title: lpla_starv_r6_s_r_v1

city: Solna

first: Vicent

last: Pelechano

address: Nobels väg 16

department: MTC

country: Sweden

institute: ScilifeLab - Karolinska Institutet

data_processing:
Adapter and quality trimming with the bbduk program of the BBTools suite, with options {qtrim=r, ktrim=r, hdist=3, hdist2=2, K=20, mink=14, trimq=16, minlen=30, maq=16}, using BBTools default adapter set and polyG or polyA sequences for short reads.
Deduplication of reads with both identical unique molecular identifier (UMI) and insert sequence using the dedupe program of the BBTools suite with its default parameters.
UMI sequences found in the first eight bases of each read were extracted using UMI-tools (version 1) with default options (using --bc-pattern NNNNNNNN).
Alignment was performed with the bbmap program of the BBTools suite, with the {32bit=t -da -eoom k=11 strictmaxindel=10 intronlen=0 t=16 trd=t minid=0.94 nzo=t} parameters. Alignment files were sorted and indexed with SAMtools.
Deduplication based on UMIs was then performed with UMI-tools (version 1) with options { --soft-clip-threshold 1 --edit-distance 2 --method unique}.
In selected samples, a dual undex strategy was used (sequencing runs v17). In brief, in addition of the Illumina indexes with dedicated reads used in HT-5Pseq, an additional index sequence is added before the UMI sequence. This is introduced during the ssRNA ligation space using anoligo with the following structure Illumina compatible-CCCCCC-NNNNNNNN. Please see dual_index_demultiplexing.txt for details on demultiplexing strategy for those samples.
Bedgraphs for read 5' positions for forward (fwd) and reverse (rev) strands were generated with BEDTools genomecov program with options {-bg -strand [+/-] -5}.
Genome_build: The genome used for alignment is indicated in the processed file names with the G-xxxx patterns. Those correspond to the following NCBI accessions and builds: G-bamy (Bacillus amyloliquefaciens: GCF_000196735.1), G-bsub (Bacillus subtilis: GCF_000009045.1), G-cvib (Caulobacter vibrioides/crescentus: GCF_000006905.1), G-ecol (Escherichia coli: GCF_000005845.2), G-spcc (Synechocystis sp. PCC 6803: GCF_000009725.1), G-lpla (Lactobacillus plantarum: GCF_000203855.3), G-lreu (Lactobacillus reuteriGCF_000016825.1), G-zymo (mix of the following genomes [Bacillus subtilis: GCF_000009045.1, Enterococcus faecalis: GCF_000007785.1, Escherichia coli: GCF_000005845.2, Lactobacillus fermentum: GCF_000010145.1, Listeria monocytogenes: GCF_000196035.1, Pseudomonas aeruginosa: GCF_000006765.1, Salmonella enterica: GCF_000006945.2, Staphylococcus aureus: GCF_000013425.1]), G-46genera (genomes from 46 genera listed in the Supplementary file).
Genome_build: Reference indiced for individual bacterial species and custom mixtures were built with the bbmap program of the BBTools suite, with default options (and k=10). See details in the supplementary file "46genera.xls". In Brief: Akkermansia muciniphila ATCC BAA-835 (GCF_000020225.1); Alistipes finegoldii DSM 17242 (GCF_000265365.1); Alistipes obesi (GCF_000311925.1); Alistipes putredinis DSM 17216 (GCF_000154465.1); Alistipes shahii WAL 8301 (GCF_000210575.1); Anaerobutyricum hallii DSM 3353 (GCF_000173975.1); Atopobium vaginae DSM 15829 (GCF_000159235.2); Bacillus amyloliquefaciens DSM 7 = ATCC 23350 (GCF_000196735.1); Bacillus subtilis subsp. subtilis str. 168 (GCF_000009045.1); Bacillus subtilis subsp. subtilis str. 168 (GCF_000009045.1); Bacteroides caccae (GCF_002222615.2); Bacteroides cellulosilyticus (GCF_001318345.1); Bacteroides coprocola DSM 17136 (GCF_000154845.1); Bacteroides coprophilus DSM 18228 = JCM 13818 (GCF_000157915.1); Bacteroides faecichinchillae JCM 17102 (GCF_000614145.1); Bacteroides fluxus YIT 12057 (GCF_000195635.1); Bacteroides fragilis YCH46 (GCF_000009925.1); Bacteroides ovatus (GCF_001314995.1); Bacteroides plebeius DSM 17135 (GCF_000187895.1); Bacteroides salanitronis DSM 18170 (GCF_000190575.1); Bacteroides salyersiae WAL 10018 = DSM 18765 = JCM 12988 (GCF_000381365.1); Bacteroides stercoris ATCC 43183 (GCF_000154525.1); Bacteroides thetaiotaomicron VPI-5482 (GCF_000011065.1); Bacteroides uniformis ATCC 8492 (GCF_000154205.1); Bilophila wadsworthia ATCC 49260 (GCF_000701705.1); Caulobacter vibrioides CB15 (GCF_000006905.1); Clostridium phoceensis (GCF_001244495.1); Collinsella aerofaciens ATCC 25986 (GCF_000169035.1); Coprobacter fastidiosus NSB1 (GCF_000473955.1); Coprococcus comes ATCC 27758 (GCF_000155875.1); Culturomica massiliensis (GCF_900091655.1); Desulfovibrio fairfieldensis (GCF_001553605.1); Dorea formicigenerans ATCC 27755 (GCF_000169235.1); Dorea longicatena DSM 13814 (GCF_000154065.1); Enterococcus faecalis V583 (GCF_000007785.1); [Clostridium] innocuum 2959 (GCF_000371425.1); [Clostridium] saccharogumia DSM 17460 (GCF_000686665.1); Escherichia coli str. K-12 substr. MG1655 (GCF_000005845.2); Escherichia coli str. K-12 substr. MG1655 (GCF_000005845.2); Eubacterium ventriosum ATCC 27560 (GCF_000153885.1); Faecalibacterium prausnitzii A2-165 (GCF_000162015.1); Flavobacterium johnsoniae UW101 (GCF_000016645.1); Flavobacterium saccharophilum (GCF_900142735.1); Fusicatenibacter saccharivorans (GCF_001405555.1); Gardnerella vaginalis 409-05 (GCF_000025205.1); Synechocystis sp. PCC 6803 (cyanobacteria) (GCF_000009725.1); Gemmiger formicilis (GCF_900167555.1); Intestinimonas butyriciproducens (GCF_001454945.1); Lactobacillus plantarum WCFS1 (GCF_000203855.3); Lactobacillus reuteri DSM 20016 (GCF_000016825.1); Lactobacillus crispatus ST1 (GCF_000091765.1); Lactobacillus iners DSM 13335 (GCF_000160875.1); Lactobacillus fermentum IFO 3956 (GCF_000010145.1); Lactococcus lactis subsp. lactis Il140 (GCF_000006865.1); Lacunisphaera limnophila (GCF_001746835.1); Listeria monocytogenes EGD-e (GCF_000196035.1); Mediterranea massiliensis (GCF_900128475.1); Megasphaera genomosp. type_1 str. 28L (GCF_000177555.1); Microbacterium barkeri 2011-R4 (GCF_000299315.2); Mucilaginibacter gossypiicola (GCF_900110105.1); Odoribacter splanchnicus DSM 20712 (GCF_000190535.1); Parabacteroides distasonis ATCC 8503 (GCF_000012845.1); Parabacteroides goldsteinii DSM 19448 = WAL 12034 (GCF_000969835.1); Prevotella amnii DSM 23384 = JCM 14753 (GCF_000378745.1); Prevotella bivia DSM 20514 (GCF_000262545.1); Prevotella buccalis ATCC 35310 (GCF_000177075.1); Prevotella timonensis 4401737 = DSM 22865 = JCM 15640 (GCF_000455445.1); Pseudomonas fluorescens F113 (GCF_000237065.1); Pseudomonas protegens CHA0 (GCF_000397205.1); Pseudomonas aeruginosa PAO1 (GCF_000006765.1); Rhodanobacter fulvus Jip2 (GCF_000264315.1); Romboutsia timonensis (GCF_900106845.1); Roseburia hominis A2-183 (GCF_000225345.1); Roseburia inulinivorans DSM 16841 (GCF_000174195.1); Ruthenibacterium lactatiformans (GCF_000949455.1); Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 (GCF_000006945.2); Sneathia sanguinegens (GCF_001517935.1); Staphylococcus aureus subsp. aureus NCTC 8325 (GCF_000013425.1); Streptococcus salivarius (GCF_000785515.1); Streptococcus thermophilus JIM 8232 (GCF_000253395.1); [Eubacterium] rectale ATCC 33656 (GCF_000020605.1); [Eubacterium] siraeum DSM 15702 (GCF_000382085.1) and  Ureaplasma parvum serovar 3 str. ATCC 27815 (GCF_000019345.1).
Supplementary_files_format_and_content: Processed files are bedgraphs containing read 5' counts on reverse (_rev) and forward (_fwd) strands of genomes indicated with _G-xxxx pattern. The genomes corresponding to each pattern are described in the genome build entry above.

organism: Lactiplantibacillus plantarum

source_name: Liquid culture of Lactobacillus plantarum (ATCC 8014.

growth_protocol: Bacteria were grown according to their requirements. Overnight Cultures were diluted to OD600 0.05-0.07, growth was continued and cells were harvested in log-phase by centrifugation. Resulting pellet was shock-frozen in Dry ice/Ethanol bath and stored for RNA analysis

extract_protocol:
Microbial cell pellets were resuspended in equal volume of LET (25 mM Tris pH 8.0, 100 mM LiCl, 20 mM EDTA) and water saturated Phenol pH 6.6 (Thermo Fisher),  lysed with acid washed glass beads (Sigma-Aldrich) and vortexing for three minutes in MultiMixer. Lysates were supplemented  with equal volumes of phenol/chloroform isoamyl alcohol pH 4.5 (25:24:1) and nuclease free water, l two-minute vortexing followed by centrifugation. Resulting aqueous phase was purified in two steps using phenol-chloroform isoamyl alcohol (25:24:1) followed by chloroform. After centrifugation, the clean aqueous phase was precipitated with sodium acetate-ethanol.
Standard and random fragmented 5PSeq libraries were generated as described in PMID: 26046441 with minor modifications using 150-9000ng total RNA as an input. To prepare random fragmented samples (negative controls), ribosomal RNA was depleted from DNA-free RNA and subsequent fragmented by incubating five minutes at 80 ̊C in fragmentation buffer (40mM Tris Acetate pH 8.1, 100mM KOAc and 30mM MgOAc). Reaction was purified using 2 volumes of RNACleanXP beads (Beckman Coulter) as recommended by the manufacturer. Free 5’OH sites were re-phosphorylated using 5 Units of T4 Polynucleotide kinase (PNK, NEB) and incubated at 37 ̊C for 60 minutes as recommended by the manufacturer. Re-phosphorylated fragmented RNA was purified using Phenol:Chloroform: Isoamyl Alcohol (24:25:1), followed by sodium acetate-ethanol precipitation. From this step forward, procedures for random fragmented and standard 5PSeq library preparation merge. RNA was Ligated to either rP5_RND or rP5_RNA oligo (specified in characteristics protocol).    containing unique molecular identifiers). Ribosomal RNA was depleted using Ribozero rRNA removal kit (Illumina) suitable for Bacteria and Yeast. rRNA depleted sample was purified using 1.8V of Ampure beads (Abcam), fragmented using heat (80˚C) for 5 min in 5x Fragmentation Buffer (200mM Tris Acetate pH 8.1,500mM KOAc,150mM MgOAc) and reverse transcribed using random hexamers to prime. Resulting cDNA was bound to streptavidin beads (M-280), subjected to enzymatic reactions of DNA end repair, fill-in of adenine to 5’ protruding ends of DNA fragments using Klenow Fragment (NEB). Common adaptor (P7-MPX) was ligated and 5PSeq Libraries were amplified by PCR (15- 17 cycles). Purified samples were quantified using Qubit (Thermo Fisher), library size was estimated from bioanalyzer traces. 5PSeq Libraries were pooled by mixing equal amounts of each sample, following enrichment of fragments of the length between 300-500nt.   HT-5PSeq Libraries were generated as recently described (bioRxiv 2020.06.22.165134; doi: https://doi.org/10.1101/2020.06.22.165134). In brief, DNA-free RNA was ligated with RNA oligos containing unique molecular identifiers. Ligated RNA was reverse transcribed priming with oligos containing a random hexamer and an Illumina compatible region. RNA was eliminated by addition of NaOH. Ribosomal RNA was depleted by adding in-house rRNA DNA oligo depletion mixes (table 2) to the cDNA and performing a duplex-specific nuclease (DSN, Evrogen) treatment. rRNA depleted cDNA was PCR amplified (15-17 cycles). Depletion of ribosomal RNA with Ribozero Illumina (for bacteria and yeast) was done after the single-stranded RNA ligation step. Ribosomal depleted RNA was purified and reverse transcribed using the same oligos as stated above, and then amplified by PCR. Libraries were quantified by fluorescence (Qubit, Thermo Fisher), size estimated using an Agilent Bioanalyzer and sequence using a NextSeq500 Illumina sequencer.
5PSeq that captures  transcripts with free 5' phospahte (without cap)

treatment_protocol: As for Chloramphenicol (CAM) treatment, Bacterial cells were incubated with Chloramphenicol (100µg/ml final) for 5 minutes at 37˚C with aeration and harvested at 4˚C on ice supplemented with Chloramphenicol (~100µg/ml final).   Mupirocin (MUP) was added to bacterial culture at a final concentration of 65µg/ml and incubated for 10 minutes at 37˚C with aeration.   Cultures for stationary growth phase samples were inoculated with single colony and harvested at indicated times post-inoculation.   Salt stress samples were generated as described in PMID: 28290514 with minor modifications Salt stress was initiated by mixing equal volumes of bacterial growth culture and 2M NaCl (~5.8% NaCl). Bacterial cells were exposed to salt stress for 10 minutes at room temperature and harvested by centrifugation.   Cultures for stationary growth phase samples were inoculated with single colony and harvested at indicated times post-inoculation.   Heat shock experiments were setup the following. Lactobacillus plantarum (ATCC 8014) growth culture was harvested by centrifugation and heat shock was induced by resuspending cell pellet in prewarmed broth media following 15-minute incubation at 60˚C.   To generate low nutrient samples, actively growing Lactobacillus plantarum (ATCC 8014) culture was harvested by centrifugation. Low nutrient stress was induced for 15 minutes beginning with excessive washing of the cell pellet with Low nutrient media (0.5x LB broth), followed by centrifugation. Washed cell pellet was resuspended in 0.5x LB broth, incubated at 37˚C for the remaining time.   Polyribosome fractions were generated as described in PMID: 27146487 with minor modifications. For short, exponentially grown bacterial cells were harvested by centrifugation (5 minutes) at 4˚C on ice supplemented with 100µg/ml Chloramphenicol. Lysis was done in 1xTN buffer (50mM TRIS/HCl pH 7.4,150mM NaCl, 1mM DTT, 100μg/ml CAM and Complete EDTA Free Protease inhibitor tablet) using glass beads and of vortexing (2minutes) followed by resting of sample on ice (5 minutes).  Vortexing/resting cycle was repeated two more times. Lysate was cleared by centrifugation at 1500g for 5 minutes at 4˚C. Resulting supernatant was loaded on to a 15-50% sucrose gradient with a 80% cushion and sedimentation was accomplished by ultracentrifugation for 90 minutes at 36,000rpm. Fractions were collected and A254 value was monitored. Subsequently, RNA was extracted from sucrose fractions by adding equal volumes of phenol/chloroform isoamyl alcohol pH 4.5 (25:24:1) and nuclease free water followed by 2-minute vortexing and centrifugation. Aqueous phase was further cleaned up by the addition of Chloroform, vortexing and centrifugation. Resulting aqueous phase was sodium acetate-ethanol precipitated.

