title: Output sample of replicate 2 of bindingPCA screen of Batch 1

description:
Library name: Batch 1 - Output 2
TableS1_all_unfiltered_data.txt


title: Chol-Orgs (CH159B)

status: Public on Aug 28 2025

type: SRA

city: Barcelona

first: Juanjo

last: Lozano

address: C/ Rosselló 153

department: Plataforma de Bioinformatica

country: Spain

institute: CIBEREHD

library_source: transcriptomic

data_processing:
Raw reads were analyzed for data quality using FastQC v0.11.5 (Babraham Bioinformatics) and eventually filtered using skewer v0.2.2 (Jiang et al., 2014) for removing the low quality reads and trimming the Illumina adapter if necessary.
Mapping of the reads were obtained using the STAR program against human genome (GRCh38) and the quantification of genes and transcripts were done with the RSEM program using GENCODE.v26 database .
Assembly: Homo Sapiens (GRCh38)
Supplementary files format and content: Expected counts (RSEM)

molecule: total RNA

organism: Homo sapiens

source_name: Liver Organoids

growth_protocol: b-Orgs and Chol-Orgs were grown embedded in Matrigel (Corning). HEP medium used for b-Orgs generation was previously described by H. Hu et al. Cell 2018. BEC medium used for b-Orgs and Cho-Orgs generation was previously described by L. Broutier et al. Nat Protoc 2016.

extract_protocol:
Total RNA was extracted from total liver tissue and from cultured organoids using the commercial RNeasy Micro and Mini Kits (Qiagen) following manufacturer’s instructions.
Sequencing libraries were prepared using NuGEN Universal Plus mRNA-Seq kit (PART NO. 0508, 9133, 9134) and following the user guides (M01442v2 and M01485v8).

treatment_protocol: To model disease progression, b-Orgs generated with HEP medium were treated for 5 days with AH-medium. AH-medium consisted of HEP-medium with 100ng/mL LPS (Sigma, L2637), 20ng/mL rhTNFa (Genscript, Z01001), 10ng/mL rhIL1b (Preprotech, 200-01B) and 100mM EtOH. Vehicle group was just cultured with HEP-medium.

tag: tissue

value: Liver Organoids

tag: sample group

value: Chol-Orgs


title: Input sample of replicate 1 of bindingPCA screen of Batch 2

city: Basel

first: Alexandra

middle: Michaela

last: Bendel

address: Maulbeerstr. 66

department: Genome Regulation

country: Switzerland

institute: Friedrich Miescher Institute for Biomedical Research

description:
Library name: Batch 2 - Input 1
TableS1_all_unfiltered_data.txt

library_source: other

data_processing:
Reads were processed with mutscan (Soneson et al. 2023)
Supplementary files format and content: tab-deliminated text files; contains read counts (barcode-association data) logFC (binding PCA) and further information, depending on dataset

molecule: other

organism: Saccharomyces cerevisiae

extract_protocol:
For the barcode variant association, DNA was extracted from the transformed E. coli cells using the NucleoBond® PC 500 kit (Macherey-Nagel, Düren, Germany). For the yeast libraries, DNA was extracted using a custom yeast Midiprep protocol
Sequencing libraries were constructed by PCR with primers cotaining the illumina adapters

tag: cell type


title: WT2_Treg_1

city: CAMBRIDGE

first: Jacques

last: Deguine

state: Massachusetts

address: 415 Main Street, 415M-7175 - Xavier lab

department: Immunology Program

country: USA

institute: Broad Institute

description: Library name: WT2_Treg_1_S51

data_processing:
Demultiplexed fastq files were pseudoaligned and counted with kallisto
Assembly: GRCm38
Supplementary files format and content: Abundance files for individual isoforms as produced by kallisto, as tsv files

molecule: polyA RNA

organism: Mus musculus

source_name: T cell

extract_protocol:
Cells were lyzed in RLT buffer (Qiagen)
Libraries were constructed from lysates using 10 ng of total RNA according to the standard Smart-Seq protocol (Ramsköld et al., 2012) before indexing and sequencing on a NextSeq 500.

treatment_protocol: Naïve CD4+ T cells were isolated by using EasySep Mouse Naïve CD4+ T Cell isolation Kit and 1 million/mL of cells was cultured in 2 μg/mL anti-CD3/anti-CD28-coated 96-well plates under different cytokine conditions for 3 days: Th0: no added cytokines, Th1: 10ng/mL IL-12, Th17n: 25ng/mL IL-6 and 2ng/mL TGF-b1, Th17p: 25ng/mL IL-6 and 20ng/mL IL-1b and 20ng/mL IL-23, Treg: 3ng/mL TGF-b1.

value: T cell

tag: genotype

tag: treatment

value: Treg

tag: animal


title: WT2_Th1_2

description: Library name: WT2_Th1_2_S16


title: HTO3, scRNAseq

city: Wako

first: Jun

last: Nagai

state: Saitama

address: 2-1 Hirosawa

department: Center for Brain Science

country: Japan

institute: RIKEN

description:
10x genemics
barcodes3.tsv.gz
features3.tsv.gz
matrix3.mtx.gz

library_source: transcriptomic single cell

data_processing:
Sequence reads were processed and aligned to the mouse genome (mm10) to produce gene counts using CellRanger 3.0.
Assembly: mm10
Supplementary files format and content: Tab-separated values files and matrix files

source_name: Amygdala

extract_protocol:
Mice were anesthetized with isoflurane 90 min after the initiation of behavioral paradigms and transcardially perfused with 1x PBS (30 mL for 2 min). The amygdala was freshly dissected out using the Brain Matrix (Ted Pella, 15067) and was placed into cold Hanks’ balanced salt solution (HBSS) (14025092, Gibco) containing 10 mM HEPES (17514-15, Naclai Tesque), 0.54 % glucose (16806-25, Naclai Tesque), 5.0 µg/mL Actinomycin D (A1410, Sigma-Aldrich), 10 µM Triptolide (T3652, Sigma-Aldrich) and 27.1 µg/mL Anisomycin (A9789, Sigma-Aldrich). Then, the tissue block was incubated for 15 min at 37 °C in 3 mL enzyme solution (1x HBSS, 10 mM HEPES, 0.54 % glucose, 0.5 mM EDTA (15575020, Invitrogen), 1.0 mM L-Cys (10309-41, Naclai Tesque), 5.0 µg/mL Actinomycin D, 10 µM Triptolide and 27.1 µg/mL Anisomycin) containing 20 U of papain per mouse (LS003127, Worthington Biochemical). The tissue was then homogenized by passing through a 18G needle and was further incubated for 15 min at 37 °C. Following homogenization using a 20G needle, the resulting cell suspension was centrifuged at 500 x g for 5 min at 4 °C. The homogenate was separated by gradient centrifugation with 30% Percoll (P1644, Sigma-Aldrich) in 1x PBS at 500 x g for 25 min at 4 °C (no brake). The pellet containing astrocyte at the bottom of the tube was then collected and washed once with PBS containing 2 % FBS and 10 mM EDTA before staining. Fc receptors were blocked with Fc block (2.4G2, BD Bioscience) for 10 min at 4 °C before incubation with the primary antibodies. Cells were stained with antibodies directed against CD11b-BV786 (M1/70, BD Bioscience), CD45-APC-Cy7 (30-F11, BioLegend), O1-eFluor660 (50-6506-82, eBioscience) and ASCA2-PE-Cy7 (130-116-246, Miltenyi Biotec) for 40 min Additionally, cells were treated with hashtag antibodies to label source samples (TotalSeqB0301-B0310, B0312 and B0314, BioLegend). After washing, cells were sorted using a CytoFLEX SRT (Beckman Coulter).
Data were acquired with CytExpert software (Beckman Coulter). Post-acquisition analysis was performed using FlowJo software, version 10.9.0. Single cell libraries were generated and sequenced on the Illumina NextSeq500 sequencer.

value: Amygdala

tag: strain

value: Astrocyte

value: Wildtype

tag: Sex

value: male


title: Output sample of replicate 1 of bindingPCA screen of Batch 1

description:
Library name: Batch 1 - Output 1
TableS1_all_unfiltered_data.txt


title: Chol-Orgs (CH129B)


title: HTO2, scRNAseq

description:
10x genemics
barcodes2.tsv.gz
features2.tsv.gz
matrix2.mtx.gz


title: Input sample of replicate 3 of bindingPCA screen of Batch 1

description:
Library name: Batch 1 - Input 3
TableS1_all_unfiltered_data.txt


title: b-Orgs BEC advanced stage (LM348B)

value: b-Orgs BEC advanced stage


title: WT2_Th17n_1

description: Library name: WT2_Th17n_1_S27


title: GEX1, scRNAseq

description: 10x genemics


title: WT2_Th17p_1

description: Library name: WT2_Th17p_1_S39


title: b-Orgs HEP advanced stage (LM344H)

value: b-Orgs HEP advanced stage


title: HTO1, scRNAseq

description:
10x genemics
barcodes1.tsv.gz
features1.tsv.gz
matrix1.mtx.gz


title: Chol-Orgs (CH147B)


title: WT2_Th1_1

description: Library name: WT2_Th1_1_S15


title: GEX2, scRNAseq

description: 10x genemics


title: b-Orgs HEP advanced stage (LM348H)


title: Input sample of replicate 2 of bindingPCA screen of Batch 1

description:
Library name: Batch 1 - Input 2
TableS1_all_unfiltered_data.txt


title: WT2_Th17p_2

description: Library name: WT2_Th17p_2_S40


title: Input sample of replicate 1 of bindingPCA screen of Batch 1

description:
Library name: Batch 1 - Input 1
TableS1_all_unfiltered_data.txt


title: b-Orgs HEP advanced stage (LM366H)


title: WT2_Th17n_2

description: Library name: WT2_Th17n_2_S28


title: iCLIP_HuR_PerC_B_1

city: Toulouse

first: Manuel

middle: D

last: Diaz-Munoz

address: CHU Purpan, BP3028

country: France

institute: INSERM

data_processing:
See Konig et al. for all details (Nature Structural & Molecular Biology 17, 909–915 (2010)). Raw sequence reads were trimmed to remove both barcodes and adapters. AATGATACGGCGACCACCGAGATCTACACTCTTTCCCTACACGACGCTCTTCCGATCT and CAAGCAGAAGACGGCATACGAGATCGGTCTCGGCATTCCTGCTGAACCGCTCTTCCGATCT
Remaining sequences were mapped to the mouse mm10 genome (Ensembl59 genome annotation) using Bowtie (Langmead, B., Trapnell, C., Pop, M. & Salzberg, S.L. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 10, R25 (2009).).
Deduplication and identification of unique cDNA counts was performed based on the random bases present in the 5' barcode.
Position -1 of uniquely annotated reads to the genome was annotated as the crosslink site.
Peak enrichment analysis of HuR binding sites was performed. Unique HuR crosslink sites were identified as previously described (See Konig et al. for all details (Nature Structural & Molecular Biology 17, 909–915 (2010)). Briefly, 15 nucleotide windows flanking the crosslink site were generated, 100 permutations were allowed and multiple test correction of p-values (Benjamini-Hochberg) was performed to calculate FDR.
Assembly: mm10
Supplementary files format and content: tsv file contain the annotation of unique nucleotide crosslinks

source_name: Peritoneal cavity

growth_protocol: B cells form the peritoneal cavity of C57BL/6 mice were isolated by staining with an anti-CD19 antibody followed by FACs sorting.

extract_protocol:
RIPA buffer and sonication (10s, x3) was used for cell lysate and clarification. Protein:RNA complexes were immunoprecipitated for RNA extraction and small RNA library preparation
L3-ATT-App DNA Linker (/5rApp/WN ATT AGA TCG GAA GAG CGG TTC AG/3Bio/) linker primer and irCLIP_ddRT primer_43 (/5Phos/WWW AGTTA NNNN AGA TCG GAA GAG CGT CGT GAT/iSp18/GGA TCC/iSp18/TAC TGA ACC GC) were used for library preparation as previously described for iCLIP

treatment_protocol: Cells were kept in ice-cold RPMI medium and wash with ice-cold PBS before irradiation with UV light (600 mJ/cm2, Stratalinker 2400).

