-5-B11-N10


title: SM-J39S6_S037_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-N21


title: SM-J39S6_S035_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-M22


title: SM-J39S6_S033_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-P21


title: 3543_OF1B_1-5-B11-M9


title: SM-J39S5_S768_E1-50

description: SmartSeq

value: 56 days


title: SM-J39S5_S767_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-M21


title: SM-J39S5_S766_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-L22


title: SM-J39S5_S765_E1-50

description: SmartSeq


title: SM-J39S5_S764_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-L9


title: SM-J39S5_S763_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-L10


title: 3543_OF1B_1-5-B11-K22


title: 3543_OF1B_1-5-B11-K9


title: SM-J39S6_S034_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-K21


title: SM-J39S6_S039_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-M10


title: 3543_OF1B_1-5-B11-L21


title: SM-J39SU_S051_E1-50

description: SmartSeq


title: SM-J39S5_S762_E1-50

description: SmartSeq


title: SM-J39S5_S761_E1-50

description: SmartSeq


title: SM-J39SU_S056_E1-50

description: SmartSeq


title: SM-J39SU_S055_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-I9


title: 3543_OF1B_1-5-B11-J10


title: SM-J39SU_S054_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-K10


title: 3543_OF1B_1-5-B11-J9


title: SM-J39SU_S053_E1-50

description: SmartSeq


title: SM-J39SU_S052_E1-50

description: SmartSeq


title: SM-J39SU_S050_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-J21


title: 3543_OF1B_1-5-B11-H9


title: 3543_OF1B_1-5-B11-J22


title: SM-J39SU_S045_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-H21


title: SM-J39SU_S041_E1-50

description: SmartSeq


title: SM-J39SU_S046_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-I22


title: 3543_OF1B_1-5-B11-I21


title: 3543_OF1B_1-5-B11-I10


title: SM-J39SU_S048_E1-50

description: SmartSeq


title: SM-J39SU_S047_E1-50

description: SmartSeq


title: SM-J39SU_S044_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-H22


title: 3543_OF1B_1-5-B11-F22


title: SM-J39SU_S036_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-G21


title: 3543_OF1B_1-5-B11-F10


title: SM-J39SU_S042_E1-50

description: SmartSeq


title: SM-J39SU_S034_E1-50

description: SmartSeq


title: SM-J39SU_S043_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-H10


title: SM-J39SU_S033_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-G9


title: SM-J39SU_S049_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-G22


title: SM-J39SU_S040_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-E22


title: SM-J39SU_S039_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-E10


title: 3543_OF1B_1-5-B11-G10


title: SM-J39SU_S038_E1-50

description: SmartSeq


title: SM-J39SU_S028_E1-50

description: SmartSeq


title: SM-J39SU_S037_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-F21


title: SM-J39SU_S035_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-F9


title: SM-J39SU_S026_E1-50

description: SmartSeq


title: SM-J39SU_S025_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-E9


title: SM-J39SU_S024_E1-50

description: SmartSeq


title: SM-J39SU_S032_E1-50

description: SmartSeq


title: SM-J39SU_S022_E1-50

description: SmartSeq


title: SM-J39SU_S029_E1-50

description: SmartSeq


title: SM-J39SU_S023_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-E21


title: 3543_OF1B_1-5-B11-D22


title: 3543_OF1B_1-5-B11-B9


title: SM-J39SU_S027_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-D21


title: 3543_OF1B_1-5-B11-D10


title: 3543_OF1B_1-5-B11-B22


title: 3543_OF1B_1-5-B11-C9


title: 3543_OF1B_1-5-B11-C22


title: SM-J39SU_S018_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-C21


title: SM-J39SU_S030_E1-50

description: SmartSeq


title: SM-J39SU_S017_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-B10


title: 3543_OF1B_1-5-B11-A22


title: 3543_OF1B_1-5-B11-D9


title: SM-J39SU_S019_E1-50

description: SmartSeq


title: SM-J39SU_S020_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-B21


title: 3543_OF1B_1-5-B11-A9


title: SM-J39SU_S008_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-P8


title: SM-J39SU_S021_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-P7


title: 3543_OF1B_1-5-B11-C10


title: 3543_OF1B_1-4-B11-P20


title: 3543_OF1B_1-4-B11-P19


title: SM-J39SU_S001_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-O8


title: SM-J39SU_S006_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-A21


title: SM-J39SU_S007_E1-50

description: SmartSeq


title: SM-J39T3_S455_E1-50

description: SmartSeq


title: SM-J39SU_S005_E1-50

description: SmartSeq


title: 3543_OF1B_1-5-B11-A10


title: SM-J39T3_S454_E1-50

description: SmartSeq


title: SM-J39SU_S002_E1-50

description: SmartSeq


title: SM-J39T3_S456_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-O7


title: SM-J39SU_S003_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-O20


title: SM-J39T3_S452_E1-50

description: SmartSeq


title: SM-J39SU_S004_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-O19


title: 3543_OF1B_1-4-B11-N8


title: SM-J39T3_S453_E1-50

description: SmartSeq


title: SM-J39T3_S450_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-N20


title: SM-J39TB_S672_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-M8


title: 3543_OF1B_1-4-B11-M7


title: 3543_OF1B_1-4-B11-M20