value: Low nutrient:switch from rich media to low nutrient media using 0.5xLB for 15 minutes

tag: culture conditions

value: pla_starv_rep3(6) was grown in MRS broth at 37C. At exponential growth phase OD600 0.39, was switched to Low nutrient media (0.5X LB broth for 15 minutes)

tag: library protocol

value: Standard 5PSeq

tag: ribosomal rna delpetion strategy

value: Ribo-Zero rRNA Removal Kit (Bacteria) Illumina


title: lpla_stat_r5_s_r_v1

status: Public on Mar 24 2023

type: SRA

library_source: transcriptomic

molecule: total RNA

tag: treatment

value: Stationary growth phase 27hours post-inoculation

value: lpla_stat_rep2(5) was grown in MRS broth at 37C for 27 hours  OD600 4.5


title: lpla_stat_r4_s_r_v1

value: lpla_stat_rep1(4) was grown in MRS broth at 37C for 27 hours  OD600 4.3


title: lpla_stat_r6_s_r_v1

value: lpla_stat_rep3(6) was grown in MRS broth at 37C for 27 hours OD600 4.65


title: lpla_starv_r5_s_r_v1

value: lpla_starv_rep2(5) was grown in MRS broth at 37C. At exponential growth phase OD600 0.31, was switched to Low nutrient media (0.5X LB broth for 15 minutes.


title: lpla_starv_r4_s_r_v1

value: lpla_starv_rep1(4) was grown in MRS broth at 37C. At exponential growth phase OD600 0.2, was switched to Low nutrient media (0.5X LB broth for 15 minutes.


title: lpla_ctr_r5_s_r_v1

value: Untreated

value: lpla_ctr_rep5 was grown in MRS broth at 37C and harvested at exponential growth phase OD600 0.31.


title: Embryo_6 Non-neural ectoderm [DNA_batch15_sc60]

city: Beijing

first: Fan

last: Guo

state: Beijing

address: 1 Beichen West Road, Chaoyang District

department: The State Key Laboratory of Stem Cell and Reproductive Biology

country: China

institute: Institute of Zoology, Chinese Academy of Sciences

library_source: genomic

data_processing:
Processing of the scChaRM-seq DNA data:Trim Galore (v0.4.4) was used to remove random primer sequences, low-quality bases and adaptor sequences from the single-cell bisulfite data. Only reads longer than 50 bp after trimming were retained for alignment. Then, clean reads were mapped to the monkey reference genome mf5 by Bismark (v0.7.6) in paired-end mode, and unmapped reads were re-aligned to the reference genome in single-end mode. Duplicate reads from PCR were removed by the SAMtools (v0.1.18) command “samtools rmdup”, and only nonduplicate reads were used to perform the downstream analysis. The GCH (G=A, T or C) and WCG (W=A or T) sites (≥1× sequencing depth) in each single cell were summed. Then, the chromatin accessibility and DNA methylation level were calculated as the average GCH or WCG level, respectively.
Genome_build: mf5
Supplementary_files_format_and_content: bedgraph files；RNAid_DNAid_celltype.csv
Assembly: mf5
Supplementary files format and content: bedgraph files;csv files

molecule: genomic DNA

organism: Macaca fascicularis

source_name: in vitro

growth_protocol: The creation of cynomolgus monkey embryos including oocyte retrieval, intracytoplasmic sperm injection, and pre-implantation embryo culture were performed as described by Yamasaki et al (Nakamura et al., 2016). Briefly, female cynomolgus monkeys 7-10 years old with a successful reproductive history were used for mature oocyte collection by super-ovulation with follicle-stimulation hormone. The day collected oocytes were artificially fertilized by sperm injection was designated as embryonic day (E) 0. When the embryos developed to E6-E7, embryos with an  expanded blastocoel (>75% volume of the embryo) were selected for further culture .

extract_protocol:
The single-cell isolation procedures were performed according to the protocol previously described (Ma et al., 2019a). In brief, the pIVC cynomolgus embryos were  dissected by removing the extraembryonic tissues, then the inner embryonic bodies were digested with 500 μL of 1 × TrypLE for 15 min at 37°C and dissociated into single cells by mouth pipetting. Advanced DMEM/F12 containing 10% FBS was added to terminate the enzymatic reaction and the cells were centrifuged at 300 g for 5 min at room temperature, followed by the resuspension with 100 μL pre-cold 0.1% BSA/PBS.
Single cells were individually picked into ice-cold lysis buffer under stereoscopic microscope. single cells were picked of each stage and then the subjected to construct scChaRM-seq library. The method of library construction was described in our recently published method (Yan et al., 2021). In brief, in vitro CpG methylation was performed by M.CviPI (New England Biolabs, NEB) supplemented with S-adenosyl-methionine (SAM;NEB) and terminated by adding RLT buffer (QIAGEN). Then the genome DNA and mRNA were separated by capturing mRNA with oligo(dT) primers conjugated beads (Invitrogen), the supernatant containing genomic DNA was transferred into another PCR tube to bisulfite conversion (Zymo Research) and DNA library construction using previously descried TAILS method (Gu et al., 2019). The captured mRNA was subjected correspondingly to cDNA synthesis, PCR amplification and library construction (Gu et al., 2019).

tag: cell line

value: in vitro

tag: cell type

value: Embryo

tag: genotype

value: WT

tag: time


title: Embryo_7 Mesoderm [DNA_batch15_sc61]


title: lpla_ctr_r3_s_r_v1

value: lpla_ctr_rep3 was grown in MRS broth at 37C and  harvested at exponential growth OD600 0.55.


title: lpla_ctr_r4_s_r_v1

value: lpla_ctr_rep4 was grown in MRS broth at 37C and harvested at exponential growth phase OD600 0.2.


title: lpla_mup_r1_s_r_v1

value: 65microg/ml Mupirocin for 10 minutes at 37C

value: lpla_mup_rep1 was grown in MRS broth at 37C. Mupirocin was added at exponential growth OD600 0.49.


title: lpla_mup_r2_s_r_v1

value: lpla_mup_rep2 was grown in MRS broth at 37C. Mupirocin was added at exponential growth phase OD600 0.47.

value: Standard 5PSeq


title: lpla_ctr_r2_s_r_v1

value: lpla_ctr_rep2 was grown in MRS broth at 37C and harvested at exponential growth phase OD600 0.47.

value: Ribo-Zero rRNA Removal Kit (Bacteria) Illumina


title: lpla_frag_r2_s_r_v1

value: lpla_frag_rep2 was grown in MRS broth at 37C and harvested at exponential growth phase OD600 0.47.

value: random fragmented ( 5PSeq)


title: lpla_hs_r6_s_r_v1

value: Heat shock at 60C for 10 minutes

value: lpla_hs_rep3(6) was grown in MRS broth at 37C and heat shocked at exponential growth OD600 0.39)


title: Embryo_7 Mesoderm [DNA_batch15_sc59]


title: Embryo_7 Mesoderm [DNA_batch15_sc56]


title: lpla_hs_r4_s_r_v1

value: lpla_hs_rep1(4) was grown in MRS broth at 37C. and heat shocked at exponential growth OD600 0.2.


title: Embryo_6 Non-neural ectoderm [DNA_batch15_sc57]


title: Embryo_8 Neural ectoderm [DNA_batch15_sc58]


title: lpla_mup_r3_s_r_v1

value: to lpla_mup_rep3 was grown in MRS broth at 37C. Mupirocin was added at exponential growthOD600 0.55.


title: lpla_cam_r1_s_r_v1

value: 100microg/ml Chloramphenicol for 5 minutes at 37C

value: lpla_cam_rep1 was grown in MRS broth at 37C. Chloramphenicol treatment was initiated at exponential growth phase OD600 0.49.


title: lpla_frag_r1_s_r_v1

value: Untreated

value: lpla_frag_rep1 was grown in MRS broth at 37C and harvested at exponential growth OD600 0.49.


title: lpla_ctr_r1_s_r_v1

value: lpla_ctr_rep1 was grown in MRS broth at 37C and harvested at exponential growth  OD600 0.49.


title: Embryo_7 Mesoderm [DNA_batch15_sc53]

value: in vitro

value: Embryo

value: WT


title: Embryo_7 Mesoderm [DNA_batch15_sc55]


title: Embryo_8 Neural ectoderm [DNA_batch15_sc54]


title: Embryo_7 Mesoderm [DNA_batch15_sc52]


title: Embryo_12 Blood cells [DNA_batch15_sc6]


title: Embryo_6 Non-neural ectoderm [DNA_batch15_sc5]


title: Embryo_12 Blood cells [DNA_batch15_sc50]


title: Embryo_7 Mesoderm [DNA_batch15_sc51]


title: Embryo_7 Mesoderm [DNA_batch15_sc49]


title: Embryo_2 CTB [DNA_batch15_sc47]


title: Embryo_3 EVT [DNA_batch15_sc46]


title: Embryo_7 Mesoderm [DNA_batch15_sc48]


title: Embryo_3 EVT [DNA_batch15_sc41]


title: Embryo_2 CTB [DNA_batch15_sc45]


title: Embryo_3 EVT [DNA_batch15_sc38]


title: Embryo_3 EVT [DNA_batch15_sc39]


title: Embryo_3 EVT [DNA_batch15_sc31]


title: Embryo_7 Mesoderm [DNA_batch15_sc32]


title: Embryo_3 EVT [DNA_batch15_sc30]


title: Embryo_2 CTB [DNA_batch15_sc33]


title: Embryo_3 EVT [DNA_batch15_sc34]


title: Embryo_7 Mesoderm [DNA_batch15_sc4]


title: Embryo_6 Non-neural ectoderm [DNA_batch15_sc3]


title: Embryo_2 CTB [DNA_batch15_sc35]


title: Embryo_4 STB [DNA_batch15_sc28]


title: Embryo_3 EVT [DNA_batch15_sc37]


title: Embryo_2 CTB [DNA_batch15_sc29]


title: Embryo_2 CTB [DNA_batch15_sc27]


title: Embryo_3 EVT [DNA_batch15_sc26]


title: Embryo_3 EVT [DNA_batch15_sc25]


title: Embryo_3 EVT [DNA_batch15_sc43]


title: Embryo_3 EVT [DNA_batch15_sc44]


title: Embryo_4 STB [DNA_batch15_sc42]


title: Embryo_3 EVT [DNA_batch15_sc36]


title: Embryo_2 CTB [DNA_batch15_sc40]


title: Embryo_3 EVT [DNA_batch15_sc24]


title: Embryo_6 Non-neural ectoderm [DNA_batch15_sc22]


title: Embryo_3 EVT [DNA_batch15_sc20]


title: Embryo_2 CTB [DNA_batch15_sc2]


title: Embryo_3 EVT [DNA_batch15_sc18]


title: Embryo_4 STB [DNA_batch15_sc17]


title: Embryo_12 Blood cells [DNA_batch15_sc16]


title: Embryo_3 EVT [DNA_batch15_sc14]


title: Embryo_2 CTB [DNA_batch15_sc15]


title: Embryo_2 CTB [DNA_batch15_sc10]


title: Embryo_6 Non-neural ectoderm [DNA_batch15_sc12]


title: Embryo_3 EVT [DNA_batch14_sc96]


title: Embryo_4 STB [DNA_batch15_sc19]


title: Embryo_3 EVT [DNA_batch15_sc11]


title: Embryo_4 STB [DNA_batch14_sc95]


title: Embryo_3 EVT [DNA_batch14_sc92]


title: Embryo_3 EVT [DNA_batch14_sc90]


title: Embryo_3 EVT [DNA_batch15_sc1]


title: Embryo_2 CTB [DNA_batch14_sc91]


title: Embryo_3 EVT [DNA_batch14_sc94]


title: Embryo_3 EVT [DNA_batch14_sc93]


title: Embryo_10 PS and derivative [DNA_batch14_sc9]


title: Embryo_3 EVT [DNA_batch15_sc23]


title: Embryo_3 EVT [DNA_batch14_sc88]


title: Embryo_6 Non-neural ectoderm [DNA_batch15_sc21]


title: Embryo_3 EVT [DNA_batch14_sc89]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch14_sc87]


title: Embryo_4 STB [DNA_batch14_sc85]


title: Embryo_3 EVT [DNA_batch14_sc86]


title: Embryo_3 EVT [DNA_batch14_sc83]


title: Embryo_6 Non-neural ectoderm [DNA_batch15_sc13]


title: Embryo_3 EVT [DNA_batch14_sc82]


title: Embryo_4 STB [DNA_batch14_sc84]


title: Embryo_3 EVT [DNA_batch14_sc81]


title: Embryo_3 EVT [DNA_batch14_sc80]


title: Embryo_1 EXMC [DNA_batch14_sc8]


title: Embryo_3 EVT [DNA_batch14_sc79]


title: Embryo_3 EVT [DNA_batch14_sc72]


title: Embryo_4 STB [DNA_batch14_sc74]


title: Embryo_2 CTB [DNA_batch14_sc78]


title: Embryo_3 EVT [DNA_batch14_sc75]


title: Embryo_3 EVT [DNA_batch14_sc73]


title: Embryo_3 EVT [DNA_batch14_sc71]


title: Embryo_3 EVT [DNA_batch14_sc77]


title: Embryo_3 EVT [DNA_batch14_sc76]


title: Embryo_3 EVT [DNA_batch14_sc70]


title: Embryo_6 Non-neural ectoderm [DNA_batch14_sc68]


title: Embryo_3 EVT [DNA_batch14_sc65]


title: Embryo_2 CTB [DNA_batch14_sc69]


title: Embryo_1 EXMC [DNA_batch14_sc7]


title: Embryo_3 EVT [DNA_batch14_sc64]


title: Embryo_5 EPI [DNA_batch14_sc63]


title: Embryo_5 EPI [DNA_batch14_sc67]


title: Embryo_6 Non-neural ectoderm [DNA_batch14_sc62]


title: Embryo_6 Non-neural ectoderm [DNA_batch14_sc61]


title: Embryo_4 STB [DNA_batch14_sc60]


title: Embryo_4 STB [DNA_batch14_sc56]


title: Embryo_6 Non-neural ectoderm [DNA_batch14_sc57]


title: Embryo_1 EXMC [DNA_batch14_sc6]


title: Embryo_2 CTB [DNA_batch14_sc55]


title: Embryo_4 STB [DNA_batch14_sc53]


title: Embryo_3 EVT [DNA_batch14_sc54]


title: Embryo_1 EXMC [DNA_batch14_sc52]