value: Peritoneal cavity

value: Peritoneal B cells

tag: rip antibody

value: Mouse anti-HuR (clone 3A2), Santa Cruz

tag: index

value: NNNNAGTTANNN


title: GEX3, scRNAseq

description: 10x genemics


title: Csa brain 24m 1_5

city: São Paulo

first: Gustavo

middle: Satoru

last: Kajitani

state: SP

address: Rua itapiru 53, ap 25

department: Departamento de Morfologia e Genética

country: Brazil

institute: Universidade Federal de São Paulo

description:
Library name: Sample 30
Column name in raw_counts_Csa_WT.csv: Csa_24m_05

data_processing:
SOLiD .xsq files were converted to .fastq format using XSQTools
.fastq files were trimmed for adapter sequences/read quality using trimmomatic v.0.3.9 (parameters: phred33 SLIDINGWINDOW:4:5 LEADING:36 TRAILING:36 MINLEN:25 AVGQUAL: 20)
Trimmed sequences were aligned to mm10 using HISAT2 v.2.2.1 default values. SAM files were converted into BAM using samtools. Read counts were obtained from BAM files using subread v.2.0.1.
Assembly: mm10
Supplementary files format and content: .csv file containing raw counts of each sample

source_name: Brain

extract_protocol:
Brains were pulverized using mortal and pestle, and RNA was extracted using TRIzol-chloroform standard protocol. Quantification was performed using Qubit RNA High Sensitivity kit, and quality was analyzed using Bioanalyzer. Poly-A RNA were enriched using Poly(A)Purist Kit (ThermoFisher).
mRNA libraries were prepared using SOLiD Total RNA-Seq Kit (ThermoFisher) according to manufacturer's instructions. Each sample was sequenced 5 times using AB SOLiD System (Thermo Fisher) in a 2x75bp format at the Core facility for scientific research in University of São Paulo (CEFAP-USP).

treatment_protocol:
Animals were kept in 12/12 light/dark conditions under a constant temperature of 20 degrees celsius, on filtered air cages, and fed ad libitum. Cages were replaced and washed at least once a week. All animals were genotyped according to their original paper protocol (PMID: 12509261).
Animals were kept under animal care protocol conditions until reaching their respective ages (45 days, 12 months, 24 months). In their respective timepoints, mice were euthanized using anesthesia overdose (xylazine + ketamine), then had their brains harvested and frozen in dry ice. Brains were stored in -80 freezers until RNA extraction.

value: Brain

value: Csa -/-

tag: time

value: 24 months

tag: batch


title: M6_2

city: Tianjin

first: Jinyang

last: Li

address: No. 32, Xiqi Road, Tianjin Airport Economic Park

country: China

institute: Chinese Academy of Sciences

description: Library name: sample 11

data_processing:
Prior to read mapping, adaptors and low-quality reads were trimmed using fastp v0.19.5. Filtered clean reads were aligned against predicted transcripts from the C. clavata YC1106 genome v1.0 using HISAT2 v2.1.0. The read counts were determined using RSEM v1.3.3. The abundance of each transcript was calculated based on the fragments per kilobase of transcript per million mapped reads (FPKM) values. Differential gene expression analysis was performed in R v3.6.3, using DESeq2.
Assembly: https://www.ncbi.nlm.nih.gov/datasets/genome/GCA_023920165.1/
Supplementary files format and content: Tab-delimited text file includes FPKM values for each sample
Supplementary files format and content: Excel file containing the matrix table

organism: Curvularia clavata

source_name: Mycelia

extract_protocol:
Total RNA was isolated using TRIzol reagent (Invitrogen, Carlsbad, CA, USA), treated with DNase I and purified using a Qiagen RNeasy Mini Kit (Qiagen, Hilden, Germany). RNA integrity was confirmed by agarose gel electrophoresis and an Agilent Bioanalyzer 2100 system (Agilent Technologies, Santa Clara, CA, USA). Qualified RNA with A260/A280 > 2.0 and RNA integrity number (RIN) > 8.0 was used for RNA-Seq.
The complementary DNA libraries were constructed and sequenced using the Illumina HiSeq 2000 platform by Majorbio (Shanghai Majorbio Bio-Pharm Technology Co., Ltd., China).

value: Mycelia

value: Evolved

value: Lignosulfonate


title: M6_3

description: Library name: sample 12


title: b-Orgs BEC advanced stage (LM344B)

value: Liver Organoids


title: WT2_Th0_2

description: Library name: WT2_Th0_2_S4

value: T cell


title: b-Orgs HEP generation T0  (486T0)

value: b-Orgs HEP generation T0


title: M6_1

description: Library name: sample 10


title: b-Orgs BEC advanced stage (LM366B)


title: WT2_Th0_1

description: Library name: WT2_Th0_1_S3


title: Liver biopsy tissue advanced stage (LM348T)

source_name: Liver biopsy tissue

value: Liver biopsy tissue

value: Liver biopsy tissue advanced stage


title: Csa brain 24m 1_3

description:
Library name: Sample 28
Column name in raw_counts_Csa_WT.csv: Csa_24m_03


title: Csa brain 24m 1_2

description:
Library name: Sample 27
Column name in raw_counts_Csa_WT.csv: Csa_24m_02


title: J1_2

description: Library name: sample 8

value: WT


title: Csa brain 24m 1_4

description:
Library name: Sample 29
Column name in raw_counts_Csa_WT.csv: Csa_24m_04


title: WT1_Treg_2

description: Library name: WT1_Treg_2_S50

value: Treg


title: Liver biopsy tissue advanced stage (LM344T)


title: J1_3

description: Library name: sample 9


title: J1_1

description: Library name: sample 7


title: WT_L3

description: Library name: sample 6

value: Alkaline lignin


title: WT1_Treg_1

description: Library name: WT1_Treg_1_S49


title: b-Orgs HEP early stage  (LM353H)

value: b-Orgs HEP early stage


title: WT1_Th1_2

description: Library name: WT1_Th1_2_S14


title: WT1_Th1_1

description: Library name: WT1_Th1_1_S13


title: Liver biopsy tissue advanced stage (LM366T)


title: Csa brain 12m 1_4

description:
Library name: Sample 24
Column name in raw_counts_Csa_WT.csv: Csa_12m_04

value: 12 months


title: Csa brain 12m 1_5

description:
Library name: Sample 25
Column name in raw_counts_Csa_WT.csv: Csa_12m_05


title: b-Orgs HEP early stage (LM345H)


title: WT1_Th17p_2

description: Library name: WT1_Th17p_2_S38


title: Csa brain 12m 1_3

description:
Library name: Sample 23
Column name in raw_counts_Csa_WT.csv: Csa_12m_03


title: Csa brain 24m 1_1

description:
Library name: Sample 26
Column name in raw_counts_Csa_WT.csv: Csa_24m_01


title: WT_L2

description: Library name: sample 5


title: WT_L1

description: Library name: sample 4


title: Csa brain 12m 1_2

description:
Library name: Sample 22
Column name in raw_counts_Csa_WT.csv: Csa_12m_02


title: b-Orgs HEP early stage (LM369H)


title: WT1_Th17p_1

description: Library name: WT1_Th17p_1_S37


title: b-Orgs BEC early stage (LM353B)

value: b-Orgs BEC early stage


title: WT1_Th17n_2

description: Library name: WT1_Th17n_2_S26


title: Csa brain 12m 1_1

description:
Library name: Sample 21
Column name in raw_counts_Csa_WT.csv: Csa_12m_01

value: Brain


title: WT_G2

description: Library name: sample 2

value: Glucose


title: b-Orgs BEC early stage (LM345B)


title: WT_G1

description: Library name: sample 1


title: b-Orgs BEC early stage (LM369B)


title: Csa brain 1m15d 1_5

description:
Library name: Sample 20
Column name in raw_counts_Csa_WT.csv: Csa_1m15d_05

value: Csa -/-

value: 45 days


title: Csa brain 1m15d 1_4

description:
Library name: Sample 19
Column name in raw_counts_Csa_WT.csv: Csa_1m15d_04


title: WT1_Th0_2

description: Library name: WT1_Th0_2_S2


title: Liver biopsy tissue early stage (LM353T)

value: Liver biopsy tissue early stage


title: RNA-seq. EHEC str. Sakai ∆rhsF ∆rhsFI pZE12::rhsFint rhsFI (complement) biological replicate 3

city: Sydney

first: Jai

middle: Justin

last: Tree

state: NSW

address: Rm s110 Bldg F25, UNSW, Gate 11 Botany St

department: School of Biotechnology and Biomolecular Sciences

country: Australia

institute: University of New South Wales

description:
Library name: RNA-seq_complement_3
READemption DESeq2 output file= complement/∆rhsF ∆rhsFI
deseq_output_complement_vs_rhsF-rhsFI_countings.csv

data_processing:
RNA-seq samples:
READemption version 2.0.3 was used for alignment, read counting, quantification of gene expression, differential expression analysis using DESeq2. The command below were used for each step:
reademption align -q -p 6 -Q 30
reademption coverage -p 6
reademption gene_quanti -p 6
reademption deseq --libs TZ_EHEC_WT_1_ZAM12531A1_S1_L001_R1_001,TZ_EHEC_WT_2_ZAM12531A2_S6_L001_R1_001,TZ_EHEC_WT_3_ZAM12531A3_S5_L001_R1_001,TZ_EHEC_Ddel_1_ZAM12531A4_S4_L001_R1_001,TZ_EHEC_Ddel_2_ZAM12531A5_S3_L001_R1_001,TZ_EHEC_Ddel_3_ZAM12531A6_S8_L001_R1_001,TZ_EHEC_Comp_1_ZAM12531A7_S2_L001_R1_001,TZ_EHEC_Comp_2_ZAM12531A8_S9_L001_R1_001,TZ_EHEC_Comp_3_ZAM12531A9_S7_L001_R1_001 --conditions control,control,control,Ddel,Ddel,Ddel,complement,complement,complement --replicates 1,2,3,1,2,3,1,2,3 --libs_by_species ehec=TZ_EHEC_WT_1_ZAM12531A1_S1_L001_R1_001,TZ_EHEC_WT_2_ZAM12531A2_S6_L001_R1_001,TZ_EHEC_WT_3_ZAM12531A3_S5_L001_R1_001,TZ_EHEC_Ddel_1_ZAM12531A4_S4_L001_R1_001,TZ_EHEC_Ddel_2_ZAM12531A5_S3_L001_R1_001,TZ_EHEC_Ddel_3_ZAM12531A6_S8_L001_R1_001,TZ_EHEC_Comp_1_ZAM12531A7_S2_L001_R1_001,TZ_EHEC_Comp_2_ZAM12531A8_S9_L001_R1_001,TZ_EHEC_Comp_3_ZAM12531A9_S7_L001_R1_001
Assembly: NC002695.2
Supplementary files format and content: RNA-seq samples: output from READemption
CRAC samples:
trimming ->flexbar; Dodt et al Biology (Basel) 2012
alignment ->novoalign; http://www.novocraft.com/products/novoalign/
mapping ->pyReadCounters (pyCRAC package); https://bitbucket.org/sgrann/pycrac/src/default/
Supplementary files format and content: CRAC samples: Bedgraph and SGR format files containing chromosome, position and read depth. A separate file is provided for each strand - indicated plus or minus in the file name