title: SM-J39TB_S670_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-N19


title: SM-J39TB_S671_E1-50

description: SmartSeq


title: SM-J39TB_S668_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-L8


title: 3543_OF1B_1-4-B11-M19


title: SM-J39TB_S667_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-L7


title: 3543_OF1B_1-4-B11-L20


title: SM-J39TB_S666_E1-50

description: SmartSeq


title: SM-J39TB_S665_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-N7


title: SM-J39TI_S527_E1-50

description: SmartSeq

value: 74 days


title: SM-J39T3_S451_E1-50

description: SmartSeq


title: SM-J39TI_S528_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-L19


title: 3543_OF1B_1-4-B11-K19


title: 3543_OF1B_1-4-B11-K8


title: SM-J39TI_S526_E1-50

description: SmartSeq


title: SM-J39T3_S449_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-K20


title: 3543_OF1B_1-4-B11-K7


title: 3543_OF1B_1-4-B11-J8


title: 3543_OF1B_1-4-B11-J7


title: SM-J39TI_S523_E1-50

description: SmartSeq


title: SM-J39TI_S524_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-J20


title: SM-J39TI_S521_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-I8


title: 3543_OF1B_1-4-B11-I7


title: SM-J39TR_S528_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-I20


title: 3543_OF1B_1-4-B11-I19


title: 3543_OF1B_1-4-B11-H8


title: SM-J39TR_S527_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-H7


title: SM-J39TR_S526_E1-50

description: SmartSeq


title: SM-J39TI_S525_E1-50

description: SmartSeq


title: SM-J39TR_S525_E1-50

description: SmartSeq


title: SM-J39TB_S669_E1-50

description: SmartSeq


title: SM-J39TR_S523_E1-50

description: SmartSeq


title: SM-J39TR_S524_E1-50

description: SmartSeq


title: SM-J39TR_S522_E1-50

description: SmartSeq


title: SM-J39TR_S521_E1-50

description: SmartSeq


title: 3543_OF1B_1-4-B11-H19


title: 3543_OF1B_1-4-B11-G8


title: MED GFP, rep3

description: 10x Genomics

data_processing:
For 10x samples, sequencing reads were aligned to the mouse reference transcriptome (mm10, version 2020-A) using CellRanger (version 6.1.2). For SSv4, samples were aligned to Mouse reference, mm10/genecode.vM23, using STAR (version 2.7.1a).
Assembly: mouse reference transcriptome (mm10)
Supplementary files format and content: matrix.tar.gz files. Count matrix files from cellranger output
Supplementary files format and content: h5 files. Count matrix files filtered with cellBender package

source_name: Medulla (MED)

value: Medulla (MED)

value: 8 weeks


title: MED RFP, rep3

description: 10x Genomics


title: 3543_OF1B_1-4-B11-G20


title: 3543_OF1B_1-4-B11-J19


title: SM-J39TI_S522_E1-50

description: SmartSeq


title: PONS RFP, rep3

description: 10x Genomics

source_name: Pons (PONS)

value: Pons (PONS)


title: 3543_OF1B_1-4-B11-G19


title: PONS GFP, rep3

description: 10x Genomics


title: 3543_OF1B_1-4-B11-F8


title: 3543_OF1B_1-4-B11-F7


title: MED RFP, rep2

description: 10x Genomics


title: PONS RFP, rep2

description: 10x Genomics


title: MED GFP, rep2

description: 10x Genomics


title: 3543_OF1B_1-4-B11-H20


title: 3543_OF1B_1-4-B11-F19


title: 3543_OF1B_1-4-B11-F20


title: CB RFP, rep2

description: 10x Genomics

source_name: Cerebellum (CB)

value: Cerebellum (CB)


title: 3543_OF1B_1-4-B11-E7

value: Dorsolateral Prefrontal cortex (Brodmann area 46)


title: 3543_OF1B_1-4-B11-G7

value: Female


title: 3543_OF1B_1-4-B11-E20

value: nuclear RNA + genomic DNA


title: HY GFP, rep2

description: 10x Genomics

source_name: Hypothalamus (HY)

value: Hypothalamus (HY)

value: Spinal Projecting Neuron (SPN)


title: PONS GFP, rep2

description: 10x Genomics


title: CB GFP, rep2

description: 10x Genomics


title: 3543_OF1B_1-4-B11-E8


title: 3543_OF1B_1-4-B11-D8


title: MB RFP, rep2

description: 10x Genomics

source_name: Midbrain (MB)

value: Midbrain (MB)


title: 3543_OF1B_1-4-B11-E19


title: HY RFP, rep2

description: 10x Genomics


title: M1M2S1 RFP, rep3

description: 10x Genomics

source_name: Primary and secondary motor cortex, primary somatosensory cortex (M1M2S1)


title: M1M2S1 GFP, rep3

description: 10x Genomics

value: Primary and secondary motor cortex, primary somatosensory cortex (M1M2S1)


title: 3543_OF1B_1-4-B11-D20


title: 3543_OF1B_1-4-B11-C8


title: 3543_OF1B_1-4-B11-C7


title: 3543_OF1B_1-4-B11-C20


title: RFA, rep2

description: 10x Genomics

source_name: Rostral forelimb area (RFA)

value: Rostral forelimb area (RFA)


title: 3543_OF1B_1-4-B11-D19


title: PONS RFP, rep1

description: 10x Genomics


title: 3543_OF1B_1-4-B11-B8


title: MED RFP, rep1

description: 10x Genomics


title: PONS GFP, rep1

description: 10x Genomics


title: MED GFP, rep1

description: 10x Genomics


title: 3543_OF1B_1-4-B11-B7


title: CB GFP, rep1

description: 10x Genomics


title: 3543_OF1B_1-4-B11-A8


title: 3543_OF1B_1-4-B11-B20


title: HY GFP, rep1

description: 10x Genomics


title: 3543_OF1B_1-4-B11-B19


title: 3543_OF1B_1-4-B11-D7


title: HY RFP, rep1

description: 10x Genomics


title: CB RFP, rep1

description: 10x Genomics


title: MB GFP, rep2

description: 10x Genomics


title: 3543_OF1B_1-4-B11-A7


title: M1M2S1 RFP, rep2

description: 10x Genomics


title: MB GFP, rep1

description: 10x Genomics


title: 3543_OF1B_1-4-B11-A19


title: 3543_OF1B_1-4-B11-A20


title: 3543_OF1B_1-3-B11-P6


title: MB RFP, rep1

description: 10x Genomics


title: S2, rep2

description: 10x Genomics

source_name: Secondary somatosensory cortex (S2)

value: Secondary somatosensory cortex (S2)