title: Embryo_6 Non-neural ectoderm [DNA_batch14_sc58]


title: Embryo_4 STB [DNA_batch14_sc50]


title: Embryo_4 STB [DNA_batch14_sc49]


title: Embryo_4 STB [DNA_batch14_sc59]


title: Embryo_6 Non-neural ectoderm [DNA_batch14_sc51]


title: Embryo_6 Non-neural ectoderm [DNA_batch14_sc48]


title: Embryo_4 STB [DNA_batch14_sc47]


title: Embryo_7 Mesoderm [DNA_batch14_sc46]


title: Embryo_10 PS and derivative [DNA_batch14_sc5]


title: Embryo_2 CTB [DNA_batch14_sc45]


title: Embryo_6 Non-neural ectoderm [DNA_batch14_sc44]


title: Embryo_6 Non-neural ectoderm [DNA_batch14_sc43]


title: Embryo_6 Non-neural ectoderm [DNA_batch14_sc66]


title: Embryo_6 Non-neural ectoderm [DNA_batch14_sc42]


title: Embryo_5 EPI [DNA_batch14_sc41]


title: Embryo_10 PS and derivative [DNA_batch14_sc4]


title: Embryo_4 STB [DNA_batch14_sc38]


title: Embryo_2 CTB [DNA_batch14_sc40]


title: Embryo_6 Non-neural ectoderm [DNA_batch14_sc37]


title: Embryo_2 CTB [DNA_batch14_sc39]


title: Embryo_3 EVT [DNA_batch14_sc35]


title: Embryo_6 Non-neural ectoderm [DNA_batch14_sc36]


title: Embryo_2 CTB [DNA_batch14_sc34]


title: Embryo_2 CTB [DNA_batch14_sc32]


title: Embryo_4 STB [DNA_batch14_sc33]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch14_sc31]


title: Embryo_4 STB [DNA_batch14_sc3]


title: Embryo_6 Non-neural ectoderm [DNA_batch14_sc26]


title: Embryo_6 Non-neural ectoderm [DNA_batch14_sc29]


title: Embryo_2 CTB [DNA_batch14_sc23]


title: Embryo_10 PS and derivative [DNA_batch14_sc22]


title: Embryo_3 EVT [DNA_batch14_sc27]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch14_sc24]


title: Embryo_6 Non-neural ectoderm [DNA_batch14_sc28]


title: Embryo_4 STB [DNA_batch14_sc25]


title: Embryo_10 PS and derivative [DNA_batch14_sc20]


title: Embryo_10 PS and derivative [DNA_batch14_sc21]


title: Embryo_1 EXMC [DNA_batch14_sc19]


title: Embryo_1 EXMC [DNA_batch14_sc18]


title: Embryo_3 EVT [DNA_batch14_sc17]


title: Embryo_1 EXMC [DNA_batch14_sc16]


title: Embryo_4 STB [DNA_batch14_sc15]


title: Embryo_1 EXMC [DNA_batch14_sc14]


title: Embryo_1 EXMC [DNA_batch14_sc12]


title: Embryo_10 PS and derivative [DNA_batch14_sc13]


title: Embryo_2 CTB [DNA_batch13_sc93]


title: Embryo_2 CTB [DNA_batch13_sc94]


title: Embryo_4 STB [DNA_batch14_sc1]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch13_sc92]


title: Embryo_1 EXMC [DNA_batch14_sc10]


title: Embryo_7 Mesoderm [DNA_batch14_sc30]


title: Embryo_2 CTB [DNA_batch13_sc91]


title: Embryo_3 EVT [DNA_batch13_sc9]


title: Embryo_4 STB [DNA_batch13_sc89]


title: Embryo_1 EXMC [DNA_batch14_sc2]


title: Embryo_1 EXMC [DNA_batch13_sc83]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch13_sc87]


title: Embryo_1 EXMC [DNA_batch13_sc86]


title: Embryo_3 EVT [DNA_batch13_sc84]


title: Embryo_3 EVT [DNA_batch13_sc85]


title: Embryo_3 EVT [DNA_batch13_sc81]


title: Embryo_2 CTB [DNA_batch13_sc80]


title: Embryo_3 EVT [DNA_batch13_sc88]


title: Embryo_1 EXMC [DNA_batch14_sc11]


title: Embryo_3 EVT [DNA_batch13_sc8]


title: Embryo_3 EVT [DNA_batch13_sc77]


title: Embryo_3 EVT [DNA_batch13_sc76]


title: Embryo_4 STB [DNA_batch13_sc90]


title: Embryo_2 CTB [DNA_batch13_sc72]


title: Embryo_3 EVT [DNA_batch13_sc68]


title: Embryo_6 Non-neural ectoderm [DNA_batch13_sc7]


title: Embryo_3 EVT [DNA_batch13_sc74]


title: Embryo_2 CTB [DNA_batch13_sc73]


title: Embryo_2 CTB [DNA_batch13_sc79]


title: Embryo_1 EXMC [DNA_batch13_sc69]


title: Embryo_1 EXMC [DNA_batch13_sc67]


title: Embryo_1 EXMC [DNA_batch13_sc71]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch13_sc75]


title: Embryo_3 EVT [DNA_batch13_sc65]


title: Embryo_6 Non-neural ectoderm [DNA_batch13_sc63]


title: Embryo_3 EVT [DNA_batch13_sc70]


title: Embryo_1 EXMC [DNA_batch13_sc66]


title: Embryo_3 EVT [DNA_batch13_sc82]


title: Embryo_2 CTB [DNA_batch13_sc78]


title: Embryo_1 EXMC [DNA_batch13_sc62]


title: Embryo_2 CTB [DNA_batch13_sc61]


title: Embryo_3 EVT [DNA_batch13_sc58]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch13_sc56]


title: Embryo_2 CTB [DNA_batch13_sc60]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch13_sc59]


title: Embryo_3 EVT [DNA_batch13_sc57]


title: Embryo_4 STB [DNA_batch13_sc55]


title: Embryo_1 EXMC [DNA_batch13_sc53]


title: Embryo_5 EPI [DNA_batch13_sc50]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch13_sc51]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch13_sc52]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch13_sc49]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch13_sc48]


title: Embryo_3 EVT [DNA_batch13_sc47]


title: Embryo_2 CTB [DNA_batch13_sc64]


title: Embryo_3 EVT [DNA_batch13_sc5]


title: Embryo_11 Endoderm [DNA_batch13_sc43]


title: Embryo_1 EXMC [DNA_batch13_sc45]


title: Embryo_3 EVT [DNA_batch13_sc42]


title: Embryo_1 EXMC [DNA_batch13_sc44]


title: Embryo_4 STB [DNA_batch13_sc6]


title: Embryo_3 EVT [DNA_batch13_sc41]


title: Embryo_1 EXMC [DNA_batch13_sc40]


title: Embryo_3 EVT [DNA_batch13_sc4]


title: Embryo_1 EXMC [DNA_batch13_sc39]


title: Embryo_1 EXMC [DNA_batch13_sc37]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch13_sc54]


title: Embryo_1 EXMC [DNA_batch13_sc38]


title: Embryo_1 EXMC [DNA_batch13_sc35]


title: Embryo_1 EXMC [DNA_batch13_sc36]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch13_sc46]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch13_sc29]


title: Embryo_1 EXMC [DNA_batch13_sc30]


title: Embryo_1 EXMC [DNA_batch13_sc31]


title: Embryo_1 EXMC [DNA_batch13_sc3]


title: Embryo_2 CTB [DNA_batch13_sc34]


title: Embryo_1 EXMC [DNA_batch13_sc32]


title: Embryo_1 EXMC [DNA_batch13_sc23]


title: Embryo_5 EPI [DNA_batch13_sc27]


title: Embryo_3 EVT [DNA_batch13_sc25]


title: Embryo_1 EXMC [DNA_batch13_sc21]


title: Embryo_3 EVT [DNA_batch13_sc22]


title: Embryo_7 Mesoderm [DNA_batch13_sc26]


title: Embryo_3 EVT [DNA_batch13_sc24]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch13_sc28]


title: Embryo_3 EVT [DNA_batch13_sc20]


title: Embryo_6 Non-neural ectoderm [DNA_batch13_sc18]


title: Embryo_3 EVT [DNA_batch13_sc19]


title: Embryo_3 EVT [DNA_batch13_sc2]


title: Embryo_6 Non-neural ectoderm [DNA_batch13_sc17]


title: Embryo_3 EVT [DNA_batch13_sc16]


title: Embryo_2 CTB [DNA_batch13_sc33]


title: Embryo_3 EVT [DNA_batch13_sc10]


title: Embryo_3 EVT [DNA_batch13_sc15]


title: Embryo_2 CTB [DNA_batch13_sc1]


title: Embryo_3 EVT [DNA_batch13_sc11]


title: Embryo_6 Non-neural ectoderm [DNA_batch13_sc13]


title: Embryo_3 EVT [DNA_batch13_sc14]


title: Embryo_3 EVT [DNA_batch12_sc96]


title: Embryo_3 EVT [DNA_batch13_sc12]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch12_sc95]


title: Embryo_2 CTB [DNA_batch12_sc94]


title: Embryo_2 CTB [DNA_batch12_sc92]


title: Embryo_3 EVT [DNA_batch12_sc91]


title: Embryo_2 CTB [DNA_batch12_sc90]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch12_sc89]


title: Embryo_3 EVT [DNA_batch12_sc87]


title: Embryo_3 EVT [DNA_batch12_sc88]


title: Embryo_3 EVT [DNA_batch12_sc86]


title: Embryo_3 EVT [DNA_batch12_sc80]


title: Embryo_3 EVT [DNA_batch12_sc83]


title: Embryo_3 EVT [DNA_batch12_sc84]


title: Embryo_2 CTB [DNA_batch12_sc85]


title: Embryo_3 EVT [DNA_batch12_sc81]


title: Embryo_3 EVT [DNA_batch12_sc82]


title: Embryo_3 EVT [DNA_batch12_sc79]


title: Embryo_3 EVT [DNA_batch12_sc8]


title: Embryo_3 EVT [DNA_batch12_sc93]


title: Embryo_2 CTB [DNA_batch12_sc78]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch12_sc76]


title: Embryo_12 Blood cells [DNA_batch12_sc77]


title: Embryo_2 CTB [DNA_batch12_sc9]


title: Embryo_2 CTB [DNA_batch12_sc75]


title: Embryo_2 CTB [DNA_batch12_sc65]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch12_sc70]


title: Embryo_3 EVT [DNA_batch12_sc74]


title: Embryo_2 CTB [DNA_batch12_sc71]


title: Embryo_3 EVT [DNA_batch12_sc72]


title: Embryo_3 EVT [DNA_batch12_sc69]


title: Embryo_1 EXMC [DNA_batch12_sc7]


title: Embryo_2 CTB [DNA_batch12_sc61]


title: Embryo_3 EVT [DNA_batch12_sc68]


title: Embryo_2 CTB [DNA_batch12_sc63]


title: Embryo_2 CTB [DNA_batch12_sc62]


title: Embryo_3 EVT [DNA_batch12_sc73]


title: Embryo_1 EXMC [DNA_batch12_sc56]


title: Embryo_2 CTB [DNA_batch12_sc58]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch12_sc59]


title: Embryo_3 EVT [DNA_batch12_sc57]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch12_sc55]


title: Embryo_3 EVT [DNA_batch12_sc53]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch12_sc67]


title: Embryo_3 EVT [DNA_batch12_sc66]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch12_sc64]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch12_sc51]


title: Embryo_2 CTB [DNA_batch12_sc50]


title: Embryo_6 Non-neural ectoderm [DNA_batch12_sc5]


title: Embryo_3 EVT [DNA_batch12_sc48]


title: Embryo_2 CTB [DNA_batch12_sc49]


title: Embryo_4 STB [DNA_batch12_sc47]


title: Embryo_3 EVT [DNA_batch12_sc52]


title: Embryo_1 EXMC [DNA_batch12_sc46]


title: Embryo_2 CTB [DNA_batch12_sc60]


title: Embryo_3 EVT [DNA_batch12_sc42]


title: Embryo_1 EXMC [DNA_batch12_sc44]


title: Embryo_1 EXMC [DNA_batch12_sc39]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch12_sc41]


title: Embryo_1 EXMC [DNA_batch12_sc38]


title: Embryo_2 CTB [DNA_batch12_sc37]


title: Embryo_4 STB [DNA_batch12_sc45]


title: Embryo_6 Non-neural ectoderm [DNA_batch12_sc4]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch12_sc43]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch12_sc54]


title: Embryo_3 EVT [DNA_batch12_sc40]


title: Embryo_2 CTB [DNA_batch12_sc33]


title: Embryo_5 EPI [DNA_batch12_sc36]


title: Embryo_2 CTB [DNA_batch12_sc3]


title: Embryo_1 EXMC [DNA_batch12_sc35]


title: Embryo_4 STB [DNA_batch12_sc31]


title: Embryo_1 EXMC [DNA_batch12_sc32]


title: Embryo_11 Endoderm [DNA_batch12_sc29]


title: Embryo_1 EXMC [DNA_batch12_sc28]


title: Embryo_11 Endoderm [DNA_batch12_sc27]


title: Embryo_5 EPI [DNA_batch12_sc26]


title: Embryo_6 Non-neural ectoderm [DNA_batch12_sc25]


title: Embryo_3 EVT [DNA_batch12_sc24]


title: Embryo_3 EVT [DNA_batch12_sc23]


title: Embryo_4 STB [DNA_batch12_sc22]


title: Embryo_3 EVT [DNA_batch12_sc21]


title: Embryo_3 EVT [DNA_batch12_sc34]


title: Embryo_1 EXMC [DNA_batch12_sc2]


title: Embryo_2 CTB [DNA_batch12_sc19]


title: Embryo_3 EVT [DNA_batch12_sc20]


title: Embryo_1 EXMC [DNA_batch12_sc18]


title: Embryo_2 CTB [DNA_batch12_sc11]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc94]


title: Embryo_2 CTB [DNA_batch12_sc15]


title: Embryo_2 CTB [DNA_batch12_sc12]


title: Embryo_7 Mesoderm [DNA_batch11_sc92]


title: Embryo_2 CTB [DNA_batch12_sc10]


title: Embryo_1 EXMC [DNA_batch12_sc16]


title: Embryo_6 Non-neural ectoderm [DNA_batch11_sc95]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch12_sc17]


title: Embryo_3 EVT [DNA_batch11_sc96]


title: Embryo_1 EXMC [DNA_batch12_sc1]


title: Embryo_3 EVT [DNA_batch12_sc13]


title: Embryo_2 CTB [DNA_batch11_sc9]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc89]


title: Embryo_7 Mesoderm [DNA_batch11_sc91]


title: Embryo_8 Neural ectoderm [DNA_batch11_sc90]


title: Embryo_8 Neural ectoderm [DNA_batch11_sc86]


title: Embryo_1 EXMC [DNA_batch11_sc88]


title: Embryo_2 CTB [DNA_batch11_sc87]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc85]


title: Embryo_7 Mesoderm [DNA_batch11_sc84]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc82]


title: Embryo_7 Mesoderm [DNA_batch11_sc81]