organism: Escherichia coli O157:H7 str. Sakai

source_name: whole bacterial cells

growth_protocol:
RNA-seq samples: Samples were inoculated 1/100 from overnight LB cultures into MEM-HEPES media supplemented with 0.1% glucose and 250nM FeNO3. The culture was growth to OD600=0.8 before harvesting by centrifugation
CRAC samples: Samples were inoculated 1/100 from overnight LB cultures into MEM-HEPES media supplemented with 0.1% glucose and 250nM FeNO3. The culture was growth to OD600=0.8 before harvesting by centrifugation

extract_protocol:
RNA-seq samples: RNA was extracted using GTC-phenol as per PMID: 2953599
RNA-seq samples: Total RNA sequence sampels were processed at the Ramaciotti Centre for Genomics at the University of New South Wales using standard protcols.
CRAC samples: RNA was extracted using the previsouly published CRAC protocol (PMID: 24910100)
CRAC samples: Libraries were constructed as per PMID: 24910100

treatment_protocol:
No treatment
No treatment

value: whole bacterial cells

value: rhsF rhsFI pZE12::rhsFint rhsFI


title: WT1_Th0_1

description: Library name: WT1_Th0_1_S1

value: T cell


title: RNA-seq. EHEC str. Sakai ∆rhsF ∆rhsFI pZE12::rhsFint rhsFI (complement) biological replicate 2

description:
Library name: RNA-seq_complement_2
READemption DESeq2 output file= complement/∆rhsF ∆rhsFI
deseq_output_complement_vs_rhsF-rhsFI_countings.csv


title: KO3_Treg_1

description: Library name: KO3_Treg_1_S59


title: RNA-seq. EHEC str. Sakai ∆rhsF ∆rhsFI pZE12::rhsFint rhsFI (complement) biological replicate 1

description:
Library name: RNA-seq_complement_1
READemption DESeq2 output file= complement/∆rhsF ∆rhsFI
deseq_output_complement_vs_rhsF-rhsFI_countings.csv


title: RNA-seq. EHEC str. Sakai ∆rhsF ∆rhsFI biological replicate 3

description:
Library name: RNA-seq_rhsF_rhsFI_3
READemption DESeq2 output file, ∆rhsF ∆rhsFI/WT
deseq_output_rhsF-rhsFI_vs_WT_countings.csv

value: rhsF rhsFI


title: Liver biopsy tissue early stage (LM369T)

value: Liver biopsy tissue


title: Liver biopsy tissue early stage (LM345T)


title: Csa brain 1m15d 1_2

description:
Library name: Sample 17
Column name in raw_counts_Csa_WT.csv: Csa_1m15d_02


title: Csa brain 1m15d 1_3

description:
Library name: Sample 18
Column name in raw_counts_Csa_WT.csv: Csa_1m15d_03


title: KO3_Th1_2

description: Library name: KO3_Th1_2_S24


title: Csa brain 1m15d 1_1

description:
Library name: Sample 16
Column name in raw_counts_Csa_WT.csv: Csa_1m15d_01


title: WT brain 24m 1_5

description:
Library name: Sample 15
Column name in raw_counts_Csa_WT.csv: WT_24m_05

value: 24 months


title: WT_G3

description: Library name: sample 3

value: Mycelia

value: WT


title: RNA-seq. EHEC str. Sakai ∆rhsF ∆rhsFI biological replicate 2

description:
Library name: RNA-seq_rhsF_rhsFI_2
READemption DESeq2 output file, ∆rhsF ∆rhsFI/WT
deseq_output_rhsF-rhsFI_vs_WT_countings.csv


title: KO3_Th1_1

description: Library name: KO3_Th1_1_S23


title: WT brain 24m 1_4

description:
Library name: Sample 14
Column name in raw_counts_Csa_WT.csv: WT_24m_04


title: RNA-seq. EHEC str. Sakai ∆rhsF ∆rhsFI biological replicate 1

description:
Library name: RNA-seq_rhsF_rhsFI_1
READemption DESeq2 output file, ∆rhsF ∆rhsFI/WT
deseq_output_rhsF-rhsFI_vs_WT_countings.csv


title: WT1_Th17n_1

description: Library name: WT1_Th17n_1_S25


title: seed_22C_R1

city: Norwich

first: Xiaochao

last: Chen

address: Norwich Research Park, Colney Ln

department: Crop Genetics

country: United Kingdom

institute: John Innes Centre

data_processing:
Raw RNA-seq reads were trimmed using cutadapt-1.9.1
mapped to Arabidopsis thaliana TAIR10 reference genome using STAR-2.5.a
featureCounts (Liao et al., 2014) was used to count the numbers of reads mapped to each gene
Assembly: TAIR10
Supplementary files format and content: TPM values for each gene

organism: Arabidopsis thaliana

source_name: Seed

growth_protocol: Arabidopsis plants were grown in 22°C till bolting, then transferred to 16°C or 22°C as indicated. The Day 0 (0DAP) was identified by the first emergence of petals from the buds.  At bent-cotyledon stage, Col16 (14-15DAP), Col22(6-7DAP), lhp1(14-15DAP) siliques were manually dissected under microscope. Separated fruits and seeds from 3-5 siliques were collected as one biological replicate.

extract_protocol:
RNA was extracted using RNeasy Plant Mini Kit (Qiagen, 74904).
Fruits and seeds RNA samples were sequenced at BGI (China) using DNBSEQ, 100-bp paired-end sequences with minimum 25 million reads acquired per sample

value: Seed


title: WT brain 24m 1_3

description:
Library name: Sample 13
Column name in raw_counts_Csa_WT.csv: WT_24m_03


title: KO3_Th17p_2

description: Library name: KO3_Th17p_2_S48


title: fruit_22C_R3

source_name: Fruit

value: Fruit


title: WT brain 24m 1_2

description:
Library name: Sample 12
Column name in raw_counts_Csa_WT.csv: WT_24m_02


title: KO3_Th17p_1

description: Library name: KO3_Th17p_1_S47


title: RNA-seq. Wild type E. coli O157:H7 str Sakai (EHEC, Stx-) (Dahan et al I&I 2004) biological replicate 3

description:
Library name: RNA-seq_WT_3
READemption DESeq2 output file, ∆rhsF ∆rhsFI/WT
deseq_output_rhsF-rhsFI_vs_WT_countings.csv


title: KO3_Treg_2

description: Library name: KO3_Treg_2_S60

value: Treg


title: fruit_22C_R2


title: KO3_Th17n_2

description: Library name: KO3_Th17n_2_S36


title: seed_22C_R3


title: RNA-seq. Wild type E. coli O157:H7 str Sakai (EHEC, Stx-) (Dahan et al I&I 2004) biological replicate 2

description:
Library name: RNA-seq_WT_2
READemption DESeq2 output file, ∆rhsF ∆rhsFI/WT
deseq_output_rhsF-rhsFI_vs_WT_countings.csv


title: WT brain 24m 1_1

description:
Library name: Sample 11
Column name in raw_counts_Csa_WT.csv: WT_24m_01


title: seed_22C_R2


title: fruit_22C_R1


title: B2_KO3

data_processing:
Sample raw sequencing files were processed using nextflow nf-core/RNAseq pipeline (v3.8.1).
Reads trimmed with Cutadapt (v3.4) and Trimgalore (v.0.6.7). The quality of resulting reads was assessed with FASTQC-0.11.9 using default parameters.
Paired-end reads were aligned to the mouse genome (GRCm39-release 103) and quantified with STAR-2.7.5a (with options --runMode alignReads --outSAMtype BAM SortedByCoordinate --quantMode TranscriptomeSAM GeneCounts --twopassMode Basic, with option --sjdbOverhang 100). Alignment files were indexed using SamTools (v. 1.9).
R (v4.0.2) and DESeq2 (v1.28.1) was used for differential expression analysis using default parameters.
Assembly: mm10 (GRCm39-v103)
Supplementary files format and content: csv files. DESeq2 normalized gene counts

extract_protocol:
B-2 and B-1a cells from the peritoneal cavity of Elavl1fl/fl and Elavl1fl/fl Mb1Cre mice were isolated by FACs sorting. B-2 cells - CD19+ B220hi CD43- CD5- CD11blow and B-1a cells - CD19+ B220low CD43+ CD5+ CD11bhi.
Total RNA was isolated using a RNeasy Micro Kit from Qiagen
libraries generated using the NEBNext® Single Cell/Low Input RNA Library Prep Kit for Illumina® (New England BioLabs). NEBNext® Multiplex Oligos for Illumina® (Dual Index Primers Set 1 or 2)
mRNA-seq library and PE 100 bp sequencing using a DNBSeq platform

value: Peritoneal cavity

value: HuR KO

value: ex-vivo

tag: neb index_id_(index_i5)_number_id

tag: neb index_id_(index_i5)_sequence

value: GGCTCTGA

tag: neb index_id_(index_i7)_number_id

tag: neb index_id_(index_i7)_sequence

value: AGCGATAG


title: WT brain 12m 1_5

description:
Library name: Sample 10
Column name in raw_counts_Csa_WT.csv: WT_12m_05

value: Brain

value: 12 months


title: seed_16C_R3


title: KO3_Th17n_1

description: Library name: KO3_Th17n_1_S35


title: WT brain 12m 1_4

description:
Library name: Sample 9
Column name in raw_counts_Csa_WT.csv: WT_12m_04


title: WT brain 12m 1_3

description:
Library name: Sample 8
Column name in raw_counts_Csa_WT.csv: WT_12m_03


title: B2_WT4

value: TCTCGCGC


title: KO3_Th0_1

description: Library name: KO3_Th0_1_S11

value: T cell


title: seed_16C_R2


title: B2_KO1

value: ATAGAGGC

value: CTGAAGCT


title: seed_16C_R1


title: WT brain 12m 1_2

description:
Library name: Sample 7
Column name in raw_counts_Csa_WT.csv: WT_12m_02


title: fruit_16C_R3


title: KO2_Treg_1

description: Library name: KO2_Treg_1_S57


title: KO2_Treg_2

description: Library name: KO2_Treg_2_S58


title: WT brain 12m 1_1

description:
Library name: Sample 6
Column name in raw_counts_Csa_WT.csv: WT_12m_01


title: KO2_Th1_2

description: Library name: KO2_Th1_2_S22


title: B2_WT3

value: GAATTCGT


title: RNA-seq. Wild type E. coli O157:H7 str Sakai (EHEC, Stx-) (Dahan et al I&I 2004) biological replicate 1

description:
Library name: RNA-seq_WT_1
READemption DESeq2 output file, ∆rhsF ∆rhsFI/WT
deseq_output_rhsF-rhsFI_vs_WT_countings.csv

value: whole bacterial cells


title: fruit_16C_R2


title: WT brain 1m15d 1_5

description:
Library name: Sample 5
Column name in raw_counts_Csa_WT.csv: WT_1m15d_05

value: WT

value: 45 days


title: B2_WT2

value: ATTCAGAA


title: KO2_Th1_1

description: Library name: KO2_Th1_1_S21


title: B2_WT1

value: ATTACTCG


title: KO2_Th17p_2

description: Library name: KO2_Th17p_2_S46


title: B1a_KO5

value: Peritoneal cavity

value: CCTATCCT


title: WT brain 1m15d 1_4

description:
Library name: Sample 4
Column name in raw_counts_Csa_WT.csv: WT_1m15d_04


title: KO2_Th17p_1

description: Library name: KO2_Th17p_1_S45


title: fruit_16C_R1

value: Fruit


title: Wildtype N2 embryos

city: San Francisco

first: Binyamin

last: Zuckerman

state: California

institute: UCSF

description:
Library name: N2
10x Genomics

data_processing:
Raw reads were processed using 10x Cell Ranger (9.0.1) using WBcel235 transcriptome.
Assembly: WBcel235
Supplementary files format and content: tsv files and matrix files

organism: Caenorhabditis elegans

source_name: whole embryos

growth_protocol: Synchronized worms were grown on standard NGM plates

extract_protocol:
Worms were bleach-treated to extract embryos, followed by treatment with Chitinase and Pronase E to disrupt the cuticle. Embryos are mechanically homogenized with 21G syringe needle.
Single-cell suspension was loaded on a Chromium X instrument using a GEM-X Single Cell 3' Chip Kit v4 (10x Genomics). Libraries were constructed following manufacturer's protocol.