title: 3543_OF1B_1-3-B11-P5


title: 3543_OF1B_1-3-B11-P18


title: 3543_OF1B_1-4-B11-C19


title: M1M2S1 GFP, rep2

description: 10x Genomics


title: 3543_OF1B_1-3-B11-P17


title: M1M2S1 RFP, rep1

description: 10x Genomics


title: M1M2S1 GFP, rep1

description: 10x Genomics


title: S2, rep1

description: 10x Genomics


title: 3543_OF1B_1-3-B11-O6


title: 3543_OF1B_1-3-B11-O18


title: RFA, rep1

description: 10x Genomics


title: 3543_OF1B_1-3-B11-O17


title: Pdgfra_Gli2FFGli3FF_Replicate3

city: New Haven

first: Vikas

last: Gupta

address: 1 Gilbert Street

institute: Yale School of Medicine

description: Sorted cells from a Pdgfra:CreERT2; Rosa26:lox-STOP-lox-tdTomato; Gli2FFGli3FF

library_source: transcriptomic

data_processing:
The alingment and gene counting were made using the Rsubread package (https://bioconductor.org/packages/release/bioc/html/Rsubread.html)
Assembly: mm10
Supplementary files format and content: Tab-separated values files and matrix files

molecule: total RNA

source_name: Common Bile Duct

extract_protocol:
Ducts were microdissected and placed in 1 ml of HBSS with 1.8 mM Ca, 0.8 mM Mg, 1 mg dispase (Roche, 04942078001), 1 mg pronase (Sigma, P5147), and 1mg Collagense IV (Gibco, 17104019) and cut into small pieces with microdissecting scissors. These were incubated for 20 minutes at 37oC on a rocker with continued mincing of the tissue every 5 minutes. 500 ul of ice cold 1x PBS, 5mM EDTA, and 0.5% BSA was added and tube was placed in a 4C rocker for 5 minutes with large bore pipet titration to break up any clumps. This was filtered through a 100 μm filter. This was was rinsed twice with 1x PBS, 5mM EDTA, and 0.5% BSA prior to flow cytometry.
~1000 mesenchymal cells per individual animal bile duct were sorted into lysis buffer where after the Smartseq3 protocol with the Smartseq2 TSO and ISPCR primers was used to generate full length cDNA libraries. Libraries for Illumina sequencing were generated by using New England Biolabs Next Ultra II FS DNA (E7805L).

value: Common Bile Duct

value: Peribiliary Mesenchymal Cell

tag: genotype


title: Pdgfra_Gli2FFGli3FF_Replicate4


title: 3543_OF1B_1-3-B11-N5


title: 3543_OF1B_1-3-B11-N6


title: Pdgfra_Gli3FF_Replicate2

description: Sorted cells from a Pdgfra:CreERT2; Rosa26:lox-STOP-lox-tdTomato; Gli3FF


title: Pdgfra_Gli2FFGli3FF_Replicate1


title: 3543_OF1B_1-3-B11-N18


title: 3543_OF1B_1-3-B11-N17


title: Pdgfra_Gli3FF_Replicate1


title: 3543_OF1B_1-3-B11-M17


title: 3543_OF1B_1-3-B11-M6


title: 3543_OF1B_1-3-B11-M5


title: Pdgfra_Ctnnb1FF_Replicate2

description: Sorted cells from a Pdgfra:CreERT2; Rosa26:lox-STOP-lox-tdTomato; Ctnnb1FF


title: Pdgfra_Gli2FF_Replicate1

description: Sorted cells from a Pdgfra:CreERT2; Rosa26:lox-STOP-lox-tdTomato; Gli2FF


title: Pdgfra_Gli2FF_Replicate2


title: 3543_OF1B_1-3-B11-M18


title: 3543_OF1B_1-3-B11-L5


title: 3543_OF1B_1-3-B11-L6


title: 3543_OF1B_1-3-B11-O5


title: Pdgfra_Ctnnb1FF_Replicate3


title: 3543_OF1B_1-3-B11-L17


title: Pdgfra_Ctnnb1FF_Replicate1


title: 3543_OF1B_1-3-B11-L18


title: 3543_OF1B_1-3-B11-K5


title: Pdgfra_SmoFF_Replicate3

description: Sorted cells from a Pdgfra:CreERT2; Rosa26:lox-STOP-lox-tdTomato; SmoFF

value: SmoFF


title: Pdgfra_SmoFF_Replicate1


title: Pdgfra_Gli2FFGli3FF_Replicate2


title: Pdgfra_SmoFF_Replicate2


title: 3543_OF1B_1-3-B11-K18


title: 3543_OF1B_1-3-B11-K6


title: Pdgfra_Wild_Type_Replicate5

value: Wild Type


title: 3543_OF1B_1-3-B11-K17


title: MNase_EpiSC_OEC2_r1

city: New York

first: Jianlong

last: Wang

state: New York

department: Department of Medicine

institute: Columbia University Irving Medical Center

data_processing:
library strategy: MapR (CUT&Run)
FastQC (v0.10.1) was used to check the sequencing quality. Reads were pre-processed by Trim Galore (v.0.6.3) and Cutadapt programs.
Reads were aligned to the mouse genome mm9 using the bowtie2 (v2.3.5) program, with parameters -X 1000 --no-mixed --no-discordant.
The mapped reads were sorted and converted to a binary bam file using samtools (v1.10).
Reads with PCR duplicates were removed using PICARD.
bigWig files were generated using the bamCoverage program.
Assembly: mm9
Supplementary files format and content: bigWig

growth_protocol: Mouse ESCs were cultured on 0.1% gelatin-coated plates and in ES medium: DMEM medium supplemented with 15% fetal bovine serum (FBS), leukemia inhibitory factor (LIF, lab prepared), 0.1 mM 2-mercaptoethanol, 2 mM L-glutamine, 0.1 mM MEM non-essential amino acids (NEAA), 1% nucleoside mix (100X stock), and 50 U/mL Penicillin/Streptomycin (P/S). Mouse EpiSCs were cultured on fibronectin-coated (10 μg/mL/cm2) plates and in serum-free N2B27 medium supplemented with 0.1 mM 2-mercaptoethanol, 2 mM L-glutamine, 0.1 mM NEAA, 50 U/mL P/S, and supplemented with fresh Fgf2 (12 ng/mL) and Activin A (20 ng/mL) (FA medium). For ESC-EpiLC-EpiSC differentiation, ESCs were seeded on fibronectin-coated (10 μg/mL/cm2) plates, in ES medium overnight, and switched to FA medium next day. The adapted cells in FA medium for 2 days (FA-D2) and 4 days (FA-D4) were collected. After more than two weeks of FA culture, adapted cells were considered stable converted EpiSCs (cEpiSCs).