title: Embryo_2 CTB [DNA_batch12_sc14]


title: Embryo_8 Neural ectoderm [DNA_batch11_sc93]


title: Embryo_6 Non-neural ectoderm [DNA_batch11_sc80]


title: Embryo_3 EVT [DNA_batch11_sc8]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc79]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc74]


title: Embryo_6 Non-neural ectoderm [DNA_batch11_sc76]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc77]


title: Embryo_8 Neural ectoderm [DNA_batch11_sc72]


title: Embryo_7 Mesoderm [DNA_batch11_sc71]


title: Embryo_7 Mesoderm [DNA_batch11_sc75]


title: Embryo_2 CTB [DNA_batch11_sc7]


title: Embryo_8 Neural ectoderm [DNA_batch11_sc69]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc65]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc67]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc63]


title: Embryo_8 Neural ectoderm [DNA_batch11_sc70]


title: Embryo_8 Neural ectoderm [DNA_batch11_sc61]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc83]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc60]


title: Embryo_8 Neural ectoderm [DNA_batch11_sc59]


title: Embryo_1 EXMC [DNA_batch11_sc6]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc58]


title: Embryo_7 Mesoderm [DNA_batch11_sc57]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc56]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc54]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc55]


title: Embryo_7 Mesoderm [DNA_batch11_sc53]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc51]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc50]


title: Embryo_3 EVT [DNA_batch11_sc68]


title: Embryo_8 Neural ectoderm [DNA_batch11_sc66]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc52]


title: Embryo_2 CTB [DNA_batch11_sc73]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc62]


title: Embryo_2 CTB [DNA_batch11_sc5]


title: Embryo_1 EXMC [DNA_batch11_sc47]


title: Embryo_11 Endoderm [DNA_batch11_sc48]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc49]


title: Embryo_2 CTB [DNA_batch11_sc44]


title: Embryo_4 STB [DNA_batch11_sc40]


title: Embryo_8 Neural ectoderm [DNA_batch11_sc45]


title: Embryo_2 CTB [DNA_batch11_sc43]


title: Embryo_11 Endoderm [DNA_batch11_sc42]


title: Embryo_3 EVT [DNA_batch11_sc38]


title: Embryo_11 Endoderm [DNA_batch11_sc39]


title: Embryo_2 CTB [DNA_batch11_sc4]


title: Embryo_4 STB [DNA_batch11_sc37]


title: Embryo_1 EXMC [DNA_batch11_sc41]


title: Embryo_1 EXMC [DNA_batch11_sc36]


title: Embryo_3 EVT [DNA_batch11_sc35]


title: Embryo_3 EVT [DNA_batch11_sc34]


title: Embryo_3 EVT [DNA_batch11_sc31]


title: Embryo_4 STB [DNA_batch11_sc32]


title: Embryo_3 EVT [DNA_batch11_sc3]


title: Embryo_3 EVT [DNA_batch11_sc26]


title: Embryo_4 STB [DNA_batch11_sc24]


title: Embryo_3 EVT [DNA_batch11_sc30]


title: Embryo_3 EVT [DNA_batch11_sc33]


title: Embryo_4 STB [DNA_batch11_sc28]


title: Embryo_2 CTB [DNA_batch11_sc20]


title: Embryo_3 EVT [DNA_batch11_sc25]


title: Embryo_1 EXMC [DNA_batch11_sc21]


title: Embryo_2 CTB [DNA_batch11_sc22]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc46]


title: Embryo_3 EVT [DNA_batch11_sc19]


title: Embryo_2 CTB [DNA_batch11_sc17]


title: Embryo_2 CTB [DNA_batch11_sc29]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch11_sc18]


title: Embryo_2 CTB [DNA_batch11_sc2]


title: Embryo_5 EPI [DNA_batch11_sc27]


title: Embryo_3 EVT [DNA_batch11_sc16]


title: Embryo_2 CTB [DNA_batch11_sc15]


title: Embryo_1 EXMC [DNA_batch11_sc23]


title: Embryo_1 EXMC [DNA_batch11_sc14]


title: Embryo_2 CTB [DNA_batch11_sc12]


title: Embryo_3 EVT [DNA_batch10_sc94]


title: Embryo_2 CTB [DNA_batch11_sc11]


title: Embryo_1 EXMC [DNA_batch11_sc1]


title: Embryo_3 EVT [DNA_batch11_sc10]


title: Embryo_3 EVT [DNA_batch10_sc93]


title: Embryo_4 STB [DNA_batch10_sc92]


title: Embryo_3 EVT [DNA_batch10_sc90]


title: Embryo_2 CTB [DNA_batch10_sc91]


title: Embryo_10 PS and derivative [DNA_batch10_sc9]


title: Embryo_3 EVT [DNA_batch10_sc88]


title: Embryo_2 CTB [DNA_batch10_sc89]


title: Embryo_3 EVT [DNA_batch10_sc87]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch10_sc86]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch10_sc85]


title: Embryo_3 EVT [DNA_batch10_sc82]


title: Embryo_2 CTB [DNA_batch10_sc84]


title: Embryo_1 EXMC [DNA_batch10_sc8]


title: Embryo_2 CTB [DNA_batch10_sc83]


title: Embryo_1 EXMC [DNA_batch10_sc81]


title: Embryo_4 STB [DNA_batch10_sc79]


title: Embryo_4 STB [DNA_batch10_sc76]


title: Embryo_2 CTB [DNA_batch10_sc77]


title: Embryo_3 EVT [DNA_batch10_sc78]


title: Embryo_3 EVT [DNA_batch11_sc13]


title: Embryo_2 CTB [DNA_batch10_sc75]


title: Embryo_3 EVT [DNA_batch10_sc74]


title: Embryo_3 EVT [DNA_batch10_sc73]


title: Embryo_3 EVT [DNA_batch10_sc72]


title: Embryo_1 EXMC [DNA_batch10_sc68]


title: Embryo_12 Blood cells [DNA_batch10_sc71]


title: Embryo_3 EVT [DNA_batch10_sc70]


title: Embryo_2 CTB [DNA_batch10_sc69]


title: Embryo_3 EVT [DNA_batch10_sc64]


title: Embryo_3 EVT [DNA_batch10_sc63]


title: Embryo_2 CTB [DNA_batch10_sc7]


title: Embryo_1 EXMC [DNA_batch10_sc66]


title: Embryo_2 CTB [DNA_batch10_sc67]


title: Embryo_2 CTB [DNA_batch10_sc65]


title: Embryo_1 EXMC [DNA_batch10_sc62]


title: Embryo_2 CTB [DNA_batch10_sc80]


title: Embryo_1 EXMC [DNA_batch10_sc60]


title: Embryo_1 EXMC [DNA_batch10_sc61]


title: Embryo_1 EXMC [DNA_batch10_sc6]


title: Embryo_3 EVT [DNA_batch10_sc55]


title: Embryo_1 EXMC [DNA_batch10_sc54]


title: Embryo_3 EVT [DNA_batch10_sc53]


title: Embryo_1 EXMC [DNA_batch10_sc59]


title: Embryo_3 EVT [DNA_batch10_sc50]


title: Embryo_3 EVT [DNA_batch10_sc48]


title: Embryo_1 EXMC [DNA_batch10_sc5]


title: Embryo_1 EXMC [DNA_batch10_sc52]


title: Embryo_3 EVT [DNA_batch10_sc56]


title: Embryo_4 STB [DNA_batch10_sc58]


title: Embryo_1 EXMC [DNA_batch10_sc45]


title: Embryo_3 EVT [DNA_batch10_sc47]


title: Embryo_3 EVT [DNA_batch10_sc44]


title: Embryo_3 EVT [DNA_batch10_sc46]


title: Embryo_3 EVT [DNA_batch10_sc43]


title: Embryo_3 EVT [DNA_batch10_sc40]


title: Embryo_10 PS and derivative [DNA_batch10_sc4]


title: Embryo_3 EVT [DNA_batch10_sc42]


title: Embryo_1 EXMC [DNA_batch10_sc39]


title: Embryo_1 EXMC [DNA_batch10_sc38]


title: Embryo_1 EXMC [DNA_batch10_sc37]


title: Embryo_3 EVT [DNA_batch10_sc57]


title: Embryo_1 EXMC [DNA_batch10_sc35]


title: Embryo_3 EVT [DNA_batch10_sc36]


title: Embryo_5 EPI [DNA_batch10_sc32]


title: Embryo_1 EXMC [DNA_batch10_sc33]


title: Embryo_1 EXMC [DNA_batch10_sc30]


title: Embryo_1 EXMC [DNA_batch10_sc51]


title: Embryo_1 EXMC [DNA_batch10_sc49]


title: Embryo_1 EXMC [DNA_batch10_sc28]


title: Embryo_3 EVT [DNA_batch10_sc34]


title: Embryo_1 EXMC [DNA_batch10_sc3]


title: Embryo_1 EXMC [DNA_batch10_sc27]


title: Embryo_1 EXMC [DNA_batch10_sc26]


title: Embryo_1 EXMC [DNA_batch10_sc29]


title: Embryo_10 PS and derivative [DNA_batch10_sc24]


title: Embryo_1 EXMC [DNA_batch10_sc25]


title: Embryo_1 EXMC [DNA_batch10_sc22]


title: Embryo_1 EXMC [DNA_batch10_sc21]


title: Embryo_1 EXMC [DNA_batch10_sc20]


title: Embryo_1 EXMC [DNA_batch10_sc41]


title: Embryo_1 EXMC [DNA_batch10_sc2]


title: Embryo_1 EXMC [DNA_batch10_sc19]


title: Embryo_2 CTB [DNA_batch10_sc18]


title: Embryo_1 EXMC [DNA_batch10_sc31]


title: Embryo_5 EPI [DNA_batch10_sc14]


title: Embryo_10 PS and derivative [DNA_batch10_sc16]


title: Embryo_1 EXMC [DNA_batch10_sc13]


title: Embryo_1 EXMC [DNA_batch10_sc15]


title: Embryo_1 EXMC [DNA_batch10_sc12]


title: Embryo_4 STB [DNA_batch10_sc10]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch9_sc94]


title: Embryo_1 EXMC [DNA_batch9_sc96]


title: Embryo_1 EXMC [DNA_batch9_sc95]


title: Embryo_5 EPI [DNA_batch10_sc1]


title: Embryo_1 EXMC [DNA_batch10_sc11]


title: Embryo_11 Endoderm [DNA_batch9_sc92]


title: Embryo_1 EXMC [DNA_batch9_sc93]


title: Embryo_2 CTB [DNA_batch9_sc91]


title: Embryo_1 EXMC [DNA_batch9_sc90]


title: Embryo_10 PS and derivative [DNA_batch10_sc23]


title: Embryo_1 EXMC [DNA_batch9_sc84]


title: Embryo_3 EVT [DNA_batch9_sc81]


title: Embryo_7 Mesoderm [DNA_batch9_sc82]


title: Embryo_1 EXMC [DNA_batch9_sc9]


title: Embryo_1 EXMC [DNA_batch9_sc80]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch9_sc87]


title: Embryo_1 EXMC [DNA_batch9_sc89]


title: Embryo_1 EXMC [DNA_batch9_sc86]


title: Embryo_5 EPI [DNA_batch10_sc17]


title: Embryo_1 EXMC [DNA_batch9_sc79]


title: Embryo_10 PS and derivative [DNA_batch9_sc8]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch9_sc85]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch9_sc73]


title: Embryo_3 EVT [DNA_batch9_sc76]


title: Embryo_1 EXMC [DNA_batch9_sc71]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch9_sc88]


title: Embryo_1 EXMC [DNA_batch9_sc72]


title: Embryo_7 Mesoderm [DNA_batch9_sc77]


title: Embryo_1 EXMC [DNA_batch9_sc7]


title: Embryo_7 Mesoderm [DNA_batch9_sc69]


title: Embryo_1 EXMC [DNA_batch9_sc75]


title: Embryo_1 EXMC [DNA_batch9_sc74]


title: Embryo_7 Mesoderm [DNA_batch9_sc70]


title: Embryo_1 EXMC [DNA_batch9_sc83]


title: Embryo_3 EVT [DNA_batch9_sc68]


title: Embryo_1 EXMC [DNA_batch9_sc67]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch9_sc65]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch9_sc64]


title: Embryo_1 EXMC [DNA_batch9_sc66]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch9_sc63]


title: Embryo_1 EXMC [DNA_batch9_sc78]


title: Embryo_3 EVT [DNA_batch9_sc62]


title: Embryo_1 EXMC [DNA_batch9_sc6]


title: Embryo_1 EXMC [DNA_batch9_sc61]


title: Embryo_1 EXMC [DNA_batch9_sc56]


title: Embryo_4 STB [DNA_batch9_sc55]


title: Embryo_6 Non-neural ectoderm [DNA_batch9_sc59]


title: Embryo_2 CTB [DNA_batch9_sc57]


title: SP.TNF.27

type: RNA

city: New York

first: James

last: Krueger

state: NY

address: 1230 York Avenue

department: Center for Clinical and Translational Science

country: USA

institute: The Rockefeller University

description:
2 Amplification cycles
4365661

hyb_protocol: GeneChip Affymetrix protocol

scan_protocol: Hewlett–PackardGene Array Scanner

data_processing: GCRMA (usingGcrma package from R/Bioconductor).

label: biotin

organism: Homo sapiens

source_name: keratinocytes

label_protocol: GeneChip Affymetrix protocol

extract_protocol: QIAGEN Rneasy Kit

tag: subjectid

tag: group

value: keratinocytes


title: SP.IL17.24

description:
2 Amplification cycles
4327852


title: Embryo_1 EXMC [DNA_batch9_sc58]


title: SP.IL17.23

description:
2 Amplification cycles
4327852


title: Embryo_5 EPI [DNA_batch9_sc53]


title: SP.TNF.25

description:
2 Amplification cycles
4365661


title: SA.IL17.18

description:
2 Amplification cycles
4327852


title: SA.TNF.20

description:
2 Amplification cycles
4327852


title: Embryo_1 EXMC [DNA_batch9_sc52]


title: SP.TNF.26

description:
2 Amplification cycles
4365661


title: SA.IL17.17

description:
2 Amplification cycles
4327852


title: SA.TNF.21

description:
2 Amplification cycles
4327852


title: SP.IL17.22

description:
2 Amplification cycles
4327852


title: SP.13

description:
2 Amplification cycles
4353137

value: SP


title: Embryo_6 Non-neural ectoderm [DNA_batch9_sc51]


title: SA.IL17.16

description:
2 Amplification cycles
4327852


title: SA.11

description:
2 Amplification cycles
4353137

value: SA


title: Embryo_3 EVT [DNA_batch9_sc50]


title: SA.12

description:
2 Amplification cycles
4353137


title: Embryo_1 EXMC [DNA_batch9_sc5]


title: Embryo_1 EXMC [DNA_batch9_sc54]


title: Embryo_4 STB [DNA_batch9_sc49]


title: SA.10

description:
2 Amplification cycles
4353137


title: Embryo_1 EXMC [DNA_batch9_sc48]


title: SP.15

description:
2 Amplification cycles
4353137


title: Embryo_1 EXMC [DNA_batch9_sc47]


title: TNF.8

description:
2 Amplification cycles
4351437

value: TNF


title: Embryo_2 CTB [DNA_batch9_sc46]


title: Embryo_3 EVT [DNA_batch9_sc45]


title: SP.14

description:
2 Amplification cycles
4353137


title: Embryo_6 Non-neural ectoderm [DNA_batch9_sc44]


title: SA.TNF.19

description:
2 Amplification cycles
4327852


title: TNF.9

description:
2 Amplification cycles
4351437


title: TNF.7

description:
2 Amplification cycles
4351437


title: Embryo_3 EVT [DNA_batch9_sc42]


title: Ctrl.3

description:
2 Amplification cycles
4365661

value: Ctrl


title: IL17.5

description:
2 Amplification cycles
4351437


title: IL17.4

description:
2 Amplification cycles
4351437


title: Embryo_1 EXMC [DNA_batch9_sc41]


title: Embryo_1 EXMC [DNA_batch9_sc40]


title: Embryo_1 EXMC [DNA_batch9_sc4]


title: Embryo_1 EXMC [DNA_batch9_sc39]


title: Embryo_1 EXMC [DNA_batch9_sc43]


title: Embryo_1 EXMC [DNA_batch9_sc37]


title: Embryo_1 EXMC [DNA_batch9_sc36]


title: Embryo_10 PS and derivative [DNA_batch9_sc35]


title: Embryo_1 EXMC [DNA_batch9_sc34]


title: Embryo_1 EXMC [DNA_batch9_sc33]


title: IL17.6

description:
2 Amplification cycles
4351437


title: Untreated.Control.Normal.1016010

scan_protocol: Hewlett–Packard Gene Array Scanner

data_processing: GCRMA (using gcrma package from R/Bioconductor).