treatment_protocol: Worms were placed in 12C 48 h prior to embryo extraction

value: whole embryos

value: embryonic

value: grown at 12C


title: B2_KO2

value: HuR KO

value: ex-vivo

value: TAATGCGC


title: B1a_WT5

value: GGCTCTGA

value: CGGCTATG


title: WT brain 1m15d 1_2

description:
Library name: Sample 2
Column name in raw_counts_Csa_WT.csv: WT_1m15d_02

value: Brain


title: KO3_Th0_2

description: Library name: KO3_Th0_2_S12

value: T cell


title: KO2_Th17n_2

description: Library name: KO2_Th17n_2_S34


city: Changwon

first: Hyo Jung

last: An

address: 11 samjeongja-ro, seongsan-gu

country: South Korea

institute: Gyeongsang National University Changwon Hospital

description: Library name: sample1

data_processing:
. The raw RNA sequencing data were extracted as fragments per kilobase of exons per million fragments mapped (FPKM) values for each sample. Differentially expressed genes (DEGs) were identified using edgeR (version 3.26.8), which employs statistical methods based on the negative binomial distribution, including empirical Bayes estimation, exact tests, generalized linear models, and quasilikelihood tests.
Assembly: sample 1 with trophoblast cells from women with normal pregnancy
Supplementary files format and content: excel files include FPKM values and read counts for each sample

source_name: placenta

extract_protocol:
RNA samples from six placental samples from women with normal pregnancies and six placental samples from women with severe PE were separately extracted and pooled into two groups for RNA sequencing.
Library preparation and validation quality checks were performed before next-generation sequencing. Ribodepletion was performed using Ribo-Zero H/M/R Gold. Using an Agilent Technologies 2100 Bioanalyzer, the total RNA integrity was checked, and samples with an RNA integrity number equal to or greater than 7 were retained. The template size distribution was checked on an Agilent Technologies 2100 Bioanalyzer using a DNA 1000 chip to verify the size of the PCR-enriched fragments. Transcriptome sequencing was performed with the Illumina platform.

value: placenta

value: trophoblast cells


title: WT brain 1m15d 1_3

description:
Library name: Sample 3
Column name in raw_counts_Csa_WT.csv: WT_1m15d_03

value: WT

value: 45 days


title: trophoblast cells from women with severe preeclampsia

description: Library name: sample2


title: WT brain 1m15d 1_1

description:
Library name: Sample 1
Column name in raw_counts_Csa_WT.csv: WT_1m15d_01


title: B1a_KO4

value: Peritoneal cavity

value: TCCGCGAA


title: crfvmate51_1_Rep1

city: Be

first: Keru

last: Wang

state: 未付

address: No.20 Nanxincun, XIangshan, Haidian District

department: Institute of botany

institute: University of Chinese Academy of Sciences

description:
Library name: crfvmate51_1_Rep1
crfvmate51_1

data_processing:
Raw FASTQ reads were trimmed using fastp to remove adapters, poly-N sequences, and low-quality bases, yielding clean reads. Read quality metrics (Q20, Q30, GC content) were computed for the resulting high-quality data, which served as the basis for all downstream analyses.
Clean pairs were mapped to the reference genome using HISAT2 (v2.2.1). To facilitate accurate splice junction detection, a gene model annotation file was utilized during the alignment process.
The mapped reads of each sample were assembled by StringTie (v2.2.3).
featureCounts (2.0.6) was used to count the reads numbers mapped to each gene.
Assembly: Fragaria vesca v4.0.a2 (taxonomy ID: 57918)
Supplementary files format and content: tab-delimited text file includes FPKM values for each Samples

organism: Fragaria vesca

source_name: fruit

extract_protocol:
Total RNA was extracted from fruits of 26 DPA WT fruits and FvmMATE51 mutants (Fvmate51-1 and Fvmate51-2) at 26-day postanthesis using HiPure HP Plant RNA Mini Kit (Magen, China)
Poly(A)+ mRNA was enriched using oligo(dT) beads, reverse transcribed with random hexamers to generate double-stranded cDNA. After end repair, A-tailing, and adaptor ligation, fragments were size-selected, amplified, and purified. Library quality was verified by Qubit, qPCR, and Bioanalyzer analysis. Eligible libraries were then pooled equimolarly and sequenced on an Illumina platform.

value: fruit

value: Fvmate51-1 mutant


title: KO2_Th17n_1

description: Library name: KO2_Th17n_1_S33


title: B1a_KO2

value: TATAGCCT

value: CTGAAGCT


title: WT_Rep3

description:
Library name: WT_Rep3
WT


title: KO2_Th0_2

description: Library name: KO2_Th0_2_S10


title: JCK1241+pathogen replicate 3

city: Busan

first: Young-Su

last: Seo

address: Geumjeong-Gu

department: Microbiology

institute: Pusan National University

description:
Library name: PT-3
RNA-seq of tomato leaf after JCK1241 treatment and Ralstonia challenge replicate 3

data_processing:
Raw reads were quality checked with FastQC.
Adapter sequences and low-quality bases were trimmed using Trimmomatic.
Clean reads were aligned to the Solanum lycopersicum reference genome (SL4.0) using HISAT2.
Gene counts were generated using featureCounts.
Differential expression analysis was performed with DESeq2.
Assembly: Solanum lycopersicum genome assembly SL4.0 (Ensembl Plants release 54).
Supplementary files format and content: Gene-level read counts (tab-delimited text), differential expression tables (CSV/TSV), and normalized expression matrices.
Supplementary files format and content: Annotation.zip

organism: Solanum lycopersicum

source_name: leaf

growth_protocol: Tomato plants (Seokwang cultivar, Korea) were grown in a controlled growth chamber under 16 h light / 8 h dark cycle, at 25 °C, with standard horticultural soil and watering conditions.

extract_protocol:
Total RNA was extracted from frozen tissue using a commercial plant RNA extraction kit (Qiagen RNeasy Plant Mini Kit), according to the manufacturer’s instructions. RNA integrity was assessed by Bioanalyzer (RIN ≥ 7)
RNA-seq libraries were prepared using the Illumina TruSeq Stranded mRNA Library Prep Kit, following the manufacturer’s instructions.

treatment_protocol: Leaves were either untreated (control), treated with JCK1241 (biological agent), inoculated with Ralstonia solanacearum, or treated with JCK1241 followed by pathogen challenge.

value: leaf

value: wild type

value: JCK1241 + Ralstonia


title: KO2_Th0_1

description: Library name: KO2_Th0_1_S9


title: JCK1241+pathogen replicate 2

description:
Library name: PT-2
RNA-seq of tomato leaf after JCK1241 treatment and Ralstonia challenge replicate 2


title: WT_Rep2

description:
Library name: WT_Rep2
WT


title: KO1_Treg_2

description: Library name: KO1_Treg_2_S56

value: Treg


title: B1a_WT3

value: ex-vivo

value: GAATTCGT


title: WT_Rep1

description:
Library name: WT_Rep1
WT


title: crfvmate51_2_Rep3

description:
Library name: crfvmate51_2_Rep3
crfvmate51_2

value: Fvmate51-2 mutant


title: B1a_WT2

value: ATTCAGAA


title: JCK1241 treated replicate 3

description:
Library name: P-3
RNA-seq of tomato leaf after JCK1241 treatment replicate 3

value: JCK1241 treatment


title: B1a_KO1

value: HuR KO

value: CGCTCATT


title: crfvmate51_2_Rep2

description:
Library name: crfvmate51_2_Rep2
crfvmate51_2


title: JCK1241 treated replicate 2

description:
Library name: P-2
RNA-seq of tomato leaf after JCK1241 treatment replicate 2


title: KO1_Treg_1

description: Library name: KO1_Treg_1_S55

value: T cell


title: KO1_Th1_1

description: Library name: KO1_Th1_1_S19


title: crfvmate51_2_Rep1

description:
Library name: crfvmate51_2_Rep1
crfvmate51_2


title: JCK1241 treated replicate 1

description:
Library name: P-1
RNA-seq of tomato leaf after JCK1241 treatment replicate 1


title: heads, elav-Gal4/+, rep6_illumina

city: Providence

first: Bess

last: Frost

state: RI

address: 185 Meeting St

institute: Center for Alzheimer’s Disease Research, Brown University

description: Library name: control_6_illumina

data_processing:
Basecalling was performed with Guppy (v5.1.12)31. Reads with a quality value of 9 or more were used for further analysis.
Assembly: dm6
Supplementary files format and content: Long read TPM counts of reference transcriptome (dm6.43) were generated by NanoCount.

organism: Drosophila melanogaster

source_name: head

extract_protocol:
Total RNA was extracted from 500 10-day-old adult Drosophila heads using TRIzol (Invitrogen, 15596026); RNA concentrations were measured on a Nanodrop 8000 spectrophotometer. Total RNA isolated from Drosophila heads was analyzed via RNA ScreenTape prior to ONT library generation; all samples achieved an RIN >9.8. 75 g of total RNA was enriched for full-length polyA RNA using the Dynabeads mRNA Purification kit (Invitrogen, 61005). For Illumina, 10 fly heads (five female and five male) per biological replicate were homogenized in radioimmunoprecipitation buffer (50 mM tris-HCL, 0.5% Nonidet-P40, 1.5 mM MgCl, 140 nM NaCl, and 1 mM dithiothreitol) with 1 μL (40 units/μL) of RNaseOUT (Invitrogen) and precleared with 40 μl of protein A Dynabeads (Invitrogen) for one hour at 4°C. After bead clearance, precleared lysate was split in two aliquots and diluted to a volume of 200 μl with cold binding buffer (0.0025% Triton X-100 in 1× PBS). Precleared lysate (200 μl) was stored at −80°C for RNA extraction via TRIzol.
500 ng polyA tailed RNA was used for library preparation using the Direct RNA Sequencing kit (SQK-RNA002) and protocol from ONT.RNA quality of the libraries was assessed using a Qubit 4 fluorometer (Invitrogen) prior to sequencing using the MinION Mk1C with R9.4 flow cells. For Illumina, RNA libraries from 0.7-1 μg of RNA were generated using the TruSeq Stranded mRNA Library Prep Kit and accompanying Index Set (Illumina Inc).

value: head


title: KO1_Th1_2

description: Library name: KO1_Th1_2_S20


title: B1a_WT1

value: Peritoneal cavity

value: WT

value: ATTACTCG


title: barcode-variant association for 38,000 bZIP single-mutant variants

description:
Library name: Barcode-variant association
TableS8_barcode_variants_association.txt

organism: Escherichia coli


title: crfvmate51_1_Rep3

description:
Library name: crfvmate51_1_Rep3
crfvmate51_1

value: fruit

value: Fvmate51-1 mutant


title: B1a_KO3

value: TATAGCCT

value: TAATGCGC


title: heads, elav-Gal4/+, rep5_illumina

description: Library name: control_5_illumina


title: Pathogen-infected replicate 2

description:
Library name: T-2
RNA-seq of tomato leaf after Ralstonia solanacearum inoculation replicate 2

value: leaf

value: wild type

value: Ralstonia solanacearum challenge


title: JCK1241+pathogen replicate 1

description:
Library name: PT-1
RNA-seq of tomato leaf after JCK1241 treatment and Ralstonia challenge replicate 1

value: JCK1241 + Ralstonia


title: KO1_Th17p_1

description: Library name: KO1_Th17p_1_S43


title: CRAC. UV-crosslinking and sequencing of RNA bound RhsFI. Biological replicate 2

description:
Library name: CRAC_pBAD_rhsFI_2
Graph files of raw read counts and raw deletion counts in SGR format (separate files for each strand, plus and minus), graph files of normalised read counts (RPM) in BEDGRAPH format (separate file for each strand, plus and minus).