extract_protocol:
MapR was performed as previously described (Yan et al., Current Protocols in Molecular Biology, 2020).
Libraries were prepared using the NEBNext Ultra II DNA library prep kit and index primers sets (NEB, #7645S, #E7335S) followed the standard protocol.

tag: cell line

value: Epiblast stem cells (EpiSCs)

value: WT

tag: treatment


title: Colon crypts eKnockout, mouse 2

city: Anderlecht

first: Gilles

last: Dinsart

address: 808 route de lennik

country: Belgium

institute: Université Libre de Bruxelles

description:
Crypts eKO 2
RP20M eCtrl vs eKO .txt

data_processing:
The multiplexed libraries were loaded on a NovaSeq 6000 (Illumina) and sequences were produced using a 200 Cycles Kit. Paired-end reads were mapped against the mouse reference genome GRCm38 using STAR software to generate read alignments for each sample. Annotations Mus_musculus.GRCm38.90.gtf were obtained from ftp.Ensembl.org.
Assembly: mm10
Supplementary files format and content: Tab-delimited txt file includes RP20M values for each sample

source_name: Colon

extract_protocol:
RNA was extracted using Rneasy mini kit or miRNeasy microkit for crypts and sorted cells, respectively, following manufacturer's instructions.
Indexed cDNA libraries were obtained using the Ovation Solo RNAseq systems (Tecan) following manufacturer recommendations.

value: Colon

value: Crypts

tag: cell subtype

value: all epithelium

value: WT/HO


title: MNase_EpiSC_OEC2_r2


title: 3543_OF1B_1-3-B11-J6

value: Dorsolateral Prefrontal cortex (Brodmann area 46)

value: Female

value: nuclear RNA + genomic DNA


title: Pdgfra_SmoFF_Replicate4


title: MNase_cEpiSC_E14

value: ESCs adapted in FA culture


title: MNase_cEpiSC_3WT


title: Colon crypts eKnockout, mouse 1

description:
Crypts eKO 1
RP20M eCtrl vs eKO .txt

value: HE/HO


title: MNase_FAD4_E14


title: MNase_FAD2_3WT


title: Colon crypts eControl, mouse 2

description:
Crypts eCtrl 2
RP20M eCtrl vs eKO .txt


title: MNase_FAD4_3WT


title: 3543_OF1B_1-3-B11-J5


title: MNase_FAD2_E14


title: Colon crypts eControl, mouse 3

description:
Crypts eCtrl 3
RP20M eCtrl vs eKO .txt

value: HE/WT


title: MNase_ESC_3WT

value: Embryonic stem cells (ESCs)


title: MNase_ESC_E14


title: 3543_OF1B_1-3-B11-J18


title: Colon crypts eControl, mouse 1

description:
Crypts eCtrl 1
RP20M eCtrl vs eKO .txt


title: MapR_EpiSC_OEC2_r2


title: MapR_EpiSC_OEC2_r1


title: MapR_cEpiSC_3WT


title: Brain, DKO, rep5

city: Bethesda

first: Richard

middle: L

last: Proia

state: MD

address: 10 Center Drive Room 9D11

department: National Institute of Diabetes and Digestive and Kidney Diseases

institute: National Institutes of Health

data_processing:
Raw reads in FASTQ format were first processed to remove adapters, reads containing poly-N, and low-quality reads using fastp.
high-quality clean reads were mapped to reference genome mm10 (GRCm38) using hisat2 2.0.5.
Gene-expression quantification was performed using featureCounts 1.5.0-p3  and differential analysis performed using DESeq2 1.20.0
Pathway enrichment Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis were performed using clusterProfiler 3.8.1 with corrected p-value set to <0.05 for significant enrichment.
Gene Set Enrichment Analysis (GSEQ) was performed using the local version of the GSEA analysis tool http://www.broadinstitute.org/gsea/index.jsp
Assembly: mm10
Supplementary files format and content: tab-delimited text files include RPKM values for each Sample

source_name: Brain

growth_protocol: Healthy mice were obtained from The Jackson Laboratory

extract_protocol:
Total RNA from one brain hemisphere each was isolated using miRNeasy Mini Kit(Qiagen).
3 ug of total RNA was used for the construction of sequencing libraries using NEBNext Ultra II RNA with PolyA Selection Kit (New England Biolab).

value: Brain

value: Glb1 and Neu3 Knockout


title: Brain, DKO, rep4


title: MapR_cEpiSC_E14


title: MapR_FAD4_3WT


title: 3543_OF1B_1-3-B11-I18


title: Brain, DKO, rep3


title: MapR_FAD2_E14


title: Pdgfra_Wild_Type_Replicate4

description: Sorted cells from a Pdgfra:CreERT2; Rosa26:lox-STOP-lox-tdTomato animal

value: Common Bile Duct

value: Peribiliary Mesenchymal Cell


title: 3543_OF1B_1-3-B11-I17


title: MapR_FAD2_3WT


title: MapR_ESC_E14


title: Brain, DKO, rep2


title: 3543_OF1B_1-3-B11-H6


title: 3543_OF1B_1-3-B11-J17


title: MapR_ESC_3WT


title: Brain, DKO, rep1


title: ChIP_Zfp281degron_dTAG_Zfp281_ESC

data_processing:
FastQC (v0.10.1) was used to check the sequencing quality. Reads were pre-processed by Trim Galore (v.0.6.3) and Cutadapt programs.
Reads were aligned to the mouse genome mm9 using the bowtie2 (v2.3.5) program, with parameters -X 1000 --no-mixed --no-discordant.
The mapped reads were sorted and converted to a binary bam file using samtools (v1.10)
ChIP-seq peaks were determined by the MACS program (v.2.2.7)
bigWig files were generated using the bamCoverage program.
Assembly: mm9
Supplementary files format and content: bigWig, bed

source_name: Zfp281degron, clone#2

extract_protocol:
ChIP was performed as previously described (Lee et al., 2006).
ChIP libraries were prepared using the NEBNext Ultra II DNA library prep kit and index primers sets (NEB, #7645S, #E7335S) followed the standard protocol.