source_name: psoriasis patient

tag: disease state

value: psoriasis

tag: subject

tag: timepoint

value: Control

tag: tissue

value: Normal

tag: specimen

value: Skin


title: Ctrl.1

description:
2 Amplification cycles
4365661


title: Ctrl.2

description:
2 Amplification cycles
4365661


title: Embryo_4 STB [DNA_batch9_sc31]


title: Untreated.Control.Normal.1016016


title: Untreated.Control.Normal.1016012


title: Untreated.Control.Normal.1016017


title: Embryo_10 PS and derivative [DNA_batch9_sc30]


title: Embryo_1 EXMC [DNA_batch9_sc32]


title: Untreated.Control.Normal.1016007


title: Untreated.Control.Normal.1016006


title: Untreated.Control.Normal.1016004


title: Untreated.Control.Normal.1016003


title: Untreated.Control.Normal.1016011


title: Untreated.Control.Normal.1016013


title: Untreated.Control.Normal.1016015


title: Untreated.Control.Normal.1016014


title: Untreated.Control.Normal.1016008


title: Embryo_1 EXMC [DNA_batch9_sc3]


title: Embryo_1 EXMC [DNA_batch9_sc28]


title: Embryo_10 PS and derivative [DNA_batch9_sc29]


title: Untreated.Control.Normal.1016009


title: Embryo_3 EVT [DNA_batch9_sc26]


title: Embryo_1 EXMC [DNA_batch9_sc25]


title: Embryo_2 CTB [DNA_batch9_sc27]


title: Embryo_2 CTB [DNA_batch9_sc21]


title: Embryo_1 EXMC [DNA_batch9_sc23]


title: Embryo_10 PS and derivative [DNA_batch9_sc22]


title: Embryo_2 CTB [DNA_batch9_sc20]


title: Embryo_2 CTB [DNA_batch9_sc18]


title: Embryo_10 PS and derivative [DNA_batch9_sc19]


title: Embryo_1 EXMC [DNA_batch9_sc2]


title: Untreated.Control.Normal.1016001


title: Secukinumab.W12.NL.1014021

value: Secukinumab

value: NL


title: Untreated.Control.Normal.1016005

value: Untreated


title: Embryo_1 EXMC [DNA_batch9_sc24]


title: Secukinumab.W52.NL.1014021


title: Secukinumab.BL.NL.1014021

value: BL


title: Embryo_1 EXMC [DNA_batch9_sc16]


title: Untreated.Control.Normal.1016002


title: Secukinumab.BL.LS.1014021

value: LS


title: Secukinumab.W52.LS.1014021


title: Secukinumab.W12.LS.1014021


title: Embryo_1 EXMC [DNA_batch9_sc15]

value: in vitro


title: Secukinumab.W52.NL.1014019


title: Placebo.W12.LS.1014020

value: Placebo


title: Secukinumab.BL.NL.1014019


title: Secukinumab.BL.LS.1014019


title: Secukinumab.W52.LS.1014019


title: Secukinumab.W12.LS.1014019


title: Placebo.W12.NL.1014020


title: Embryo_1 EXMC [DNA_batch9_sc14]

value: Embryo

value: WT


title: Embryo_1 EXMC [DNA_batch9_sc12]


title: Embryo_10 PS and derivative [DNA_batch9_sc17]


title: Embryo_1 EXMC [DNA_batch9_sc11]


title: Placebo.BL.NL.1014018


title: Placebo.BL.NL.1014020


title: Placebo.W12.LS.1014018


title: Placebo.W52.LS.1014018


title: Embryo_10 PS and derivative [DNA_batch9_sc10]


title: Embryo_1 EXMC [DNA_batch9_sc1]


title: Embryo_7 Mesoderm [DNA_batch8_sc94]


title: Embryo_1 EXMC [DNA_batch9_sc13]


title: Placebo.W52.NL.1014018


title: Embryo_7 Mesoderm [DNA_batch8_sc95]


title: Embryo_7 Mesoderm [DNA_batch8_sc93]


title: Embryo_1 EXMC [DNA_batch8_sc91]


title: Secukinumab.W12.LS.1014017


title: Placebo.W12.NL.1014018


title: Secukinumab.BL.NL.1014017


title: Embryo_1 EXMC [DNA_batch8_sc9]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc90]


title: Embryo_3 EVT [DNA_batch8_sc88]


title: Secukinumab.W52.NL.1014017


title: Secukinumab.BL.LS.1014017


title: Secukinumab.W52.LS.1014017


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc89]


title: Embryo_7 Mesoderm [DNA_batch8_sc87]


title: Embryo_1 EXMC [DNA_batch8_sc86]


title: Placebo.BL.LS.1014018


title: Embryo_3 EVT [DNA_batch8_sc85]


title: Embryo_7 Mesoderm [DNA_batch8_sc83]


title: Secukinumab.W12.LS.1014013


title: Embryo_7 Mesoderm [DNA_batch8_sc84]


title: Secukinumab.W12.NL.1014013


title: Secukinumab.W12.NL.1014017


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc82]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc81]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc80]


title: Embryo_6 Non-neural ectoderm [DNA_batch8_sc78]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc77]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc79]


title: Embryo_1 EXMC [DNA_batch8_sc8]


title: Secukinumab.W52.NL.1014013


title: Placebo.W12.NL.1014012


title: Secukinumab.W52.LS.1014013


title: Placebo.BL.LS.1014012


title: Placebo.BL.NL.1014012


title: Placebo.W52.LS.1014012


title: Placebo.W52.NL.1014012


title: Placebo.W12.LS.1014012


title: Secukinumab.W52.LS.1014011


title: Secukinumab.BL.NL.1014011


title: Secukinumab.W12.LS.1014011


title: Secukinumab.W52.NL.1014011


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc75]


title: Embryo_5 EPI [DNA_batch8_sc74]


title: Embryo_7 Mesoderm [DNA_batch8_sc70]


title: Embryo_7 Mesoderm [DNA_batch8_sc73]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc71]


title: Embryo_1 EXMC [DNA_batch8_sc7]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc69]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc67]


title: Embryo_1 EXMC [DNA_batch8_sc68]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc65]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc66]


title: Secukinumab.W12.NL.1014011


title: Secukinumab.W12.NL.1014008


title: Secukinumab.W52.NL.1014008


title: Embryo_7 Mesoderm [DNA_batch8_sc64]


title: Embryo_6 Non-neural ectoderm [DNA_batch8_sc62]


title: Secukinumab.W52.LS.1014008


title: Embryo_6 Non-neural ectoderm [DNA_batch8_sc61]


title: Secukinumab.W12.LS.1014008


title: Secukinumab.BL.LS.1014011


title: Placebo.BL.NL.1014005


title: Placebo.W12.NL.1014005


title: Embryo_2 CTB [DNA_batch8_sc6]


title: Embryo_1 EXMC [DNA_batch8_sc60]


title: Placebo.BL.LS.1014005


title: Placebo.BL.LS.1013002


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc63]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc56]


title: Placebo.W52.LS.1014005


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc55]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc57]


title: Placebo.BL.NL.1013002


title: Placebo.W12.LS.1014005


title: Placebo.W52.LS.1013002


title: Placebo.W12.NL.1013002


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc59]


title: Placebo.W52.LS.1012009


title: Placebo.W12.NL.1012009


title: Placebo.BL.NL.1012009


title: Placebo.W12.LS.1013002


title: Placebo.W52.NL.1012009


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc51]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc54]


title: Embryo_7 Mesoderm [DNA_batch8_sc52]


title: Placebo.BL.LS.1012009


title: Placebo.W52.NL.1013002


title: Placebo.W12.LS.1012009


title: Embryo_1 EXMC [DNA_batch8_sc50]


title: Embryo_1 EXMC [DNA_batch8_sc5]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc49]


title: Embryo_3 EVT [DNA_batch8_sc47]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc48]


title: Embryo_1 EXMC [DNA_batch8_sc46]


title: Secukinumab.W12.LS.1012005


title: Secukinumab.BL.NL.1012005


title: Embryo_1 EXMC [DNA_batch8_sc45]


title: Placebo.W52.NL.1012006


title: Embryo_1 EXMC [DNA_batch8_sc44]


title: Secukinumab.BL.LS.1012005


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc43]


title: Placebo.W52.LS.1012006


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch8_sc42]


title: Embryo_1 EXMC [DNA_batch8_sc40]


title: Embryo_1 EXMC [DNA_batch8_sc38]


title: Embryo_1 EXMC [DNA_batch8_sc41]


title: Placebo.W52.NL.1012004


title: Embryo_1 EXMC [DNA_batch8_sc4]


title: Placebo.W52.LS.1012004


title: Placebo.BL.LS.1012004


title: Embryo_1 EXMC [DNA_batch8_sc37]


title: Secukinumab.BL.LS.1012001


title: Embryo_2 CTB [DNA_batch8_sc36]


title: Embryo_1 EXMC [DNA_batch8_sc35]


title: Secukinumab.W12.NL.1012005


title: Secukinumab.BL.NL.1012001


title: Placebo.W52.LS.1011011


title: Placebo.W12.LS.1011011


title: Placebo.BL.LS.1011011


title: Embryo_1 EXMC [DNA_batch8_sc34]


title: Embryo_1 EXMC [DNA_batch8_sc33]


title: Secukinumab.W12.LS.1012001


title: Secukinumab.W52.LS.1012001


title: Secukinumab.W12.NL.1012001


title: Placebo.BL.NL.1012004


title: Embryo_10 PS and derivative [DNA_batch8_sc32]


title: Secukinumab.W52.NL.1011010


title: Embryo_1 EXMC [DNA_batch8_sc30]


title: Embryo_2 CTB [DNA_batch8_sc3]


title: Embryo_10 PS and derivative [DNA_batch8_sc31]


title: Secukinumab.BL.NL.1011010


title: Embryo_5 EPI [DNA_batch8_sc39]


title: Embryo_1 EXMC [DNA_batch8_sc29]


title: Embryo_1 EXMC [DNA_batch8_sc27]


title: Secukinumab.W12.NL.1011010


title: Secukinumab.W52.LS.1011010


title: Embryo_1 EXMC [DNA_batch8_sc28]


title: Secukinumab.W12.LS.1011009


title: Secukinumab.BL.LS.1011009


title: Secukinumab.BL.LS.1011010


title: Secukinumab.W52.LS.1011009


title: Embryo_1 EXMC [DNA_batch8_sc26]


title: Embryo_1 EXMC [DNA_batch8_sc24]


title: Embryo_4 STB [DNA_batch8_sc22]


title: Embryo_1 EXMC [DNA_batch8_sc21]


title: Embryo_4 STB [DNA_batch8_sc23]


title: Secukinumab.W12.LS.1011010


title: Embryo_1 EXMC [DNA_batch8_sc25]


title: Embryo_1 EXMC [DNA_batch8_sc2]


title: Embryo_1 EXMC [DNA_batch8_sc20]


title: Secukinumab.W12.NL.1011009


title: Embryo_1 EXMC [DNA_batch8_sc19]


title: Secukinumab.W52.LS.1011008


title: Secukinumab.W52.NL.1011009


title: Secukinumab.BL.LS.1011008


title: Secukinumab.W52.LS.1011007


title: Secukinumab.W52.NL.1011008


title: Secukinumab.W12.NL.1011008


title: Secukinumab.W12.LS.1011007


title: Secukinumab.BL.NL.1011009


title: Secukinumab.BL.NL.1011008


title: Secukinumab.W12.NL.1011007


title: Embryo_1 EXMC [DNA_batch8_sc17]


title: Secukinumab.W52.NL.1011007


title: Embryo_10 PS and derivative [DNA_batch8_sc15]


title: Embryo_1 EXMC [DNA_batch8_sc14]


title: Embryo_1 EXMC [DNA_batch8_sc16]


title: Embryo_2 CTB [DNA_batch8_sc12]


title: Embryo_1 EXMC [DNA_batch8_sc18]


title: Embryo_1 EXMC [DNA_batch8_sc11]


title: Embryo_1 EXMC [DNA_batch8_sc13]


title: Secukinumab.BL.NL.1011007


title: Secukinumab.BL.LS.1011007


title: Secukinumab.BL.NL.1011006


title: Secukinumab.W12.LS.1011006


title: Secukinumab.W12.NL.1011006


title: Embryo_1 EXMC [DNA_batch8_sc1]


title: Embryo_8 Neural ectoderm [DNA_batch7_sc96]


title: Secukinumab.BL.LS.1011006


title: Placebo.W12.LS.1011005


title: Placebo.W52.NL.1011005


title: Embryo_1 EXMC [DNA_batch8_sc10]


title: Embryo_8 Neural ectoderm [DNA_batch7_sc92]


title: Embryo_7 Mesoderm [DNA_batch7_sc94]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch7_sc90]


title: Embryo_7 Mesoderm [DNA_batch7_sc93]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch7_sc89]


title: Placebo.BL.LS.1011005


title: Embryo_1 EXMC [DNA_batch7_sc9]


title: Embryo_7 Mesoderm [DNA_batch7_sc95]


title: Embryo_7 Mesoderm [DNA_batch7_sc88]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch7_sc86]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch7_sc85]


title: Placebo.BL.NL.1011005


title: Placebo.W52.LS.1011005


title: Embryo_8 Neural ectoderm [DNA_batch7_sc84]


title: Embryo_2 CTB [DNA_batch7_sc91]


title: Embryo_6 Non-neural ectoderm [DNA_batch7_sc83]


title: Secukinumab.BL.LS.1011004


title: Secukinumab.W12.LS.1011004


title: Secukinumab.BL.NL.1011004


title: Embryo_7 Mesoderm [DNA_batch7_sc82]