source_name: purified protein-RNA complex

value: purified protein-RNA complex


title: KO1_Th17n_2

description: Library name: KO1_Th17n_2_S32


title: Pathogen-infected replicate 1

description:
Library name: T-1
RNA-seq of tomato leaf after Ralstonia solanacearum inoculation replicate 1


title: Control replicate 3

description:
Library name: C-3
RNA-seq of tomato leaf, untreated control replicate 3

value: untreated


title: KO1_Th17n_1

description: Library name: KO1_Th17n_1_S31


title: heads, elav-Gal4/+, rep3_illumina

description: Library name: control_3_illumina


title: CRAC. UV-crosslinking and sequencing of RNA bound RhsFI. Biological replicate 1

description:
Library name: CRAC_pBAD_rhsFI_1
Graph files of raw read counts and raw deletion counts in SGR format (separate files for each strand, plus and minus), graph files of normalised read counts (RPM) in BEDGRAPH format (separate file for each strand, plus and minus).


title: CRAC. Control sample, untagged parental strain EHEC str. Sakai. biological replicate 2

description:
Library name: CRAC_control_2
Graph files of raw read counts and raw deletion counts in SGR format (separate files for each strand, plus and minus), graph files of normalised read counts (RPM) in BEDGRAPH format (separate file for each strand, plus and minus).


title: KO1_Th0_2

description: Library name: KO1_Th0_2_S8


title: heads, elav-Gal4/+, rep2_illumina

description: Library name: control_2_illumina


title: Control replicate 1

description:
Library name: C-1
RNA-seq of tomato leaf, untreated control replicate 1


title: Control replicate 2

description:
Library name: C-2
RNA-seq of tomato leaf, untreated control replicate 2


title: CRAC. Control sample, untagged parental strain EHEC str. Sakai. biological replicate 1

description:
Library name: CRAC_control_1
Graph files of raw read counts and raw deletion counts in SGR format (separate files for each strand, plus and minus), graph files of normalised read counts (RPM) in BEDGRAPH format (separate file for each strand, plus and minus).


title: KO1_Th17p_2

description: Library name: KO1_Th17p_2_S44


title: SOD1 mid-stage, sample 4

status: Public on Aug 27 2025

city: Stanford

first: Olivia

last: Gautier

state: CA

address: 279 Campus Dr

institute: Stanford University

description: Library name: 3nextseq_run_11_1_midpoint_female_sample1

data_processing:
Sequencing reads were demultiplexed and aligned to a custom mouse pre-mRNA reference transcriptome containing mutant hSOD1 (10x Genomics) using the cellranger mkfastq and cellranger count pipelines (Cell Ranger v3.1.0, 10x Genomics).
Subsequent analyses were performed in R (v4.1.1) using the Seurat package (v4.0.4) to produce the .rds files.
Assembly: mm10
Supplementary files format and content: h5 files

molecule: nuclear RNA

source_name: Spinal cord

extract_protocol:
Nuclei were isolated from mouse spinal cords and sorted using FANS.
Libraries were constructed according to the manufacturer's protocol (Chromium Single Cell 3′ Reagent Kit v3, 10x Genomics).

value: Spinal cord


title: SOD1 mid-stage, sample 5

description: Library name: 3nextseq_run_11_1_midpoint_female_sample2


title: SOD1 mid-stage, sample 3

description: Library name: 3nextseq_run_10_30_midpoint_male


title: SOD1 mid-stage, sample 6

description: Library name: 3nextseq_run_11_1_midpoint_female_sample3


title: Pathogen-infected replicate 3

description:
Library name: T-3
RNA-seq of tomato leaf after Ralstonia solanacearum inoculation replicate 3


title: SOD1 end-stage, sample 6

description: Library name: 3nextseq_run_11_11_endpoint_female


title: crfvmate51_1_Rep2

description:
Library name: crfvmate51_1_Rep2
crfvmate51_1


title: heads, elav-Gal4/+, rep4_illumina

description: Library name: control_4_illumina


title: SOD1 end-stage, sample 5

description: Library name: 3nextseq_run_11_8_endpoint_female


title: SOD1 end-stage, sample 3

description: Library name: 3nextseq_run_10_17_endpoint_mixed


title: SOD1 end-stage, sample 4

description: Library name: 3nextseq_run_11_4_endpoint_male


title: SOD1 early-stage female and control male, GEX

description: Library name: 12_22_sample2_RNA

data_processing:
Sequencing reads were demultiplexed and aligned to a custom mouse mm10-arc reference, which allows mutant hSOD1 gene expression to be detected (10x Genomics), using the cellranger-arc mkfastq and cellranger-arc count pipelines (Cell Ranger ARC v2.0.1, 10x Genomics).
Assembly: mm10
Supplementary files format and content: fragment file and tabix index of fragment file
Supplementary files format and content: h5 files

extract_protocol:
Nuclei were isolated from mouse spinal cords and sorted using FANS.
Libraries were constructed according to the manufacturer's protocol (Chromium Single Cell Multiome ATAC + Gene Expression v1, 10x Genomics).


title: SOD1 early-stage female and control male, ATAC

description: Library name: 12_22_sample2_ATAC

library_source: genomic single cell

molecule: genomic DNA


title: SOD1 early-stage male and control female, GEX

description: Library name: 12_22_sample1_RNA


title: SOD1 mid-end-stage male, GEX

description: Library name: 6_3_sample2_RNA


title: SOD1 early-stage male and control female, ATAC

description: Library name: 12_22_sample1_ATAC


title: SOD1 mid-end-stage female, GEX

description: Library name: 6_3_sample1_RNA


title: SOD1 mid-end-stage male, ATAC

description: Library name: 6_3_sample2_ATAC


title: SOD1 mid-end-stage male and control female, GEX

description: Library name: 5_25_sample1_RNA


title: SOD1 mid-end-stage female, ATAC

description: Library name: 6_3_sample1_ATAC


title: heads, elav-Gal4/+, rep1_illumina

description: Library name: control_1_illumina


title: SOD1 mid-end-stage male and control female, ATAC

description: Library name: 5_25_sample1_ATAC


title: O79_placentitis

city: COLLEGE STATION

first: Yatta

last: Boakari

state: TX

address: 500 RAYMOND STOTZER PKWY

department: VLCS

institute: TEXAS A&M UNIVERSITY

description: Library name: O79

data_processing:
Quality assessment using FastQC v0.12.0
Trimming using Trimmomatic v0.39
Mapping using HISAT2
Assembly was performed via StringTie2 and count matrix was constructed utilizing prepDE.py
Assembly: EquCab3.0
Supplementary files format and content: equine_gene_counts_formatted.tsv

organism: Equus caballus

source_name: Amniotic membrane

extract_protocol:
RNeasy Mini Kit (#74104; Qiagen) according to the manufacturer’s instructions. A total of 1g of RNA per sample was used as input material for the RNA sample preparations.
Libraries were generated using the NEBNext Ultra RNA Library Prep Kit for Illumina (NEB, USA) according to the manufacturer’s protocol

treatment_protocol: An intracervical inoculation of Streptococcus equi ssp zooepidemicus (1 x 106 CFU) diluted in 0.5 ml of Todd Hewitt broth, using a semiflexible artificial insemination pipette, was done to experimentally induce placentitis. No inoculation was performed on the mares in the control group.

value: Amniotic membrane

value: Placentitis


title: O80_control

description: Library name: O80

value: Negative control


title: KO1_Th0_1

description: Library name: KO1_Th0_1_S7

source_name: T cell

value: T cell


title: O76_placentitis

description: Library name: O76


title: O73_placentitis

description: Library name: O73


title: O78_placentitis

description: Library name: O78


title: O77_placentitis

description: Library name: O77


title: O61_placentitis

description: Library name: O61


title: L60_control

description: Library name: L60


title: O62_control

description: Library name: O62


title: VEG-3.IP

city: Taigu

first: Xiao-Nan

last: Zheng

address: No.1 Mingxian South Road

institute: Shanxi Agricultural University

description: Library name: Sample 18

data_processing:
*library strategy: meRIP-seq
Cutadapt software (v1.9.3) was used to eliminate the reads containing adaptor contaminants and low quality bases.
HISAT2 software was applied to align clean reads of all libraries to the reference genome of T. gondii.
MACS software was used to identify methylated regions on RNAs (peaks),and differentially methylated sites were identified by diffReps.
Motif analysis was performed with DREME.
Assembly: GCF_000006565.2
Supplementary files format and content: The xlsx format sheet (named Gene Expression Profiling) showed gene_id, counts of all samples of the gene, normalized counts by edgeR, and annotation of the genes.
Supplementary files format and content: The xlsx format sheet (named Methylated_RNA_sites.mRNA) showed information about methylation sites, methylated RNA, enrichment information, and annotations.

organism: Toxoplasma gondii

source_name: VEG strain

extract_protocol:
Input: Total RNA was extracted from tachyzoites with TRIzol reagent (Invitrogen Carlsbad, CA, USA). IP:Total RNA was extracted from tachyzoites with TRIzol reagent (Invitrogen Carlsbad, CA, USA), and then subjected to immunoprecipitation (IP) by using the GenSeq m5C-IP Kit (Cloudseq Biotech, Inc., Shanghai, China) following the manufacturer’s specifications.
RNA libraries for IP and input samples were constructed with the GenSeq® Low Input Whole RNA Library Prep Kit (Cloudseq Biotech, Inc., Shanghai, China) according to the manufacture’s instructions.

tag: cell line

value: VEG strain

value: Intracellular tachyzoites

value: Type III


title: VEG-3.Input

description: Library name: Sample 17

data_processing:
Cutadapt software (v1.9.3) was used to eliminate the reads containing adaptor contaminants and low quality bases.
HISAT2 software was applied to align clean reads of all libraries to the reference genome of T. gondii.
MACS software was used to identify methylated regions on RNAs (peaks),and differentially methylated sites were identified by diffReps.
Motif analysis was performed with DREME.
Assembly: GCF_000006565.2
Supplementary files format and content: The xlsx format sheet (named Gene Expression Profiling) showed gene_id, counts of all samples of the gene, normalized counts by edgeR, and annotation of the genes.
Supplementary files format and content: The xlsx format sheet (named Methylated_RNA_sites.mRNA) showed information about methylation sites, methylated RNA, enrichment information, and annotations.