treatment_protocol: ESCs were treated with dTAG13 (500 nM) for 2 days in ESC culture, followed by ESC-to-EpiLC transition as described, for another 2 days.

value: Zfp281degron, clone#2

tag: antibody

value: Abcam, ab101318

value: dTAG


title: 3543_OF1B_1-3-B11-H18


title: ChIP_Zfp281degron_Zfp281_ESC


title: ChIP_Zfp281degron_dTAG_Tet1_FAD2_r2

description:
XH296
Tet1.concensus.9764.bed

source_name: Zfp281degron, clone#21

value: Zfp281degron, clone#21

value: GeneTex, GTX125888


title: Brain, Neu3KO, rep5

value: Neu3 Knockout


title: 3543_OF1B_1-3-B11-I6

value: Dorsolateral Prefrontal cortex (Brodmann area 46)


title: ChIP_Zfp281degron_Tet1_FAD2_r2

description:
XH295
Tet1.concensus.9764.bed


title: 3543_OF1B_1-3-B11-I5

value: Female


title: ChIP_Zfp281degron_dTAG_Tet1_FAD2_r1

description:
XH294
Tet1.concensus.9764.bed


title: 3543_OF1B_1-3-B11-H17

value: nuclear RNA + genomic DNA


title: MapR_FAD4_E14

value: ESCs adapted in FA culture

value: WT


title: Brain, Neu3KO, rep4


title: ChIP_Zfp281degron_Tet1_FAD2_r1

description:
XH293
Tet1.concensus.9764.bed


title: Brain, Neu3KO, rep2


title: 3543_OF1B_1-3-B11-G6


title: ChIP_Zfp281degron_dTAG_Tet1_ESC_r2

description:
XH292
Tet1.concensus.9764.bed


title: Brain, Neu3KO, rep3


title: ChIP_Zfp281degron_dTAG_Tet1_ESC_r1

description:
XH290
Tet1.concensus.9764.bed


title: 3543_OF1B_1-3-B11-G5


title: Brain, Neu3KO, rep1


title: ChIP_Zfp281degron_Tet1_ESC_r1

description:
XH289
Tet1.concensus.9764.bed


title: Pdgfra_SmoM2_Replicate3

description: Sorted cells from a Pdgfra:CreERT2; Rosa26:lox-STOP-lox-tdTomato; SmoM2


title: Pdgfra_SmoM2_Replicate2


title: Brain, Glb1KO, rep5

value: Glb1 Knockout


title: Pdgfra_SmoM2_Replicate1


title: 3543_OF1B_1-3-B11-G18


title: Brain, Glb1KO, rep4


title: Pdgfra_Wild_Type_Replicate3

value: Wild Type


title: Brain, Glb1KO, rep3

value: Brain


title: 3543_OF1B_1-3-B11-G17


title: Pdgfra_Wild_Type_Replicate1


title: Gli1_4d_BDL_Replicate3

description: Sorted cells from a Gli1:CreERT2; Rosa26:lox-STOP-lox-tdTomato animal

value: 4d BDL


title: 3543_OF1B_1-3-B11-H5


title: 3543_OF1B_1-3-B11-F5


title: 3543_OF1B_1-3-B11-F6


title: 3543_OF1B_1-3-B11-F18


title: Gli1_4d_BDL_Replicate2

value: Common Bile Duct


title: ChIP_Zfp281degron_Tet1_ESC_r2

description:
XH291
Tet1.concensus.9764.bed

value: Embryonic stem cells (ESCs)


title: Gli1_Uninjured_Replicate3

value: Peribiliary Mesenchymal Cell

value: Uninjured


title: Brain, Glb1KO, rep2


title: Gli1_Uninjured_Replicate2


title: Brain, Control,, rep5


title: 3543_OF1B_1-3-B11-F17


title: Gli1_Uninjured_Replicate1


title: cEpiSC_Zfp281degron_D4_rep2

data_processing:
FastQC (v0.10.1) was used to check the sequencing quality. Reads were pre-processed by Trim Galore (v.0.6.3) and Cutadapt programs.
Reads were aligned to the mouse genome mm9 using STAR (v2.7.6a) with the default settings.
Transcript assembly and differential expression analysis were performed using Cufflinks (v2.2.1). Assembling of novel transcripts was not allowed (-G), other parameters of Cufflinks followed the default setting.
A tab-delimited matrix file containing FPKM values for RefSeq genes in each sample generated using Cufflinks.
Assembly: mm9
Supplementary files format and content: tab-delimited text file

extract_protocol:
Total RNA was extracted using the GeneJet RNA Purification Kit (Thermo Scientific, K0732) according to the manufacturer’s instructions
RNA-seq library construction was performed at Novogene with a standard polyA-enrichment protocol.