title: Embryo_8 Neural ectoderm [DNA_batch7_sc81]


title: Placebo.BL.LS.1011002


title: Placebo.W12.NL.1011002


title: Placebo.W52.LS.1011002


title: Embryo_7 Mesoderm [DNA_batch7_sc80]


title: Embryo_7 Mesoderm [DNA_batch7_sc87]


title: Placebo.W12.NL.1011005


title: Secukinumab.W12.NL.1011004


title: Secukinumab.W52.LS.1011004


title: Secukinumab.W52.NL.1011004


title: Placebo.W52.NL.1011002


title: Secukinumab.BL.LS.1011001


title: Embryo_8 Neural ectoderm [DNA_batch7_sc78]


title: Embryo_7 Mesoderm [DNA_batch7_sc79]


title: Placebo.W12.LS.1011002


title: Secukinumab.BL.NL.1011001


title: Embryo_6 Non-neural ectoderm [DNA_batch7_sc77]


title: Placebo.BL.NL.1010010


title: Embryo_7 Mesoderm [DNA_batch7_sc76]


title: Placebo.BL.NL.1011002


title: Embryo_7 Mesoderm [DNA_batch7_sc75]


title: Embryo_7 Mesoderm [DNA_batch7_sc74]


title: Embryo_6 Non-neural ectoderm [DNA_batch7_sc8]


title: Embryo_7 Mesoderm [DNA_batch7_sc73]


title: Embryo_1 EXMC [DNA_batch7_sc71]


title: Placebo.W52.NL.1010010


title: Embryo_7 Mesoderm [DNA_batch7_sc70]


title: Placebo.W12.NL.1010010


title: Placebo.BL.LS.1010010


title: Embryo_7 Mesoderm [DNA_batch7_sc69]


title: Embryo_8 Neural ectoderm [DNA_batch7_sc68]


title: Placebo.W12.LS.1010010


title: Secukinumab.W12.NL.1010003


title: Embryo_8 Neural ectoderm [DNA_batch7_sc67]


title: Embryo_1 EXMC [DNA_batch7_sc7]


title: Secukinumab.W12.LS.1010003


title: Secukinumab.W12.LS.1011001


title: Placebo.W52.LS.1010010


title: Secukinumab.W52.NL.1010008


title: Secukinumab.W12.NL.1010008


title: Secukinumab.W52.LS.1010008


title: Secukinumab.BL.LS.1010008


title: Secukinumab.W52.LS.1010003


title: Embryo_7 Mesoderm [DNA_batch7_sc65]


title: Embryo_1 EXMC [DNA_batch7_sc72]


title: Secukinumab.BL.NL.1010003


title: Embryo_7 Mesoderm [DNA_batch7_sc63]


title: Embryo_8 Neural ectoderm [DNA_batch7_sc62]


title: Secukinumab.BL.LS.1010003


title: Embryo_10 PS and derivative [DNA_batch7_sc66]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch7_sc61]


title: Secukinumab.BL.LS.1010002


title: Secukinumab.W52.NL.1010002


title: Secukinumab.W52.LS.1010002


title: Secukinumab.W12.LS.1010002


title: Secukinumab.BL.NL.1010002


title: Secukinumab.W12.NL.1010002


title: Secukinumab.W52.NL.1010003


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch7_sc58]


title: Embryo_4 STB [DNA_batch7_sc59]


title: Embryo_8 Neural ectoderm [DNA_batch7_sc54]


title: Embryo_7 Mesoderm [DNA_batch7_sc53]


title: Embryo_7 Mesoderm [DNA_batch7_sc56]


title: Embryo_7 Mesoderm [DNA_batch7_sc55]


title: Embryo_7 Mesoderm [DNA_batch7_sc60]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch7_sc50]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch7_sc52]


title: Embryo_1 EXMC [DNA_batch7_sc6]


title: Embryo_7 Mesoderm [DNA_batch7_sc51]


title: Embryo_7 Mesoderm [DNA_batch7_sc57]


title: Secukinumab.BL.NL.1009011


title: Embryo_3 EVT [DNA_batch7_sc5]


title: Embryo_1 EXMC [DNA_batch7_sc49]


title: Embryo_3 EVT [DNA_batch7_sc48]


title: Embryo_5 EPI [DNA_batch7_sc47]


title: Embryo_7 Mesoderm [DNA_batch7_sc45]


title: Embryo_7 Mesoderm [DNA_batch7_sc43]


title: Embryo_7 Mesoderm [DNA_batch7_sc44]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch7_sc42]


title: Secukinumab.W52.LS.1009011


title: Secukinumab.W12.LS.1009011


title: Embryo_6 Non-neural ectoderm [DNA_batch7_sc41]


title: Embryo_2 CTB [DNA_batch7_sc46]


title: Embryo_7 Mesoderm [DNA_batch7_sc40]


title: Embryo_1 EXMC [DNA_batch7_sc4]


title: Secukinumab.BL.NL.1009009


title: Secukinumab.W52.NL.1009011


title: Embryo_7 Mesoderm [DNA_batch7_sc39]


title: Secukinumab.BL.LS.1009011


title: Embryo_7 Mesoderm [DNA_batch7_sc38]


title: Secukinumab.W12.LS.1009009


title: Secukinumab.W12.NL.1009009


title: Secukinumab.BL.LS.1009007


title: Embryo_7 Mesoderm [DNA_batch7_sc37]


title: Secukinumab.W52.NL.1009009


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch7_sc36]


title: Secukinumab.W52.LS.1009009


title: Secukinumab.W52.NL.1009007


title: Secukinumab.W12.LS.1009007


title: Placebo.BL.LS.1009005


title: Secukinumab.BL.NL.1009007


title: Embryo_8 Neural ectoderm [DNA_batch7_sc35]


title: Placebo.W12.NL.1009005


title: Secukinumab.BL.LS.1009009


title: Secukinumab.W12.NL.1009011


title: Secukinumab.W12.NL.1009007


title: Secukinumab.W52.LS.1009007


title: Secukinumab.W12.LS.1009003


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch7_sc34]


title: Placebo.BL.NL.1009005


title: Embryo_7 Mesoderm [DNA_batch7_sc33]


title: Placebo.W52.NL.1009005


title: Placebo.W52.LS.1009005


title: Embryo_7 Mesoderm [DNA_batch7_sc32]


title: Embryo_6 Non-neural ectoderm [DNA_batch7_sc31]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch7_sc3]


title: Embryo_6 Non-neural ectoderm [DNA_batch7_sc29]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch7_sc30]


title: Placebo.W12.LS.1009005


title: Embryo_8 Neural ectoderm [DNA_batch7_sc27]


title: Embryo_6 Non-neural ectoderm [DNA_batch7_sc28]


title: Embryo_7 Mesoderm [DNA_batch7_sc26]


title: Secukinumab.BL.LS.1009003


title: Embryo_3 EVT [DNA_batch7_sc25]


title: Embryo_7 Mesoderm [DNA_batch7_sc24]


title: Placebo.W12.LS.1009001


title: Embryo_1 EXMC [DNA_batch7_sc23]


title: Secukinumab.W12.NL.1009003


title: Placebo.W12.NL.1009001


title: Placebo.W52.LS.1008002


title: Placebo.W12.LS.1008002


title: Embryo_3 EVT [DNA_batch7_sc21]


title: Secukinumab.BL.NL.1009003


title: Embryo_6 Non-neural ectoderm [DNA_batch7_sc20]


title: Placebo.BL.LS.1009001


title: Embryo_2 CTB [DNA_batch7_sc2]


title: Embryo_2 CTB [DNA_batch7_sc19]


title: Embryo_1 EXMC [DNA_batch7_sc18]


title: Placebo.W52.NL.1008002


title: Placebo.BL.NL.1009001


title: Embryo_3 EVT [DNA_batch7_sc22]


title: Placebo.BL.LS.1008002


title: Secukinumab.BL.NL.1008001


title: Secukinumab.W52.NL.1008001


title: Secukinumab.W52.LS.1008001


title: Placebo.W12.NL.1008002


title: Secukinumab.W12.NL.1008001


title: Embryo_2 CTB [DNA_batch7_sc17]


title: Embryo_1 EXMC [DNA_batch7_sc16]


title: Placebo.BL.NL.1007017


title: Secukinumab.BL.LS.1008001


title: Embryo_2 CTB [DNA_batch7_sc15]


title: Embryo_6 Non-neural ectoderm [DNA_batch7_sc14]


title: Embryo_1 EXMC [DNA_batch7_sc13]


title: Embryo_3 EVT [DNA_batch7_sc12]


title: Embryo_2 CTB [DNA_batch7_sc11]


title: Secukinumab.W12.LS.1008001


title: Embryo_6 Non-neural ectoderm [DNA_batch7_sc10]


title: Embryo_7 Mesoderm [DNA_batch6_sc96]


title: Embryo_7 Mesoderm [DNA_batch6_sc95]


title: Placebo.W12.NL.1007017


title: Placebo.W12.LS.1007017


title: Placebo.W52.LS.1007015


title: Placebo.W52.LS.1007017


title: Placebo.BL.LS.1007017


title: Placebo.W52.NL.1007015


title: Embryo_7 Mesoderm [DNA_batch6_sc93]


title: Placebo.BL.LS.1007015


title: Placebo.W12.NL.1007015


title: Placebo.W52.NL.1007017


title: Placebo.BL.NL.1007015


title: Embryo_7 Mesoderm [DNA_batch6_sc94]


title: Placebo.BL.NL.1007014


title: Placebo.BL.LS.1007014


title: Embryo_7 Mesoderm [DNA_batch6_sc90]


title: Embryo_4 STB [DNA_batch6_sc91]


title: Embryo_7 Mesoderm [DNA_batch6_sc88]


title: Embryo_7 Mesoderm [DNA_batch6_sc89]


title: Embryo_1 EXMC [DNA_batch6_sc9]


title: Embryo_7 Mesoderm [DNA_batch6_sc92]


title: Embryo_8 Neural ectoderm [DNA_batch6_sc85]


title: Embryo_7 Mesoderm [DNA_batch6_sc86]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch6_sc83]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch6_sc84]


title: Placebo.W12.LS.1007014


title: Secukinumab.W12.NL.1007010


title: Secukinumab.BL.NL.1007013


title: Embryo_8 Neural ectoderm [DNA_batch6_sc82]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch6_sc80]


title: Embryo_8 Neural ectoderm [DNA_batch6_sc81]


title: Placebo.W52.NL.1007014


title: Embryo_2 CTB [DNA_batch6_sc8]


title: Embryo_7 Mesoderm [DNA_batch6_sc87]


title: Secukinumab.W12.LS.1007010


title: Placebo.W12.NL.1007014


title: Secukinumab.BL.LS.1007010


title: Secukinumab.W12.LS.1007009


title: Placebo.W52.LS.1007014


title: Secukinumab.W12.NL.1007009


title: Secukinumab.BL.NL.1007002


title: Secukinumab.BL.LS.1007002


title: Secukinumab.W52.NL.1007002


title: Secukinumab.W12.NL.1007002


title: Embryo_8 Neural ectoderm [DNA_batch6_sc76]


title: Embryo_7 Mesoderm [DNA_batch6_sc78]


title: Secukinumab.W52.LS.1007009


title: Secukinumab.BL.LS.1007009


title: Embryo_8 Neural ectoderm [DNA_batch6_sc79]


title: Secukinumab.W52.NL.1007009


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch6_sc74]


title: Embryo_7 Mesoderm [DNA_batch6_sc72]


title: Embryo_7 Mesoderm [DNA_batch6_sc75]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch6_sc73]


title: Secukinumab.W52.LS.1007002


title: Embryo_11 Endoderm [DNA_batch6_sc70]


title: Embryo_3 EVT [DNA_batch6_sc7]


title: Embryo_7 Mesoderm [DNA_batch6_sc69]


title: Secukinumab.BL.NL.1006006


title: Embryo_7 Mesoderm [DNA_batch6_sc68]


title: Embryo_6 Non-neural ectoderm [DNA_batch6_sc71]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch6_sc66]


title: Embryo_7 Mesoderm [DNA_batch6_sc65]


title: Embryo_11 Endoderm [DNA_batch6_sc67]


title: Secukinumab.W52.NL.1006005


title: Embryo_7 Mesoderm [DNA_batch6_sc64]


title: Secukinumab.W52.LS.1006006


title: Secukinumab.W12.NL.1006005


title: Secukinumab.W12.LS.1006005


title: Secukinumab.W12.NL.1006006


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch6_sc63]


title: Secukinumab.BL.LS.1006006


title: Embryo_8 Neural ectoderm [DNA_batch6_sc62]


title: Secukinumab.W12.LS.1006006


title: Secukinumab.W52.LS.1006005


title: Secukinumab.W12.LS.1006004


title: Embryo_4 STB [DNA_batch6_sc60]


title: Secukinumab.W12.NL.1006004


title: Secukinumab.BL.NL.1006005


title: Secukinumab.W52.NL.1006006


title: Secukinumab.W52.NL.1006004


title: Secukinumab.BL.NL.1006004


title: Embryo_2 CTB [DNA_batch6_sc6]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch6_sc59]


title: Embryo_7 Mesoderm [DNA_batch6_sc58]


title: Embryo_7 Mesoderm [DNA_batch6_sc54]


title: Embryo_7 Mesoderm [DNA_batch6_sc56]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch6_sc61]


title: Embryo_7 Mesoderm [DNA_batch6_sc55]


title: Secukinumab.BL.LS.1006003


title: Secukinumab.BL.NL.1006003


title: Secukinumab.BL.LS.1006004


title: Secukinumab.W12.LS.1006002


title: Secukinumab.BL.NL.1006002


title: Secukinumab.W52.LS.1006001


title: Secukinumab.W12.NL.1006001


title: Secukinumab.W12.NL.1006002


title: Secukinumab.W52.NL.1006001


title: Embryo_2 CTB [DNA_batch6_sc50]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch6_sc49]


title: Embryo_7 Mesoderm [DNA_batch6_sc52]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch6_sc51]


title: Secukinumab.W12.LS.1006001


title: Embryo_6 Non-neural ectoderm [DNA_batch6_sc53]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch6_sc48]


title: Embryo_8 Neural ectoderm [DNA_batch6_sc47]


title: Embryo_1 EXMC [DNA_batch6_sc46]


title: Secukinumab.BL.NL.1006001


title: Secukinumab.BL.NL.1005007


title: Secukinumab.BL.LS.1005007


title: Secukinumab.W12.LS.1005006


title: Embryo_2 CTB [DNA_batch6_sc5]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch6_sc45]


title: Embryo_7 Mesoderm [DNA_batch6_sc44]


title: Embryo_3 EVT [DNA_batch6_sc43]


title: Embryo_3 EVT [DNA_batch6_sc41]


title: Embryo_2 CTB [DNA_batch6_sc42]


title: Secukinumab.BL.LS.1005006


title: Secukinumab.W12.LS.1005007


title: Embryo_1 EXMC [DNA_batch6_sc40]


title: Embryo_1 EXMC [DNA_batch6_sc4]