title: VEG-2.IP

description: Library name: Sample 16


title: VEG-2.Input

description: Library name: Sample 15


title: VEG-1.IP

description: Library name: Sample 14


title: K56_control

description: Library name: K56

tag: tissue


title: No Template Control

city: Lexington

first: Ahmed

last: Ismaeel

state: Kentucky

address: 900 S Limestone St

department: Physiology

institute: University of Kentucky

description:
Library name: Sample 89
DSP-1001660008150-A-A01

data_processing:
GeoMx NGS Pipeline on Basespace
Assembly: GeoMx Human Whole Transcriptome Atlas
Supplementary files format and content: GNP_config.ini (samples in plate 1001660008150 are discussed in the manuscript)
Library strategy: Spatial Transcriptomics

organism: synthetic construct

source_name: No Tepmpate Control

growth_protocol: fresh frozen biopsies

extract_protocol:
hybridized RNA probes using GeoMx DSP instrument
Nanostring's GeoMx Human Whole Transcriptome Atlas kit and GeoMx Digital Spatial Profiler

value: No Tepmpate Control

value: No Template Control


title: ME49-3.Input

description: Library name: Sample 11

source_name: ME49 strain

value: ME49 strain

value: Type II


title: ME49-3.IP

description: Library name: Sample 12


title: L56_control

description: Library name: L56


title: VEG-1.Input

description: Library name: Sample 13


title: ME49-2.IP

description: Library name: Sample 10


title: ME49-2.Input

description: Library name: Sample 9


title: ME49-1.IP

description: Library name: Sample 8


title: ME49-1.Input

description: Library name: Sample 7


title: RH-2.IP

description: Library name: Sample 4

source_name: RH strain

value: RH strain

value: Type I


title: RH-2.Input

description: Library name: Sample 3


title: RH-3.IP

description: Library name: Sample 6


title: RH-3.Input

description: Library name: Sample 5


title: RH-1.IP

description: Library name: Sample 2


title: cDNA_JJM3IL63

city: Oxford

first: Adam

last: Cribbs

address: Windmill Road

department: NDORMS

institute: University of Oxford

description: Library name: Sample12

data_processing:
• Reads were demultiplexed and concatenated into FASTQ by MinKNOW.  • PCR-cDNA reads: adapter trimming and orientation correction with pychopper v2.7.10; discard <50 bp reads.  • Alignment with minimap2 v2.28 (spliced alignment mode, k=14, canonical splice sites).  • Direct RNA reads aligned directly without trimming.  • ERCC quantification: featureCounts (Subread v2.0.6).  • Transcript quantification: bambu v3.6.0 (discovery mode = false).  • Coverage analysis: RSeQC v5.0.4.  • Differential gene expression: DESeq2 v1.44.0 (FDR 5%), variance stabilising transformation for normalisation.  • Pathway enrichment: GSVA v2.0.0 with MSigDB hallmark sets.  • Differential transcript usage: DRIMSeq v1.52.0 → DEXSeq v1.52.0 → StageR v1.28.0 (all with FDR 5%).  • Visualisation: R 4.4.1 with ggplot2, ggpubr, ggvenn, ggtranscript, ggalluvial, pheatmap.
Assembly: GRCh38.p14 (GENCODE v46 annotation). ERCC spike-in transcripts also used.
Supplementary files format and content: Gene and transcript count matrice

growth_protocol: SKMM2 multiple myeloma cells (DSMZ: ACC 430) were cultured in Gibco™ RPMI 1640 medium (11530586, Fisher Scientific, UK), supplemented with 10% FBS (SV30160.03, Cytiva Life Sciences, UK), and maintained at 37 °C in a 5% CO₂ incubator.

extract_protocol:
Cells were harvested, resuspended in 350 µL Trizol reagent, and RNA was extracted using the Zymo Direct-zol RNA Miniprep kit (R2051, Zymo Research, USA) according to manufacturer’s instructions. RNA was eluted in 25 µL DNase/RNase-free water. RNA concentration was measured on a NanoPhotometer NP80 (Implen, Germany), and RNA integrity was assessed using the Agilent 4150 TapeStation. RIN scores were 9.7–9.8.
PCR-cDNA: Libraries were prepared using the ONT PCR-cDNA Barcoding Kit (SQK-PCB111.24), with 200 ng of SKMM2 RNA or 16 ng ERCC spike-in. SKMM2 samples underwent 14 PCR cycles; ERCC samples 16 cycles. Libraries were quantified on Qubit 2.0 and quality-checked on Agilent 4150 TapeStation. Sequencing was on PromethION R9.4.1 flow cells (FLO-PRO002) for 72 h, base-called with Dorado (v7.4.14). Direct RNA: Libraries were prepared using the ONT Direct RNA Sequencing Kit (SQK-RNA004) from 1 µg RNA (cells) or ~150 ng ERCC RNA. Entire libraries were loaded onto PromethION RNA Flow Cells (FLO-PRO004RA) and sequenced on PromethION 24 for 72 h with Dorado RNA high-accuracy base-calling (v7.4.14).

treatment_protocol: Cells were seeded into 12-well plates in triplicate and treated for 18 h with either 1 ng/mL interleukin-6 (IL-6) in 0.2% BSA or with 0.2% BSA alone (control).

tag: seqtype

value: cDNA


title: L53_control

description: Library name: L53


title: cDNA_JJM3IL61

description: Library name: Sample10


title: cDNA_JJM3control3

description: Library name: Sample9

value: BSA


title: cDNA_JJM3control2

description: Library name: Sample8


title: cDNA_JJM3IL62

description: Library name: Sample11


title: cDNA_JJM3control1

description: Library name: Sample7


title: sub_SKMM2_drna_IL62

description: Library name: Sample5

value: dRNA


title: sub_SKMM2_drna_IL61

description: Library name: Sample4


title: sub_SKMM2_drna_control1

description: Library name: Sample1


title: sub_SKMM2_drna_control2

description: Library name: Sample2


title: sub_SKMM2_drna_control3

description: Library name: Sample3


title: RH-1.Input

description: Library name: Sample 1

tag: cell type


title: sub_SKMM2_drna_IL63

description: Library name: Sample6


title: prostate_cancer_primary_748 [PCA.1529]

type: RNA

city: San Diego

first: Elai

last: Davicioni

address: 9725 Lusk Blvd

institute: Veracyte, Inc

hyb_protocol: Samples were hybridized using Affymetrix hybridization kit materials and protocols

scan_protocol: Affymetrix Gene ChIP Scanner 3000 7G

data_processing:
Data was normalized uisng SCAN (SCAN.UPC package from Bioconductor)
HuEx-1_0-st-v2.r2.pgf
HuEx-1_0-st-v2.r2.dt1.hg38.core.mps

label: biotin

source_name: FFPE prostate cancer

label_protocol: RNA was amplified, fragmented and biotinylated using the WT-Ovation FFPE system (NuGen, San Carlos, CA) according to the manufacturer’s recommendations with minor modifications

extract_protocol: After histopathologic review of formalin-fixed, paraffin-embedded (FFPE) tumor blocks from each case by an expert pathologist, the tumor block with the index lesion was selected for specimen processing. The index lesion was identified as the FFPE block with the biopsy core containing the highest pathologic Gleason grade and the greatest linear length of tumor. At least 0.5 mm of linear tumor was required. Tissue sections were macrodissected to enrich for tumor used for RNA extraction.

tag: gleason score

tag: age at randomization

tag: psa at randomization (ng/ml)

value: FFPE prostate cancer


title: prostate_cancer_primary_736 [PCA.1517]


title: prostate_cancer_primary_745 [PCA.1526]


title: prostate_cancer_primary_743 [PCA.1524]


title: prostate_cancer_primary_746 [PCA.1527]


title: prostate_cancer_primary_740 [PCA.1521]


title: prostate_cancer_primary_741 [PCA.1522]


title: prostate_cancer_primary_747 [PCA.1528]


title: prostate_cancer_primary_749 [PCA.1530]


title: prostate_cancer_primary_731 [PCA.1512]


title: prostate_cancer_primary_729 [PCA.1510]


title: prostate_cancer_primary_730 [PCA.1511]


title: prostate_cancer_primary_725 [PCA.1506]


title: prostate_cancer_primary_735 [PCA.1516]


title: prostate_cancer_primary_726 [PCA.1507]


title: prostate_cancer_primary_750 [PCA.1531]


title: prostate_cancer_primary_744 [PCA.1525]


title: prostate_cancer_primary_739 [PCA.1520]


title: prostate_cancer_primary_724 [PCA.1505]


title: prostate_cancer_primary_727 [PCA.1508]


title: prostate_cancer_primary_742 [PCA.1523]


title: prostate_cancer_primary_733 [PCA.1514]


title: prostate_cancer_primary_737 [PCA.1518]


title: prostate_cancer_primary_738 [PCA.1519]


title: prostate_cancer_primary_728 [PCA.1509]


title: prostate_cancer_primary_734 [PCA.1515]


title: prostate_cancer_primary_722 [PCA.1503]


title: prostate_cancer_primary_732 [PCA.1513]


title: prostate_cancer_primary_723 [PCA.1504]


title: prostate_cancer_primary_720 [PCA.1501]


title: prostate_cancer_primary_719 [PCA.1500]


title: prostate_cancer_primary_716 [PCA.1497]


title: prostate_cancer_primary_715 [PCA.1496]


title: prostate_cancer_primary_717 [PCA.1498]


title: prostate_cancer_primary_710 [PCA.1491]


title: prostate_cancer_primary_714 [PCA.1495]


title: prostate_cancer_primary_709 [PCA.1490]


title: prostate_cancer_primary_721 [PCA.1502]


title: prostate_cancer_primary_712 [PCA.1493]


title: prostate_cancer_primary_711 [PCA.1492]


title: prostate_cancer_primary_718 [PCA.1499]


title: prostate_cancer_primary_706 [PCA.1487]


title: prostate_cancer_primary_704 [PCA.1485]


title: prostate_cancer_primary_703 [PCA.1484]


title: prostate_cancer_primary_705 [PCA.1486]


title: prostate_cancer_primary_700 [PCA.1481]


title: prostate_cancer_primary_695 [PCA.1476]


title: prostate_cancer_primary_698 [PCA.1479]


title: prostate_cancer_primary_701 [PCA.1482]


title: prostate_cancer_primary_699 [PCA.1480]


title: prostate_cancer_primary_707 [PCA.1488]


title: prostate_cancer_primary_708 [PCA.1489]


title: prostate_cancer_primary_713 [PCA.1494]


title: prostate_cancer_primary_692 [PCA.1473]


title: prostate_cancer_primary_696 [PCA.1477]


title: prostate_cancer_primary_689 [PCA.1470]


title: prostate_cancer_primary_693 [PCA.1474]


title: prostate_cancer_primary_688 [PCA.1469]


title: prostate_cancer_primary_686 [PCA.1467]


title: prostate_cancer_primary_682 [PCA.1463]


title: prostate_cancer_primary_684 [PCA.1465]


title: prostate_cancer_primary_697 [PCA.1478]


title: prostate_cancer_primary_702 [PCA.1483]


title: prostate_cancer_primary_687 [PCA.1468]


title: prostate_cancer_primary_683 [PCA.1464]


title: prostate_cancer_primary_691 [PCA.1472]


title: prostate_cancer_primary_680 [PCA.1461]


title: prostate_cancer_primary_677 [PCA.1458]


title: prostate_cancer_primary_678 [PCA.1459]


title: prostate_cancer_primary_679 [PCA.1460]


title: prostate_cancer_primary_676 [PCA.1457]


title: prostate_cancer_primary_685 [PCA.1466]


title: prostate_cancer_primary_675 [PCA.1456]


title: prostate_cancer_primary_694 [PCA.1475]


title: prostate_cancer_primary_681 [PCA.1462]


title: prostate_cancer_primary_674 [PCA.1455]


title: prostate_cancer_primary_673 [PCA.1454]


title: prostate_cancer_primary_672 [PCA.1453]


title: prostate_cancer_primary_670 [PCA.1451]


title: prostate_cancer_primary_671 [PCA.1452]


title: prostate_cancer_primary_668 [PCA.1449]


title: prostate_cancer_primary_669 [PCA.1450]


title: prostate_cancer_primary_667 [PCA.1448]


title: prostate_cancer_primary_666 [PCA.1447]


title: prostate_cancer_primary_665 [PCA.1446]


title: prostate_cancer_primary_659 [PCA.1440]


title: prostate_cancer_primary_662 [PCA.1443]


title: prostate_cancer_primary_660 [PCA.1441]


title: prostate_cancer_primary_663 [PCA.1444]


title: prostate_cancer_primary_664 [PCA.1445]


title: prostate_cancer_primary_658 [PCA.1439]


title: prostate_cancer_primary_655 [PCA.1436]


title: prostate_cancer_primary_654 [PCA.1435]


title: prostate_cancer_primary_656 [PCA.1437]


title: prostate_cancer_primary_661 [PCA.1442]


title: prostate_cancer_primary_657 [PCA.1438]


title: prostate_cancer_primary_648 [PCA.1429]


title: prostate_cancer_primary_653 [PCA.1434]


title: prostate_cancer_primary_650 [PCA.1431]


title: prostate_cancer_primary_643 [PCA.1424]


title: prostate_cancer_primary_652 [PCA.1433]


title: prostate_cancer_primary_651 [PCA.1432]