treatment_protocol: Zfp281degron ESCs and cEpiSCs were treated with dTAG13 (500 nM in DMSO, Tocris, 6605) for degradation of ZFP281 protein

value: dTAG


title: cEpiSC_Zfp281degron_D4_rep1


title: Brain, Control, rep4


title: 3543_OF1B_1-3-B11-E6


title: 3543_OF1B_1-3-B11-E5


title: Pdgfra_Wild_Type_Replicate2


title: Brain, Control, rep3


title: 3543_OF1B_1-3-B11-E18


title: cEpiSC_Zfp281degron_UT_rep2


title: cEpiSC_Zfp281degron_D2_rep1


title: EpiSC_WT_EpiSC9

value: Epiblast stem cells (EpiSCs)


title: cEpiSC_Zfp281degron_D2_rep2


title: 3543_OF1B_1-3-B11-E17


title: Brain, Control, rep1


title: EpiSC_WT_OEC2


title: cEpiSC_Zfp281degron_UT_rep1


title: Gli1_4d_BDL_Replicate1


title: 3543_OF1B_1-3-B11-D6


title: FA_D4_Zfp281degron_dTAG_rep2


title: FA_D4_Zfp281degron_dTAG_rep1


title: Brain, Glb1KO, rep1


title: 3543_OF1B_1-3-B11-D5


title: Female, Old, Early Induction, Input, S23

city: Oklahoma City

first: Michael

last: Stout

state: OK

address: 825 N.E. 13th Street

department: Aging and Metabolism

institute: Oklahoma Medical Research Foundation

description:
400HCInput_S23(raw)
Kellogg2023_FullDataGEO.txt

data_processing:
Following sequencing, reads were trimmed and aligned before differential expression statistics and correlation analyses in Strand NGS software package (v4.0; Strand Life Sciences).
Alignment and filtering criteria included the following: adapter trimming, fixed 2-bp trim from 5′ and 2 bp from 3′ ends, a maximum number of one novel splice allowed per read, a minimum of 90% identity with the reference sequence, a maximum 5% gap, and trimming of 3′ ends with Q < 30.
Alignment was performed directionally with Read 1 aligned in reverse and Read 2 in forward orientation. All duplicate reads were then removed.
Normalization was performed with the DESeq2 algorithm. Transcripts with an average read count value >5 in at least 100% of the samples in at least one group were considered expressed at a level sufficient for quantitation per tissue and those transcripts below this level were considered not detected/not expressed and excluded, as these low levels of reads are close to background and are highly variable.
For statistical analysis of differential expression with aging a One-Way ANOVA with Benjamini–Hochberg multiple testing correction (BHMTC) was performed with SNK pairwise post-hoc testing. For those transcripts meeting this statistical criterion, a fold change >|1.25| cutoff was used to eliminate those genes which were statistically significant but unlikely to be biologically significant and orthogonally confirmable because of their very small magnitude of change.
Assembly: mm10
Supplementary files format and content: tab-delimited text file containing raw gene expression values

molecule: polyA RNA

source_name: hippocampus

extract_protocol:
For Cx3cr1-TRAP: Hippocampal tissue was isolated from Cx3cr1-NuTRAP mice of both sexes at 6 and 22 mo (n=5-7/sex/age). The hippocampi from both hemispheres were minced into small pieces and homogenized in 100 µL ice-cold TRAP homogenization buffer (50 mM Tris, pH 7.4; 12 mM MgCl2; 100 mM KCl; 1% NP-40; 1 mg/ml sodium heparin; 1 mM DTT; 100 μg/ml cycloheximide [#C4859-1ML, Millipore Sigma]; 200 units/ml RNaseOUT Recombinant Ribonuclease Inhibitor [#10777019; Thermo Fisher Scientific]; 1× complete EDTA-free Protease Inhibitor Cocktail [#11836170001; Millipore Sigma] with a Kimble pellet pestle mixer [#749540-0000; DWK Life Sciences), as previously described (7, 8). Volume was brought up to 1.5 mL with TRAP homogenization buffer. Homogenates were centrifuged at 12,000 × g for 10 min at 4°C. After centrifugation, 100 μL of the cleared supernatant was saved as TRAP Input. The remaining supernatant was incubated with 5 μg/μL of anti-GFP antibody (ab290; Abcam) at 4°C with end-over-end rotation for 1 hour. A volume of 50 µL per sample of Protein G Dynabeads (#10003D; Thermo Fisher Scientific) was washed three times in 1-mL ice-cold low-salt wash buffer (50 mM Tris, pH 7.5; 12 mM MgCl2; 100 mM KCl; 1% NP-40; 100 μg/ml cycloheximide; 1 mM DTT) and then resuspended in the original volume of low salt wash buffer. 50 µL of washed beads were added to each cleared homogenate and incubated at 4°C with end-over-end rotation overnight. Following overnight incubation, the beads and GFP-bound polysomes were washed three times with 0.5 mL of high-salt wash buffer (50 mM Tris, pH 7.5; 12 mM MgCl2; 300 mM KCl; 1% NP-40; 100 μg/mL cycloheximide; 2 mM DTT) using a magnetic stand for separation. After the last wash, 350 μL of Buffer RLT (Qiagen) was supplemented with 3.5 μl of 2-β mercaptoethanol (#444203, Millipore Sigma) and added to the washed beads. Samples were incubated with mixing on a ThermoMixer (Eppendorf) for 10 minutes at room temperature. The beads were magnetically separated, and the supernatant (Positive Fraction) was transferred to a new tube. RNA was isolated using the RNeasy Mini kit (#74104, QIAGEN) according to the manufacturer’s instructions. RNA was quantified with a Nanodrop Onec spectrophotometer (#ND-ONEC-W, Thermo Fisher Scientific), and its quality was assessed by HSRNA ScreenTape (#5067-5579, Agilent Technologies) with a 4150 Tapestation analyzer (#G2992AA, Agilent Technologies).
RNA was isolated using the Qiagen Rneasy Mini Kit according to the manufacturer's instructions.
Directional RNA-Seq libraries were made according to the manufacturer’s protocol from 5-100 ng RNA. Poly-adenylated RNA was captured using NEBNext Poly(A) mRNA Magnetic Isolation Module (#NEBE7490L, New England Biolabs) and then processed using NEBNext Ultra II Directional Library Prep Kit for Illumina (#NEBE7760L, New England Biolabs) for the creation of cDNA libraries. Library sizing was performed with HSD1000 ScreenTape (#5067-5584, Agilent Technologies) and quantified by Qubit dsDNA HS Assay Kit (#Q32851, ThermoFisher Scientific) on a Qubit 4 Fluorometer (#Q33226, ThermoFisher Scientific). The libraries for each sample were pooled at 4 nM concentration and sequenced using an Illumina NovaSeq 6000 system (SP PE50bp, S4 PE150).