title: Secukinumab.BL.NL.1005006


title: Embryo_1 EXMC [DNA_batch6_sc39]


title: Embryo_3 EVT [DNA_batch6_sc37]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch6_sc57]


title: Embryo_3 EVT [DNA_batch6_sc38]


title: Embryo_4 STB [DNA_batch6_sc36]


title: Secukinumab.W52.NL.1005006


title: Secukinumab.W52.LS.1005006


title: Embryo_3 EVT [DNA_batch6_sc35]


title: Placebo.W12.LS.1005005


title: Embryo_3 EVT [DNA_batch6_sc34]


title: Placebo.W52.LS.1005005


title: Placebo.W12.NL.1005005


title: Placebo.BL.NL.1005005


title: Placebo.W12.NL.1005004


title: Secukinumab.W52.LS.1005007


title: Embryo_4 STB [DNA_batch6_sc33]


title: Placebo.BL.LS.1005005


title: Placebo.BL.LS.1005004


title: Placebo.W52.NL.1005005


title: Placebo.BL.NL.1005004


title: Placebo.W52.NL.1005004


title: Embryo_1 EXMC [DNA_batch6_sc32]


title: Placebo.W52.LS.1005004


title: Embryo_4 STB [DNA_batch6_sc31]


title: Embryo_2 CTB [DNA_batch6_sc30]


title: Embryo_1 EXMC [DNA_batch6_sc3]


title: Placebo.W12.LS.1005004


title: Embryo_1 EXMC [DNA_batch6_sc29]


title: Embryo_1 EXMC [DNA_batch6_sc28]


title: Embryo_3 EVT [DNA_batch6_sc27]


title: Embryo_3 EVT [DNA_batch6_sc26]


title: Embryo_1 EXMC [DNA_batch6_sc25]


title: Embryo_2 CTB [DNA_batch6_sc24]


title: Embryo_1 EXMC [DNA_batch6_sc23]


title: Embryo_3 EVT [DNA_batch6_sc21]


title: Secukinumab.W52.LS.1005002


title: Secukinumab.BL.NL.1005002


title: Secukinumab.W12.LS.1005002


title: Secukinumab.BL.LS.1005002


title: Secukinumab.W52.NL.1005002


title: Embryo_1 EXMC [DNA_batch6_sc2]


title: Embryo_4 STB [DNA_batch6_sc19]


title: Placebo.W12.LS.1005001


title: Secukinumab.W12.NL.1005006


title: Secukinumab.W12.NL.1005002


title: Placebo.W52.NL.1005001


title: Embryo_3 EVT [DNA_batch6_sc18]


title: Placebo.BL.NL.1005001


title: Placebo.BL.LS.1005001


title: Secukinumab.W52.NL.1004008


title: Placebo.W52.LS.1005001


title: Secukinumab.W12.NL.1004008


title: Embryo_1 EXMC [DNA_batch6_sc22]


title: Secukinumab.BL.LS.1004008


title: Embryo_1 EXMC [DNA_batch6_sc17]


title: Placebo.W12.NL.1005001


title: Embryo_2 CTB [DNA_batch6_sc16]


title: Secukinumab.BL.NL.1004008


title: Secukinumab.W52.LS.1004008


title: Embryo_3 EVT [DNA_batch6_sc20]


title: Embryo_2 CTB [DNA_batch6_sc15]


title: Embryo_2 CTB [DNA_batch6_sc13]


title: Embryo_1 EXMC [DNA_batch6_sc12]


title: Embryo_3 EVT [DNA_batch6_sc11]


title: Secukinumab.W12.LS.1004007


title: Embryo_1 EXMC [DNA_batch6_sc10]


title: Embryo_2 CTB [DNA_batch6_sc1]


title: Secukinumab.BL.LS.1004007


title: Embryo_3 EVT [DNA_batch5_sc96]


title: Embryo_3 EVT [DNA_batch6_sc14]


title: Secukinumab.W52.NL.1004007


title: Secukinumab.W52.LS.1004007


title: Secukinumab.W12.NL.1004007


title: Secukinumab.W12.LS.1004008


title: Embryo_3 EVT [DNA_batch5_sc95]


title: Embryo_2 CTB [DNA_batch5_sc94]


title: Embryo_2 CTB [DNA_batch5_sc93]


title: Secukinumab.BL.NL.1004007


title: Embryo_3 EVT [DNA_batch5_sc92]


title: Embryo_2 CTB [DNA_batch5_sc91]


title: Embryo_1 EXMC [DNA_batch5_sc9]


title: Placebo.W52.NL.1004006


title: Embryo_1 EXMC [DNA_batch5_sc89]


title: Embryo_3 EVT [DNA_batch5_sc87]


title: Embryo_2 CTB [DNA_batch5_sc88]


title: Placebo.W12.LS.1004006


title: Embryo_3 EVT [DNA_batch5_sc86]


title: Placebo.W12.NL.1004006


title: Embryo_3 EVT [DNA_batch5_sc85]


title: S.islandicus.LAL141.ChIP-seq.input.replicate2

city: London

first: Finn

last: Werner

address: Gower Street

department: Institute of Structural and Molecular Biology

country: United Kingdom

institute: University College London

description:
18452X27
NovaSeq SP Reagent Kit v1.5_50x50 bp Sequencing

data_processing:
Paired-end reads were mapped using Bowtie v1.1.2 [30] with parameters -v 2 -m 1 --fr allowing only for uniquely mapped  read pairs to be included
We sampled from the alignments to obtain a defined fragment size distribution (normal distribution, mean 150 bp, sd 20 bp) using a custom R script (https://github.com/fblombach/ChIP-seq/blob/master/read_sampling.R)
Coverage normalized to input ("normRatio") was calculated using deeptools bamCompare with SES scaling (10,000 bins, 200 bp bin width), chromatin input samples for these IPs were previously deposited at NCBI GEO (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE141286)
Assembly: NC_021058.1 (S. islandicus LAL14/1) and AJ344259.1 (SIRV2)
Supplementary files format and content: bigwig files with occupancy normalised against the chromatin input samples, scaled by the Signal Extraction Scaling method

organism: Saccharolobus islandicus LAL14/1

source_name: microbial cells

extract_protocol:
Qiagen QIAquick PCR purification
NEBNext Ultra II DNA library prep kit for Illumina

treatment_protocol: Four 250 mL cultures of S. islandicus LAL14/1 were grown in rich medium at 76 °C under agitation for approximately 12 h. When the optical density (OD) reached 0.2, two of the cultures were infected with SIRV2 using a multiplicity of infection (MOI) of 10, while the other two served as uninfected controls. After 2 hours post-infection (hpi), 200 mL aliquots were rapidly transferred to flasks, placed on heated magnetic stirring plates and cross-linked with stabilized formaldehyde solution to a final concentration of 0.4%.

tag: chip antibody

value: none; input

value: microbial cells


title: S.islandicus.LAL141.ChIP-seq.input.replicate1

description:
18452X25
NovaSeq SP Reagent Kit v1.5_50x50 bp Sequencing


title: S.islandicus.LAL141.SIRV2.2hpi.ChIP-seq.input.replicate2

description:
18452X28
NovaSeq SP Reagent Kit v1.5_50x50 bp Sequencing

value: SIRV2 infected 2hpi


title: S.islandicus.LAL141.SIRV2.2hpi.ChIP-seq.input.replicate1

description:
18452X26
NovaSeq SP Reagent Kit v1.5_50x50 bp Sequencing


title: Placebo.BL.NL.1004006


title: Embryo_2 CTB [DNA_batch5_sc84]


title: Secukinumab.W12.NL.1004005


title: Placebo.W52.LS.1004006


title: Secukinumab.W52.LS.1004005


title: S.islandicus.LAL141.SIRV2.2hpi.ChIP-seq.Rpo47.replicate2

description:
18452X24
NovaSeq SP Reagent Kit v1.5_50x50 bp Sequencing


title: Embryo_2 CTB [DNA_batch5_sc90]


title: Placebo.BL.LS.1004006


title: Secukinumab.W12.LS.1004005


title: Secukinumab.W52.NL.1004005


title: Secukinumab.BL.LS.1004005


title: Embryo_1 EXMC [DNA_batch5_sc83]


title: Embryo_3 EVT [DNA_batch5_sc82]


title: S.islandicus.LAL141.ChIP-seq.Rpo47.replicate2

description:
18452X23
NovaSeq SP Reagent Kit v1.5_50x50 bp Sequencing


title: Secukinumab.BL.NL.1003004


title: Secukinumab.W52.NL.1003004


title: S.islandicus.LAL141.ChIP-seq.Rpo47.replicate1

description:
18452X21
NovaSeq SP Reagent Kit v1.5_50x50 bp Sequencing


title: S.islandicus.LAL141.SIRV2.2hpi.ChIP-seq.Rpo47.replicate1

description:
18452X22
NovaSeq SP Reagent Kit v1.5_50x50 bp Sequencing


title: Embryo_3 EVT [DNA_batch5_sc79]


title: Embryo_1 EXMC [DNA_batch5_sc8]


title: S.islandicus.LAL141.SIRV2.2hpi.ChIP-seq.Cbp1.replicate2

description:
19272X22
NovaSeq SP Reagent Kit v1.5_50x50 bp Sequencing


title: Embryo_3 EVT [DNA_batch5_sc76]


title: Embryo_1 EXMC [DNA_batch5_sc78]


title: Embryo_1 EXMC [DNA_batch5_sc81]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc77]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc74]


title: S.islandicus.LAL141.ChIP-seq.Cbp1.replicate2

description:
19272X20
NovaSeq SP Reagent Kit v1.5_50x50 bp Sequencing


title: Embryo_2 CTB [DNA_batch5_sc80]


title: Embryo_7 Mesoderm [DNA_batch5_sc75]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc72]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc71]


title: S.islandicus.LAL141.SIRV2.2hpi.ChIP-seq.Cbp1.replicate1

description:
19272X21
NovaSeq SP Reagent Kit v1.5_50x50 bp Sequencing


title: S.islandicus.LAL141.ChIP-seq.Cbp1.replicate1

description:
19272X19
NovaSeq SP Reagent Kit v1.5_50x50 bp Sequencing


title: Embryo_1 EXMC [DNA_batch5_sc7]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc69]


title: Secukinumab.W52.NL.1003003


title: Embryo_7 Mesoderm [DNA_batch5_sc68]


title: Embryo_7 Mesoderm [DNA_batch5_sc73]


title: Embryo_8 Neural ectoderm [DNA_batch5_sc70]


title: Secukinumab.W12.NL.1003003


title: Secukinumab.BL.LS.1003003


title: Secukinumab.W12.NL.1003004


title: Secukinumab.W12.LS.1003004


title: Secukinumab.W52.LS.1003003


title: Secukinumab.BL.NL.1003003


title: Embryo_6 Non-neural ectoderm [DNA_batch5_sc65]


title: cvib_stat_r1_s_r_v2

organism: Caulobacter vibrioides

source_name: Liquid culture of Caulobacter crescentus NA1000.

value: Late eponetial growth

value: cvib_stat_rep1 was grown in PYE Media and harvested 7 hours after collection of exponential growth phase sampleOD600 0.8

value: Standard 5PSeq, RNA rP5_RND oligo for RNA ligation

value: Ribo-Zero rRNA Removal Kit (Bacteria) Illumina


title: cvib_stat_r3_s_r_v2

value: Late exponetial growth

value: cvib_stat_rep3 was grown in PYE Media and harvested 7 hours after collection of exponential growth phase sampleOD600 0.8


title: Embryo_6 Non-neural ectoderm [DNA_batch5_sc64]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc62]


title: Embryo_7 Mesoderm [DNA_batch5_sc63]


title: Embryo_7 Mesoderm [DNA_batch5_sc66]


title: Female,naive, nasal septum, rep6

city: Jackson

first: Michael

middle: R.

last: Garrett

state: MISSISSIPPI

address: 2500 N State Street, Department of Pharmacology and Toxicology

department: Pharmacology and Toxicology

institute: University of Mississippi Medical Center

data_processing:
Sequenced reads were assessed for quality using the Illumina BaseSpace Cloud Computing Platform and FASTQ sequence files were used to align reads to the Mus Musculus [(MusMusculus_Mmu10)] using RNA-Seq Alignment Application (using STAR aligner).
Differential expression was determined using the DRAGEN RNA Pipeline Application (v.3.8.4) and DRAGEN Differential Expression Application (v.3.6.3)/DESeq2. Gene expression differences are denoted as log2 (ratio) and q > 0.05.
Assembly: MusMusculus_Mmu10
Supplementary files format and content: Gene count ouput from Illumina DRAGEN RNA Pipeline Application (v.3.8.4)

organism: Mus musculus

source_name: nasal septum

extract_protocol:
RNA was extracted using TRIzol Reagent along with Pure Link RNA Mini Kit (Invitrogen) according to manufacturer instructions and assessed for quality control parameters of minimum concentration and fidelity (i.e. 18S and 28S bands, RIS >8).
Libraries were developed using the Illumina TruSeq mRNA Stranded Library Prep Kit , quantified with a Qubit fluorimeter (Invitrogen), and assessed for quality and size using the QIAxcel Advanced System
Samples were pooled into a single library (n=48 pooled samples per library) and sequenced using the NextSeq 1000/2000 P3  (200 cycles, paired end 100bp) flow cell on the  Illumina NextSeq 2000 platform.