title: prostate_cancer_primary_647 [PCA.1428]


title: prostate_cancer_primary_644 [PCA.1425]


title: prostate_cancer_primary_641 [PCA.1422]


title: prostate_cancer_primary_645 [PCA.1426]


title: prostate_cancer_primary_638 [PCA.1419]


title: prostate_cancer_primary_649 [PCA.1430]


title: prostate_cancer_primary_640 [PCA.1421]


title: prostate_cancer_primary_646 [PCA.1427]


title: prostate_cancer_primary_642 [PCA.1423]


title: prostate_cancer_primary_639 [PCA.1420]


title: prostate_cancer_primary_627 [PCA.1408]


title: prostate_cancer_primary_626 [PCA.1407]


title: prostate_cancer_primary_629 [PCA.1410]


title: prostate_cancer_primary_630 [PCA.1411]


title: prostate_cancer_primary_635 [PCA.1416]


title: prostate_cancer_primary_625 [PCA.1406]


title: prostate_cancer_primary_636 [PCA.1417]


title: prostate_cancer_primary_631 [PCA.1412]


title: prostate_cancer_primary_632 [PCA.1413]


title: prostate_cancer_primary_637 [PCA.1418]


title: prostate_cancer_primary_634 [PCA.1415]


title: prostate_cancer_primary_628 [PCA.1409]


title: prostate_cancer_primary_633 [PCA.1414]


title: prostate_cancer_primary_624 [PCA.1405]


title: prostate_cancer_primary_618 [PCA.1399]


title: prostate_cancer_primary_615 [PCA.1396]


title: prostate_cancer_primary_621 [PCA.1402]


title: prostate_cancer_primary_610 [PCA.1391]


title: prostate_cancer_primary_613 [PCA.1394]


title: prostate_cancer_primary_614 [PCA.1395]


title: prostate_cancer_primary_619 [PCA.1400]


title: prostate_cancer_primary_611 [PCA.1392]


title: prostate_cancer_primary_622 [PCA.1403]


title: prostate_cancer_primary_617 [PCA.1398]


title: prostate_cancer_primary_612 [PCA.1393]


title: prostate_cancer_primary_623 [PCA.1404]


title: prostate_cancer_primary_616 [PCA.1397]


title: prostate_cancer_primary_607 [PCA.1388]


title: prostate_cancer_primary_620 [PCA.1401]


title: prostate_cancer_primary_601 [PCA.1382]


title: prostate_cancer_primary_606 [PCA.1387]


title: prostate_cancer_primary_597 [PCA.1378]


title: prostate_cancer_primary_598 [PCA.1379]


title: prostate_cancer_primary_609 [PCA.1390]


title: prostate_cancer_primary_596 [PCA.1377]


title: prostate_cancer_primary_603 [PCA.1384]


title: prostate_cancer_primary_602 [PCA.1383]


title: prostate_cancer_primary_608 [PCA.1389]


title: prostate_cancer_primary_605 [PCA.1386]


title: prostate_cancer_primary_600 [PCA.1381]


title: prostate_cancer_primary_595 [PCA.1376]


title: prostate_cancer_primary_690 [PCA.1471]


title: prostate_cancer_primary_604 [PCA.1385]


title: prostate_cancer_primary_592 [PCA.1373]


title: prostate_cancer_primary_599 [PCA.1380]


title: prostate_cancer_primary_593 [PCA.1374]


title: prostate_cancer_primary_585 [PCA.1366]


title: prostate_cancer_primary_587 [PCA.1368]


title: prostate_cancer_primary_590 [PCA.1371]


title: prostate_cancer_primary_586 [PCA.1367]


title: prostate_cancer_primary_581 [PCA.1362]


title: prostate_cancer_primary_594 [PCA.1375]


title: prostate_cancer_primary_582 [PCA.1363]


title: prostate_cancer_primary_584 [PCA.1365]


title: prostate_cancer_primary_588 [PCA.1369]


title: prostate_cancer_primary_580 [PCA.1361]


title: prostate_cancer_primary_591 [PCA.1372]


title: prostate_cancer_primary_579 [PCA.1360]


title: prostate_cancer_primary_577 [PCA.1358]


title: prostate_cancer_primary_575 [PCA.1356]


title: prostate_cancer_primary_571 [PCA.1352]


title: prostate_cancer_primary_574 [PCA.1355]


title: prostate_cancer_primary_583 [PCA.1364]


title: prostate_cancer_primary_573 [PCA.1354]


title: prostate_cancer_primary_570 [PCA.1351]


title: prostate_cancer_primary_568 [PCA.1349]


title: prostate_cancer_primary_565 [PCA.1346]


title: prostate_cancer_primary_576 [PCA.1357]


title: prostate_cancer_primary_564 [PCA.1345]


title: prostate_cancer_primary_567 [PCA.1348]


title: prostate_cancer_primary_562 [PCA.1343]


title: prostate_cancer_primary_569 [PCA.1350]


title: prostate_cancer_primary_559 [PCA.1340]


title: prostate_cancer_primary_563 [PCA.1344]


title: prostate_cancer_primary_558 [PCA.1339]


title: prostate_cancer_primary_557 [PCA.1338]


title: prostate_cancer_primary_589 [PCA.1370]


title: prostate_cancer_primary_561 [PCA.1342]


title: prostate_cancer_primary_556 [PCA.1337]


title: prostate_cancer_primary_560 [PCA.1341]


title: prostate_cancer_primary_578 [PCA.1359]


title: prostate_cancer_primary_554 [PCA.1335]


title: prostate_cancer_primary_566 [PCA.1347]


title: prostate_cancer_primary_552 [PCA.1333]


title: prostate_cancer_primary_553 [PCA.1334]


title: prostate_cancer_primary_551 [PCA.1332]


title: prostate_cancer_primary_572 [PCA.1353]


title: prostate_cancer_primary_555 [PCA.1336]


title: prostate_cancer_primary_548 [PCA.1329]


title: prostate_cancer_primary_547 [PCA.1328]


title: prostate_cancer_primary_546 [PCA.1327]


title: prostate_cancer_primary_545 [PCA.1326]


title: prostate_cancer_primary_549 [PCA.1330]


title: prostate_cancer_primary_544 [PCA.1325]


title: prostate_cancer_primary_543 [PCA.1324]


title: prostate_cancer_primary_542 [PCA.1323]


title: prostate_cancer_primary_540 [PCA.1321]


title: prostate_cancer_primary_541 [PCA.1322]


title: prostate_cancer_primary_537 [PCA.1318]


title: prostate_cancer_primary_538 [PCA.1319]


title: prostate_cancer_primary_550 [PCA.1331]


title: prostate_cancer_primary_539 [PCA.1320]


title: prostate_cancer_primary_536 [PCA.1317]


title: prostate_cancer_primary_533 [PCA.1314]


title: prostate_cancer_primary_534 [PCA.1315]


title: prostate_cancer_primary_532 [PCA.1313]


title: prostate_cancer_primary_529 [PCA.1310]


title: prostate_cancer_primary_531 [PCA.1312]


title: prostate_cancer_primary_530 [PCA.1311]


title: prostate_cancer_primary_528 [PCA.1309]


title: prostate_cancer_primary_535 [PCA.1316]


title: prostate_cancer_primary_525 [PCA.1306]


title: prostate_cancer_primary_524 [PCA.1305]


title: prostate_cancer_primary_527 [PCA.1308]


title: prostate_cancer_primary_523 [PCA.1304]


title: prostate_cancer_primary_516 [PCA.1297]


title: prostate_cancer_primary_519 [PCA.1300]


title: prostate_cancer_primary_526 [PCA.1307]


title: prostate_cancer_primary_518 [PCA.1299]


title: prostate_cancer_primary_522 [PCA.1303]


title: prostate_cancer_primary_514 [PCA.1295]


title: prostate_cancer_primary_521 [PCA.1302]


title: prostate_cancer_primary_520 [PCA.1301]


title: prostate_cancer_primary_517 [PCA.1298]


title: prostate_cancer_primary_515 [PCA.1296]


title: prostate_cancer_primary_512 [PCA.1293]


title: prostate_cancer_primary_510 [PCA.1291]


title: prostate_cancer_primary_509 [PCA.1290]


title: prostate_cancer_primary_508 [PCA.1289]


title: prostate_cancer_primary_511 [PCA.1292]


title: prostate_cancer_primary_505 [PCA.1286]


title: prostate_cancer_primary_513 [PCA.1294]


title: prostate_cancer_primary_503 [PCA.1284]


title: prostate_cancer_primary_501 [PCA.1282]


title: prostate_cancer_primary_506 [PCA.1287]


title: prostate_cancer_primary_507 [PCA.1288]


title: prostate_cancer_primary_492 [PCA.1273]


title: prostate_cancer_primary_493 [PCA.1274]


title: prostate_cancer_primary_502 [PCA.1283]


title: prostate_cancer_primary_487 [PCA.1268]


title: prostate_cancer_primary_498 [PCA.1279]


title: prostate_cancer_primary_488 [PCA.1269]


title: prostate_cancer_primary_490 [PCA.1271]


title: prostate_cancer_primary_500 [PCA.1281]


title: prostate_cancer_primary_484 [PCA.1265]


title: prostate_cancer_primary_504 [PCA.1285]


title: prostate_cancer_primary_496 [PCA.1277]


title: prostate_cancer_primary_497 [PCA.1278]


title: prostate_cancer_primary_486 [PCA.1267]


title: prostate_cancer_primary_494 [PCA.1275]


title: prostate_cancer_primary_491 [PCA.1272]


title: prostate_cancer_primary_485 [PCA.1266]


title: prostate_cancer_primary_499 [PCA.1280]


title: prostate_cancer_primary_495 [PCA.1276]


title: prostate_cancer_primary_482 [PCA.1263]


title: prostate_cancer_primary_479 [PCA.1260]


title: prostate_cancer_primary_480 [PCA.1261]


title: prostate_cancer_primary_481 [PCA.1262]


title: prostate_cancer_primary_489 [PCA.1270]


title: prostate_cancer_primary_477 [PCA.1258]


title: prostate_cancer_primary_478 [PCA.1259]


title: prostate_cancer_primary_475 [PCA.1256]


title: prostate_cancer_primary_472 [PCA.1253]


title: prostate_cancer_primary_473 [PCA.1254]


title: prostate_cancer_primary_469 [PCA.1250]


title: prostate_cancer_primary_474 [PCA.1255]


title: prostate_cancer_primary_471 [PCA.1252]


title: prostate_cancer_primary_461 [PCA.1242]


title: prostate_cancer_primary_460 [PCA.1241]


title: prostate_cancer_primary_470 [PCA.1251]


title: prostate_cancer_primary_467 [PCA.1248]


title: prostate_cancer_primary_454 [PCA.1235]


title: prostate_cancer_primary_458 [PCA.1239]


title: prostate_cancer_primary_462 [PCA.1243]


title: prostate_cancer_primary_464 [PCA.1245]


title: prostate_cancer_primary_465 [PCA.1246]


title: prostate_cancer_primary_459 [PCA.1240]


title: prostate_cancer_primary_453 [PCA.1234]


title: prostate_cancer_primary_455 [PCA.1236]


title: prostate_cancer_primary_466 [PCA.1247]


title: prostate_cancer_primary_449 [PCA.1230]


title: prostate_cancer_primary_476 [PCA.1257]


title: prostate_cancer_primary_451 [PCA.1232]


title: prostate_cancer_primary_468 [PCA.1249]


title: prostate_cancer_primary_450 [PCA.1231]


title: prostate_cancer_primary_448 [PCA.1229]


title: prostate_cancer_primary_456 [PCA.1237]


title: prostate_cancer_primary_452 [PCA.1233]


title: prostate_cancer_primary_447 [PCA.1228]


title: prostate_cancer_primary_442 [PCA.1223]


title: prostate_cancer_primary_444 [PCA.1225]