value: hippocampus

value: whole tissue

value: Old

value: Early Induction


title: Female, Old, Early Induction, Input, S21

description:
383HCInput_S21(raw)
Kellogg2023_FullDataGEO.txt

value: Female


title: FA_D4_Zfp281degron_UT_rep1

value: ESCs adapted in FA culture


title: VLC5.M.N975

first: Matthew

middle: J

last: Brooks

address: 6 Center Dr Bldg 6, Rm 303

department: NEI

institute: NIH

description: Liver tissue from Male mice fed 5%-VLCPUFA diet, replicate no N975

data_processing:
Post quality check, reads were mapped to the reference transcriptome using kallisto. Alignments were imported into R and processed with tximport and the Mus musculus Ensembl annotation (GRCm39 v104) to summarize gene counts.
Lowly expressing genes were filtered out by only retaining genes that had greater than 3 CPM expression in two or more samples.
Differential expression analysis was performed with the edgeR and limma-voom pipeline, and thresholds of 0.1 FDR and 1.5-fold change (abs(log2FC) > 0.58) were used to determine significantly differential genes.
Assembly: GRCm39 v104
Supplementary files format and content: Tab-delimited text files containing transcript level counts, gene level counts, or normalized gene level counts-per-million, and differential expression results.

source_name: mouse liver

growth_protocol: In a dietary supplementation feeding experiment, 9-month-old male and female C57BL/6J mice were fed a chow diet AIN-93G (Envigo, Frederick, MD) supplemented with 1% or 5% (w/w) VLCPUFA concentrate oil, or none (control) for 8 weeks.

extract_protocol:
RNA was isolated from liver samples using a RNeasy Mini Kit (Qiagen, Hilden, Germany) according to the manufacturer’s instructions.  RNA purity and concentration were assessed using a NanoDropTM spectrophotometer (Thermo Fisher Scientific Inc., Waltham, MA, USA).  A 4200 TapeStation System (Agilent Technologies, Santa Clara, CA, USA) was used with RNA screentapes to generate RNA integrity numbers (RIN) for RNA samples. All RNA samples selected for RNA-seq library preparation had a RIN greater than 7.
RNA-seq libraries were prepared using a TruSeq Stranded mRNA Sample Prep Kit (Illumina, San Diego, CA, USA)

treatment_protocol: After 8 weeks of diet consumption, the 5 hr-fasted mice were euthanized via intraperitoneal injection of tribromoethanol, and liver tissue was harvested for gene expression analysis.

tag: diet

value: Male

value: Liver

value: WT

tag: replicate


title: VLC5.M.N976

description: Liver tissue from Male mice fed 5%-VLCPUFA diet, replicate no N976


title: VLC5.F.N987

description: Liver tissue from Female mice fed 5%-VLCPUFA diet, replicate no N987


title: 3543_OF1B_1-3-B11-D17

value: Dorsolateral Prefrontal cortex (Brodmann area 46)

value: nuclear RNA + genomic DNA


title: VLC5.F.N988

description: Liver tissue from Female mice fed 5%-VLCPUFA diet, replicate no N988


title: Female, Old, Early Induction, Input, S17

description:
325HCInput_S17(raw)
Kellogg2023_FullDataGEO.txt


title: Brain, Control, rep2

value: Brain


title: 3543_OF1B_1-3-B11-D18


title: 3543_OF1B_1-3-B11-C6


title: Female, Old, Early Induction, Input, S15

description:
324HCInput_S15(raw)
Kellogg2023_FullDataGEO.txt


title: CTRL.M.N967

description: Liver tissue from Male mice fed Control-Diet diet, replicate no N967

value: Control-Diet


title: Male, Old, Early Induction, Input, S13

description:
321HCInput_S13(raw)
Kellogg2023_FullDataGEO.txt


title: CTRL.M.N968

description: Liver tissue from Male mice fed Control-Diet diet, replicate no N968


title: 3543_OF1B_1-3-B11-C18


title: Male, Old, Early Induction, Input, S11

description:
320HCInput_S11(raw)
Kellogg2023_FullDataGEO.txt


title: FA_D2_Zfp281degron_UT_rep1


title: CTRL.F.N979

description: Liver tissue from Female mice fed Control-Diet diet, replicate no N979


title: FA_D2_Zfp281degron_dTAG_rep2


title: FA_D4_Zfp281degron_UT_rep2


title: ESC_Zfp281degron_dTAG_rep2

value: Embryonic stem cells (ESCs)


title: Male, Old, Early Induction, Input, S9

description:
319HCInput_S9(raw)
Kellogg2023_FullDataGEO.txt


title: Female, Old, Early Induction, Input, S19

description:
382HCInput_S19(raw)
Kellogg2023_FullDataGEO.txt


title: 3543_OF1B_1-3-B11-C17


title: 3543_OF1B_1-3-B11-B6


title: Female, Old, Early Induction, Input, S7

description:
210HCInput_S7(raw)
Kellogg2023_FullDataGEO.txt


title: 3543_OF1B_1-3-B11-B5


title: ESC_Zfp281degron_UT_rep2


title: ESC_Zfp281degron_dTAG_rep1


title: Female, Old, Early Induction, Input, S5

description:
209HCInput_S5(raw)
Kellogg2023_FullDataGEO.txt


title: FA_D2_Zfp281degron_dTAG_rep1


title: 3543_OF1B_1-3-B11-C5


title: 3543_OF1B_1-3-B11-B18


title: VLC1.F.N983

description: Liver tissue from Female mice fed 1%-VLCPUFA diet, replicate no N983