value: nasal septum

tag: strain background

value: naïve, not infected


title: Embryo_12 Blood cells [DNA_batch5_sc61]


title: Secukinumab.W12.LS.1003003

value: psoriasis

value: Secukinumab

value: Skin


title: cvib_ctr_r1_s_r_v2

value: Untreated

tag: culture conditions

value: cvib_ctr_rep1 was grown in PYE Media and harvested at exponential growth phase OD600 0.3


title: cvib_ctr_r3_s_r_v2

value: cvib_ctr_rep3 was grown in PYE Media and cvib_ctr_rep3 was harvested at exponential growth phase OD600 0.3

tag: library protocol


title: Secukinumab.BL.LS.1003001

value: BL

value: LS


title: Secukinumab.BL.NL.1003001

value: NL


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc60]

value: in vitro

value: Embryo

value: WT


title: Secukinumab.W12.NL.1002008


title: Embryo_1 EXMC [DNA_batch5_sc6]


title: Secukinumab.W52.LS.1002008


title: Female,,naive, nasal septum, rep5


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc59]


title: Secukinumab.W12.LS.1002008


title: Embryo_8 Neural ectoderm [DNA_batch5_sc58]


title: Embryo_6 Non-neural ectoderm [DNA_batch5_sc57]


title: Embryo_7 Mesoderm [DNA_batch5_sc67]


title: Male,naive, nasal septum, rep6


title: Female,naive, nasal septum, rep4


title: Male,naive, nasal septum, rep4


title: Embryo_8 Neural ectoderm [DNA_batch5_sc54]


title: Female,naive, nasal septum, rep3


title: Embryo_6 Non-neural ectoderm [DNA_batch5_sc55]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc53]


title: Embryo_7 Mesoderm [DNA_batch5_sc56]


title: Embryo_1 EXMC [DNA_batch5_sc5]


title: Embryo_6 Non-neural ectoderm [DNA_batch5_sc49]


title: Secukinumab.W52.NL.1002008


title: Female,,naive, nasal septum, rep2


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc47]


title: Embryo_6 Non-neural ectoderm [DNA_batch5_sc48]


title: Secukinumab.BL.NL.1002008


title: Female,naive, nasal septum, rep1


title: Male,naive, nasal septum, rep5


title: Secukinumab.W12.NL.1002007


title: Secukinumab.W12.LS.1002007


title: Secukinumab.BL.NL.1002007


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc45]


title: Placebo.W12.LS.1002006

value: Placebo


title: Secukinumab.BL.LS.1002008


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc44]


title: Embryo_7 Mesoderm [DNA_batch5_sc43]


title: Male,naive, nasal septum, rep3


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc51]


title: Male,naive, nasal septum, rep2


title: Embryo_7 Mesoderm [DNA_batch5_sc41]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc42]


title: Female,infected, nasal septum, rep6

value: influenza infected


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc46]


title: Embryo_7 Mesoderm [DNA_batch5_sc40]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc39]


title: Placebo.BL.LS.1002006


title: Placebo.W52.NL.1002006


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc38]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc37]


title: Female,,infected, nasal septum, rep5


title: Placebo.BL.NL.1002006


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc36]


title: Embryo_7 Mesoderm [DNA_batch5_sc35]


title: Secukinumab.BL.NL.1004005


title: Placebo.W52.LS.1002006


title: Female,infected, nasal septum, rep4


title: Placebo.W12.NL.1002006


title: Male,naive, nasal septum, rep1


title: Embryo_6 Non-neural ectoderm [DNA_batch5_sc32]


title: Embryo_1 EXMC [DNA_batch5_sc4]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc34]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc31]


title: Male,infected, nasal septum, rep6


title: Embryo_6 Non-neural ectoderm [DNA_batch5_sc30]


title: Male,infected, nasal septum, rep5


title: Embryo_1 EXMC [DNA_batch5_sc3]


title: Male,infected, nasal septum, rep4


title: Female,infected, nasal septum, rep3


title: Embryo_7 Mesoderm [DNA_batch5_sc29]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc27]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc28]


title: Embryo_7 Mesoderm [DNA_batch5_sc25]


title: Secukinumab.BL.LS.1002005


title: Female,,infected, nasal septum, rep2


title: Secukinumab.W12.NL.1002005


title: Secukinumab.BL.NL.1002005


title: Female,infected, nasal septum, rep1


title: Secukinumab.W12.LS.1002005


title: Male,infected, nasal septum, rep3


title: Secukinumab.W52.LS.1002005


title: Embryo_2 CTB [DNA_batch5_sc23]


title: Embryo_7 Mesoderm [DNA_batch5_sc22]


title: Embryo_7 Mesoderm [DNA_batch5_sc20]


title: Secukinumab.W52.NL.1002005


title: Embryo_7 Mesoderm [DNA_batch5_sc24]


title: Male,infected, nasal septum, rep2


title: Embryo_1 EXMC [DNA_batch5_sc2]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc26]


title: Embryo_7 Mesoderm [DNA_batch5_sc19]


title: Secukinumab.BL.LS.1002003


title: Male,infected, nasal septum, rep1


title: Embryo_3 EVT [DNA_batch5_sc17]


title: Embryo_2 CTB [DNA_batch5_sc16]


title: Female,naive, lung, rep6


title: Secukinumab.W12.LS.1002003


title: Embryo_1 EXMC [DNA_batch5_sc14]


title: Embryo_1 EXMC [DNA_batch5_sc15]


title: Female,,naive, lung, rep5

source_name: Lung

value: Lung


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc21]


title: Secukinumab.W12.NL.1002003


title: Female,naive, lung, rep4


title: Embryo_1 EXMC [DNA_batch5_sc11]


title: Embryo_1 EXMC [DNA_batch5_sc13]


title: Secukinumab.W52.LS.1002003


title: Secukinumab.W52.NL.1002003


title: Embryo_3 EVT [DNA_batch5_sc18]


title: Male,naive, lung, rep6


title: Secukinumab.BL.NL.1002003


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc95]


title: Male,naive, lung, rep5


title: Placebo.W12.NL.1002001


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc94]


title: Male,naive, lung, rep4


title: Embryo_11 Endoderm [DNA_batch4_sc92]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc93]


title: Female,naive, lung, rep3


title: Placebo.W12.LS.1002001


title: Embryo_2 CTB [DNA_batch4_sc9]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch5_sc12]


title: Embryo_1 EXMC [DNA_batch5_sc10]


title: Placebo.BL.LS.1002001


title: Embryo_8 Neural ectoderm [DNA_batch4_sc96]


title: Embryo_7 Mesoderm [DNA_batch4_sc89]


title: Female,,naive, lung, rep2


title: Placebo.BL.NL.1002001


title: Female,naive, lung, rep1


title: Male,naive, lung, rep3


title: Secukinumab.BL.NL.1001013


title: Embryo_8 Neural ectoderm [DNA_batch4_sc88]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc86]


title: Embryo_7 Mesoderm [DNA_batch4_sc87]


title: Embryo_7 Mesoderm [DNA_batch4_sc91]


title: Male,naive, lung, rep1


title: Secukinumab.BL.LS.1001013


title: Embryo_7 Mesoderm [DNA_batch4_sc81]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc83]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc85]


title: Embryo_7 Mesoderm [DNA_batch4_sc82]


title: Embryo_6 Non-neural ectoderm [DNA_batch4_sc80]


title: Female,infected, lung, rep6


title: Embryo_6 Non-neural ectoderm [DNA_batch4_sc8]


title: Embryo_12 Blood cells [DNA_batch4_sc79]


title: Embryo_2 CTB [DNA_batch4_sc78]


title: Embryo_8 Neural ectoderm [DNA_batch5_sc52]


title: Secukinumab.W12.NL.1001013


title: Secukinumab.W52.LS.1001013


title: Female,,infected, lung, rep5


title: Embryo_6 Non-neural ectoderm [DNA_batch4_sc77]


title: Secukinumab.W12.LS.1001012


title: Embryo_1 EXMC [DNA_batch4_sc84]


title: Male,naive, lung, rep2


title: Female,infected, lung, rep4


title: Secukinumab.W12.LS.1001013


title: Secukinumab.W52.NL.1001013


title: Embryo_7 Mesoderm [DNA_batch4_sc76]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc75]


title: Secukinumab.W52.LS.1001012


title: Male,infected, lung, rep6


title: Embryo_8 Neural ectoderm [DNA_batch4_sc74]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc73]


title: Male,infected, lung, rep5


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc72]


title: Male,infected, lung, rep4


title: Embryo_8 Neural ectoderm [DNA_batch4_sc71]


title: Embryo_2 CTB [DNA_batch4_sc7]


title: Embryo_8 Neural ectoderm [DNA_batch4_sc70]


title: Embryo_2 CTB [DNA_batch4_sc69]


title: Female,infected, lung, rep3


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc68]


title: Secukinumab.W52.NL.1001012


title: Embryo_7 Mesoderm [DNA_batch4_sc67]


title: Female,,infected, lung, rep2


title: Secukinumab.W12.NL.1001012


title: Secukinumab.BL.NL.1001012


title: Secukinumab.BL.LS.1001011


title: Embryo_7 Mesoderm [DNA_batch4_sc66]


title: Embryo_6 Non-neural ectoderm [DNA_batch4_sc65]


title: Female,infected, lung, rep1


title: Male,infected, lung, rep3


title: Secukinumab.W12.LS.1001011


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc64]


title: Embryo_7 Mesoderm [DNA_batch4_sc61]


title: Embryo_7 Mesoderm [DNA_batch4_sc62]


title: Male,infected, lung, rep2


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc63]


title: Embryo_2 CTB [DNA_batch4_sc6]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc60]


title: Embryo_6 Non-neural ectoderm [DNA_batch4_sc59]


title: Aged/Anti-IL17A/F treated Input

city: Barcelona

first: Oscar

last: Reina Garcia

state: Barcelona

address: C/Baldiri Reixac 10

department: Biostatistics and Bioinformatics

country: Spain

institute: IRB Barcelona

description:
Aged/Anti-IL17A/F treated Input
sample name:
ttdin

data_processing:
Trimming: Trimmomatic (Bolger, Lohse et al. 2014) (version 0.36; TRAILING:5 SLIDINGWINDOW:4:15 MINLEN:36)
alignment: Burrows-Wheeler aligner (Li and Durbin 2009) (version 0.7.12; -n 2 -l 20 -k 1 -t 2)
peak calling: MACS2  -q 0.01 --nomodel --extsize 300 -B –SPMR
Assembly: mm10
feature quantification: featureCounts function from Rsubread package v2.4.3 with default options and annot.inbuilt = "mm10" in R-4.0.5
Supplementary files format and content: MACS2 narrowPeak BED format

source_name: epidermal cells

growth_protocol: Mice were kept in ordinary conditions L:D 12:12

extract_protocol:
Epidermal cells were isolated by treating the skins with trypsin and generating a single cell suspension with mechanical chopping. Chromatin was isolated by detergent extraction+sonication of nuclear extracts.
NEBNext Ultra DNA Library Prep for Illumina kit according to the manufacturer's protocol. All purification steps were performed using AgenCourt AMPure XP beads
Input and ChIP enriched DNA were subjected to end repair and addition of “A” bases to 3′ ends, ligation of the NEB adapter and USER excision.

treatment_protocol: aged mice were treated for 12 weeks with intraperitoneal injections of blocking antbodies against IL-17A and IL-17F, o a control IgG. Adult mice did not receive any treatment.

tag: strain

value: epidermal cells

tag: age

value: Aged+

tag: chip ab


title: Embryo_7 Mesoderm [DNA_batch4_sc58]

tag: cell line

tag: cell type


title: Embryo_7 Mesoderm [DNA_batch4_sc57]

tag: genotype

tag: time


title: Embryo_8 Neural ectoderm [DNA_batch4_sc56]


title: Aged/Control IgG treated Input

description:
Aged/Control IgG treated Input
sample name:
ctlin

tag: treatment

value: Aged/Control IgG

value: Aged


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc55]


title: Embryo_7 Mesoderm [DNA_batch4_sc54]


title: Adult Input

description:
Adult Input
sample name:
yin

value: Adult


title: Embryo_11 Endoderm [DNA_batch4_sc53]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc52]


title: Secukinumab.BL.NL.1001011

tag: disease state

value: psoriasis

value: Secukinumab

value: Skin


title: Aged/Anti-IL17A/F treated chip-seq

description:
Aged/Anti-IL17A/F treated chip-seq
sample name:
ttd


title: Male,infected, lung, rep1


title: Embryo_7 Mesoderm [DNA_batch4_sc51]


title: Secukinumab.W52.LS.1001011

tag: subject


title: Secukinumab.W12.NL.1001011

tag: timepoint


title: Placebo.BL.LS.1001010

value: BL

tag: tissue


title: Placebo.W52.LS.1001010

value: LS

tag: specimen


title: Aged/Control IgG treated chip-seq

description:
Aged/Control IgG treated chip-seq
sample name:
ctl


title: Embryo_7 Mesoderm [DNA_batch4_sc50]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc49]


title: Embryo_3 EVT [DNA_batch4_sc5]


title: Secukinumab.W52.NL.1001011

value: NL


title: Adult chip-seq

description:
Adult chip-seq
sample name:
y


title: Placebo.W12.LS.1001010


title: Embryo_5 EPI [DNA_batch4_sc48]

value: in vitro


title: Placebo.W52.NL.1001010


title: Placebo.BL.NL.1001010


title: Embryo_8 Neural ectoderm [DNA_batch4_sc47]

value: Embryo


title: bamy_frag_r3_s_r_v1

organism: Bacillus amyloliquefaciens

source_name: Liquid culture of  Bacillus amyloliquefaciens.

value: Untreated

value: bamy_frag_rep3 was grown in LB broth at 37C and harvested at exponential growth phase OD600 0.98

value: random fragmented ( 5PSeq)

tag: ribosomal rna delpetion strategy

value: Ribo-Zero rRNA Removal Kit (Bacteria) Illumina


title: Placebo.W12.NL.1001010

value: Placebo


title: Embryo_7 Mesoderm [DNA_batch4_sc46]

value: WT


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc43]


title: Embryo_7 Mesoderm [DNA_batch4_sc42]


title: Embryo_1 EXMC [DNA_batch4_sc40]


title: Embryo_1 EXMC [DNA_batch4_sc4]


title: Embryo_5 EPI [DNA_batch4_sc38]


title: bamy_frag_r1_s_r_v1

value: bamy_frag_rep1was grown in LB broth at 37C and harvested at exponential growth phase OD600 0.8


title: Placebo.W52.NL.1001009


title: bamy_ctr_r3_s_r_v1

value: bamy_ctr_rep3 was grown in LB broth at 37C and  harvested at exponential growth phase OD600 0.98

value: Standard 5PSeq


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc37]


title: Placebo.W12.NL.1001009

value: psoriasis


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc45]


title: Embryo_1 EXMC [DNA_batch4_sc36]


title: Embryo_9 Extraembryonic Mesoderm [DNA_batch4_sc44]


title: Embryo_1 EXMC [DNA_batch4_sc33]


title: bamy_frag_r2_s_r_v1

value: bamy_frag_rep2 was grown in LB broth at 37C and harvested at exponential growth phase OD600 0.78


title: Placebo.BL.LS.1001009

value: Skin


title: Embryo_1 EXMC [DNA_batch4_sc34]


title: Placebo.W12.LS.1001009


title: Embryo_1 EXMC [DNA_batch4_sc32]


title: bamy_ctr_r1_s_r_v1

value: bamy_ctr_rep1 was grown in LB broth at 37C and harvested at exponential growth OD600 0.8


title: Embryo_1 EXMC [DNA_batch4_sc31]


title: bamy_cam_r3_s_r_v1

value: 100microg/ml Chloramphenicol incubated for 5 minutes at 37C

value: bamy_cam_rep3 was grown in LB broth at 37C.  Chloramphenicol treatment was initiated at exponential growth phase OD600 0.98


title: Embryo_4 STB [DNA_batch4_sc3]

value: in vitro


title: Embryo_1 EXMC [DNA_batch4_sc29]

value: Embryo


title: bamy_ctr_r2_s_r_v1

value: Untreated

value: bamy_ctr_rep2 was grown in LB broth at 37C and harvested at exponential growth OD600 0.78


title: bamy_cam_r1_s_r_v1

value: 100microg/ml Chloramphenicol for 5 minutes at 37C

value: bamy_cam_rep1 was grown in LB broth at 37C. Chloramphenicol treatment was initiated at exponential growth OD600 0.8

value: Standard 5PSeq,


title: Embryo_1 EXMC [DNA_batch4_sc28]

value: WT


title: Secukinumab.W52.LS.1001008

value: Secukinumab

value: LS


title: Secukinumab.BL.LS.1001008

value: BL


title: Secukinumab.BL.NL.1001008

value: psoriasis

value: NL


title: Embryo_5 EPI [DNA_batch4_sc26]


title: Embryo_2 CTB [DNA_batch4_sc27]


title: Secukinumab.W12.LS.1001008

value: Skin


title: Embryo_1 EXMC [DNA_batch4_sc24]