title: ESC_Zfp281degron_UT_rep1


title: Male, Old, Early Induction, Input, S3

description:
204HCInput_S3(raw)
Kellogg2023_FullDataGEO.txt


title: VLC1.M.N972

description: Liver tissue from Male mice fed 1%-VLCPUFA diet, replicate no N972


title: 3543_OF1B_1-3-B11-B17


title: ESC_WT_rep2


title: ChIP_3WT_RH1_Zfp281_Rep2

data_processing:
FastQC (v0.10.1) was used to check the sequencing quality. Reads were pre-processed by Trim Galore (v.0.6.3) and Cutadapt programs.
Reads were aligned to the mouse genome mm9 using the bowtie2 (v2.3.5) program, with parameters -X 1000 --no-mixed --no-discordant.
The mapped reads were sorted and converted to a binary bam file using samtools (v1.10)
ChIP-seq peaks were determined by the MACS program (v.2.2.7), using input as the control data, and all other parameters followed the default settings.
bigWig files were generated using the bamCoverage program.
Assembly: mm9
Supplementary files format and content: bigWig, bed

treatment_protocol: For Enaseh1 overexpression, piggyBac-Rnaseh1-Hygro and empty piggyBac-Hygro vectors were cotransfected with helper PBase (encodes the transposase) vector in ESCs with Lipofectamine 3000 (Invitrogen). Transfected ESCs were selected with 100 µg/ml Hygromycin for one week with at least two passages.

value: Abcam, ab101318

value: Rnaseh1 overexpression (RH1)


title: 3543_OF1B_1-3-B11-A6


title: Male, Young, Early Induction, Input, S57

description:
1445HCInput_S57(raw)
Kellogg2023_FullDataGEO.txt

value: Young


title: ESC_WT_rep1


title: Female, Young, Early Induction, Input, S55

description:
1444HCInput_S55(raw)
Kellogg2023_FullDataGEO.txt

value: hippocampus


title: 3543_OF1B_1-3-B11-A18


title: CTRL.F.N980

description: Liver tissue from Female mice fed Control-Diet diet, replicate no N980


title: ChIP_3WT_EV_Zfp281_Rep2

value: Empty vector (EV)


title: Male, Old, Early Induction, Input, S1

description:
203HCInput_S1(raw)
Kellogg2023_FullDataGEO.txt

value: whole tissue

value: Old


title: VLC1.M.N971

description: Liver tissue from Male mice fed 1%-VLCPUFA diet, replicate no N971


title: Female, Young, Early Induction, Input, S53

description:
1443HCInput_S53(raw)
Kellogg2023_FullDataGEO.txt

value: Female

value: Early Induction


title: RNA-seq WT mid-log phase rep 2

city: Ulsan

first: Donghyuk

last: Kim

address: 50 UNIST-gil, Eonyang-eup, Ulju-gun

department: Department of Chemical Engineering

country: South Korea

institute: UNIST

description: Salmonella enterica serovar Typhimurium LT2 RNA-seq mid-log phase replicate 2

data_processing:
The sequencing was performed on HiSeq 2500 (Illumina).
The base calling was done using Illumina’s Real-Time Analysis (RTA) v2.7.7; data was converted to fastq and demultiplexed using Illumina’s bcl2fastq2 Conversion Software v2.20;
Sequence reads generated from RNA-seq were mapped onto the reference genome (NC_003197) using bowtie with 1000 bp as the max. insert size and 2 max. mismatches after cutting 3 bp at 3' ends.
SAM files generated from bowtie, then, were then used for Cufflinks (http://cufflinks.cbcb.umd.edu/) to calculate fragments per kilobase of exon per million fragments (FPKM).
Cufflinks was run with default options with the library type of dUTP RNA-seq and the default normalization method (classic-fpkm)
Genome_build: Salmonella enterica serovar Typhimurium LT2 genome (NC_003197)
Supplementary_files_format_and_content: Tab-delimited text files in gff format which has 8 columns: sequence id, source(empty), feature (+/- strand), start position, end position, intensity score, strand(+/-), frame(.), attribute(.).

organism: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2

source_name: Bacteria

growth_protocol: glycerol stocks of Salmonella enterica serovar Typhimurium strain LT2 were inoculated into M9 minimal media with 0.2% (w/v) glucose. M9 minimal media was also supplemented with 1 ml trace element solution (100X) containing 1 g EDTA, 29 mg ZnSO4.7H2O, 198 mg MnCl2.4H2O, 254 mg CoCl2.6H2O, 13.4 mg CuCl2, and 147 mg CaCl2. The culture was incubated at 37 oC overnight with agitation, and then was used to inoculate the fresh media (1/200 dilution). The volume of the fresh media was 150 mL for each biological replicate. The fresh culture was incubated at 37 oC with agitation to the mid-log phase (OD600 ≈ 0.5).

extract_protocol:
Three milliliters of the cells cultured up to the exponential phase and 6 ml of RNAprotect Bacteria Reagent (Qiagen) were mixed immediately by vortexing for 5 sec, followed by 5 min incubation at room temperature and, after, centrifuged at 5000x g for 10 min. The supernatant was extracted, but for full supernatant removal the tube was inverted once onto a paper towel. Isolation of total RNA samples was conducted with RNeasy Plus Mini kit (Qiagen). The quantity was determined by Nanodrop 1000 spectrophotometer (Thermo Scientific). The quality was checked using RNA 6000 Pico Kit using Agilent 2100 Bioanalyzer (Agilent). Paired-end, strand-specific RNA-seq library was built with the help of KAPA RNA Hyper Prep kit (Kapa Biosystems)
The RNA libraries were prepared for sequencing based on Illumina standard protocols

tag: medium

value: glucose M9 minimal

tag: phase

value: mid-log phase

value: wild type


title: RNA-seq WT mid-log phase rep 1

description: Salmonella enterica serovar Typhimurium LT2 RNA-seq mid-log phase replicate 1


title: 3543_OF1B_1-3-B11-A5

source_name: OF1B human BA46

value: Dorsolateral Prefrontal cortex (Brodmann area 46)


title: 3543_OF1B_1-3-B11-A17

value: nuclear RNA + genomic DNA


title: Female, Young, Early Induction, Input, S51

description:
1442HCInput_S51(raw)
Kellogg2023_FullDataGEO.txt