title: prostate_cancer_primary_441 [PCA.1222]


title: prostate_cancer_primary_437 [PCA.1218]


title: prostate_cancer_primary_439 [PCA.1220]


title: prostate_cancer_primary_443 [PCA.1224]


title: prostate_cancer_primary_445 [PCA.1226]


title: prostate_cancer_primary_457 [PCA.1238]


title: prostate_cancer_primary_436 [PCA.1217]


title: prostate_cancer_primary_432 [PCA.1213]


title: prostate_cancer_primary_431 [PCA.1212]


title: prostate_cancer_primary_434 [PCA.1215]


title: prostate_cancer_primary_430 [PCA.1211]


title: prostate_cancer_primary_463 [PCA.1244]


title: prostate_cancer_primary_446 [PCA.1227]


title: prostate_cancer_primary_428 [PCA.1209]


title: prostate_cancer_primary_440 [PCA.1221]


title: prostate_cancer_primary_435 [PCA.1216]


title: prostate_cancer_primary_427 [PCA.1208]


title: prostate_cancer_primary_429 [PCA.1210]


title: prostate_cancer_primary_438 [PCA.1219]


title: prostate_cancer_primary_433 [PCA.1214]


title: prostate_cancer_primary_424 [PCA.1205]


title: prostate_cancer_primary_422 [PCA.1203]


title: prostate_cancer_primary_425 [PCA.1206]


title: prostate_cancer_primary_421 [PCA.1202]


title: prostate_cancer_primary_418 [PCA.1199]


title: prostate_cancer_primary_419 [PCA.1200]


title: prostate_cancer_primary_420 [PCA.1201]


title: prostate_cancer_primary_415 [PCA.1196]


title: prostate_cancer_primary_426 [PCA.1207]


title: prostate_cancer_primary_416 [PCA.1197]


title: prostate_cancer_primary_417 [PCA.1198]


title: prostate_cancer_primary_414 [PCA.1195]


title: prostate_cancer_primary_412 [PCA.1193]


title: prostate_cancer_primary_423 [PCA.1204]


title: prostate_cancer_primary_413 [PCA.1194]


title: prostate_cancer_primary_409 [PCA.1190]


title: prostate_cancer_primary_410 [PCA.1191]


title: prostate_cancer_primary_411 [PCA.1192]


title: prostate_cancer_primary_404 [PCA.1185]


title: prostate_cancer_primary_405 [PCA.1186]


title: prostate_cancer_primary_408 [PCA.1189]


title: prostate_cancer_primary_399 [PCA.1180]


title: prostate_cancer_primary_406 [PCA.1187]


title: prostate_cancer_primary_398 [PCA.1179]


title: prostate_cancer_primary_403 [PCA.1184]


title: prostate_cancer_primary_400 [PCA.1181]


title: prostate_cancer_primary_407 [PCA.1188]


title: prostate_cancer_primary_397 [PCA.1178]


title: prostate_cancer_primary_401 [PCA.1182]


title: prostate_cancer_primary_396 [PCA.1177]


title: prostate_cancer_primary_395 [PCA.1176]


title: prostate_cancer_primary_402 [PCA.1183]


title: prostate_cancer_primary_392 [PCA.1173]


title: prostate_cancer_primary_483 [PCA.1264]


title: prostate_cancer_primary_394 [PCA.1175]


title: prostate_cancer_primary_390 [PCA.1171]


title: prostate_cancer_primary_389 [PCA.1170]


title: prostate_cancer_primary_391 [PCA.1172]


title: prostate_cancer_primary_384 [PCA.1165]


title: prostate_cancer_primary_388 [PCA.1169]


title: prostate_cancer_primary_387 [PCA.1168]


title: prostate_cancer_primary_385 [PCA.1166]


title: prostate_cancer_primary_382 [PCA.1163]


title: prostate_cancer_primary_383 [PCA.1164]


title: prostate_cancer_primary_386 [PCA.1167]


title: prostate_cancer_primary_379 [PCA.1160]


title: prostate_cancer_primary_369 [PCA.1150]


title: prostate_cancer_primary_370 [PCA.1151]


title: prostate_cancer_primary_374 [PCA.1155]


title: prostate_cancer_primary_373 [PCA.1154]


title: prostate_cancer_primary_381 [PCA.1162]


title: prostate_cancer_primary_380 [PCA.1161]


title: prostate_cancer_primary_376 [PCA.1157]


title: prostate_cancer_primary_372 [PCA.1153]


title: prostate_cancer_primary_393 [PCA.1174]


title: prostate_cancer_primary_375 [PCA.1156]


title: prostate_cancer_primary_371 [PCA.1152]


title: prostate_cancer_primary_378 [PCA.1159]


title: prostate_cancer_primary_377 [PCA.1158]


title: prostate_cancer_primary_368 [PCA.1149]


title: prostate_cancer_primary_367 [PCA.1148]


title: prostate_cancer_primary_366 [PCA.1147]


title: prostate_cancer_primary_363 [PCA.1144]


title: prostate_cancer_primary_359 [PCA.1140]


title: prostate_cancer_primary_361 [PCA.1142]


title: prostate_cancer_primary_352 [PCA.1133]


title: prostate_cancer_primary_356 [PCA.1137]


title: prostate_cancer_primary_353 [PCA.1134]


title: prostate_cancer_primary_364 [PCA.1145]


title: prostate_cancer_primary_362 [PCA.1143]


title: prostate_cancer_primary_358 [PCA.1139]


title: prostate_cancer_primary_354 [PCA.1135]


title: prostate_cancer_primary_355 [PCA.1136]


title: prostate_cancer_primary_357 [PCA.1138]


title: prostate_cancer_primary_365 [PCA.1146]


title: prostate_cancer_primary_360 [PCA.1141]


title: prostate_cancer_primary_348 [PCA.1129]


title: prostate_cancer_primary_342 [PCA.1123]


title: prostate_cancer_primary_346 [PCA.1127]


title: prostate_cancer_primary_340 [PCA.1121]


title: prostate_cancer_primary_338 [PCA.1119]


title: prostate_cancer_primary_337 [PCA.1118]


title: prostate_cancer_primary_339 [PCA.1120]


title: prostate_cancer_primary_343 [PCA.1124]


title: prostate_cancer_primary_336 [PCA.1117]


title: prostate_cancer_primary_347 [PCA.1128]


title: prostate_cancer_primary_351 [PCA.1132]


title: prostate_cancer_primary_349 [PCA.1130]


title: prostate_cancer_primary_341 [PCA.1122]


title: prostate_cancer_primary_345 [PCA.1126]


title: prostate_cancer_primary_344 [PCA.1125]


title: prostate_cancer_primary_350 [PCA.1131]


title: prostate_cancer_primary_333 [PCA.1114]


title: prostate_cancer_primary_331 [PCA.1112]


title: prostate_cancer_primary_327 [PCA.1108]


title: prostate_cancer_primary_325 [PCA.1106]


title: prostate_cancer_primary_321 [PCA.1102]


title: prostate_cancer_primary_323 [PCA.1104]


title: prostate_cancer_primary_326 [PCA.1107]


title: prostate_cancer_primary_328 [PCA.1109]


title: prostate_cancer_primary_335 [PCA.1116]


title: prostate_cancer_primary_334 [PCA.1115]


title: prostate_cancer_primary_322 [PCA.1103]


title: prostate_cancer_primary_332 [PCA.1113]


title: prostate_cancer_primary_319 [PCA.1100]


title: prostate_cancer_primary_329 [PCA.1110]


title: prostate_cancer_primary_330 [PCA.1111]


title: prostate_cancer_primary_320 [PCA.1101]


title: prostate_cancer_primary_313 [PCA.1094]


title: prostate_cancer_primary_324 [PCA.1105]


title: prostate_cancer_primary_314 [PCA.1095]


title: prostate_cancer_primary_317 [PCA.1098]


title: prostate_cancer_primary_310 [PCA.1091]


title: prostate_cancer_primary_308 [PCA.1089]


title: prostate_cancer_primary_312 [PCA.1093]


title: prostate_cancer_primary_315 [PCA.1096]


title: prostate_cancer_primary_318 [PCA.1099]


title: prostate_cancer_primary_316 [PCA.1097]


title: prostate_cancer_primary_307 [PCA.1088]


title: prostate_cancer_primary_306 [PCA.1087]


title: prostate_cancer_primary_309 [PCA.1090]


title: prostate_cancer_primary_304 [PCA.1085]


title: prostate_cancer_primary_305 [PCA.1086]


title: prostate_cancer_primary_299 [PCA.1080]


title: prostate_cancer_primary_298 [PCA.1079]


title: prostate_cancer_primary_295 [PCA.1076]


title: prostate_cancer_primary_289 [PCA.1070]


title: prostate_cancer_primary_302 [PCA.1083]


title: prostate_cancer_primary_291 [PCA.1072]


title: prostate_cancer_primary_303 [PCA.1084]


title: prostate_cancer_primary_290 [PCA.1071]


title: prostate_cancer_primary_301 [PCA.1082]


title: prostate_cancer_primary_294 [PCA.1075]


title: prostate_cancer_primary_293 [PCA.1074]


title: prostate_cancer_primary_297 [PCA.1078]


title: prostate_cancer_primary_287 [PCA.1068]


title: prostate_cancer_primary_288 [PCA.1069]


title: prostate_cancer_primary_296 [PCA.1077]


title: prostate_cancer_primary_284 [PCA.1065]


title: prostate_cancer_primary_282 [PCA.1063]


title: prostate_cancer_primary_292 [PCA.1073]


title: prostate_cancer_primary_285 [PCA.1066]


title: prostate_cancer_primary_281 [PCA.1062]


title: prostate_cancer_primary_286 [PCA.1067]


title: prostate_cancer_primary_280 [PCA.1061]


title: prostate_cancer_primary_279 [PCA.1060]


title: prostate_cancer_primary_300 [PCA.1081]


title: prostate_cancer_primary_278 [PCA.1059]


title: prostate_cancer_primary_277 [PCA.1058]


title: prostate_cancer_primary_283 [PCA.1064]


title: prostate_cancer_primary_272 [PCA.1053]


title: prostate_cancer_primary_266 [PCA.1047]


title: prostate_cancer_primary_274 [PCA.1055]


title: prostate_cancer_primary_276 [PCA.1057]


title: prostate_cancer_primary_269 [PCA.1050]


title: prostate_cancer_primary_265 [PCA.1046]


title: prostate_cancer_primary_263 [PCA.1044]


title: prostate_cancer_primary_264 [PCA.1045]


title: prostate_cancer_primary_273 [PCA.1054]


title: prostate_cancer_primary_267 [PCA.1048]


title: prostate_cancer_primary_262 [PCA.1043]


title: prostate_cancer_primary_270 [PCA.1051]


title: prostate_cancer_primary_260 [PCA.1041]


title: prostate_cancer_primary_275 [PCA.1056]


title: prostate_cancer_primary_271 [PCA.1052]


title: prostate_cancer_primary_259 [PCA.1040]


title: prostate_cancer_primary_258 [PCA.1039]


title: prostate_cancer_primary_254 [PCA.1035]


title: prostate_cancer_primary_251 [PCA.1032]


title: prostate_cancer_primary_256 [PCA.1037]


title: prostate_cancer_primary_250 [PCA.1031]


title: prostate_cancer_primary_261 [PCA.1042]


title: prostate_cancer_primary_255 [PCA.1036]


title: prostate_cancer_primary_248 [PCA.1029]


title: prostate_cancer_primary_253 [PCA.1034]


title: prostate_cancer_primary_268 [PCA.1049]


title: prostate_cancer_primary_257 [PCA.1038]


title: prostate_cancer_primary_249 [PCA.1030]


title: prostate_cancer_primary_252 [PCA.1033]


title: prostate_cancer_primary_244 [PCA.1025]


title: prostate_cancer_primary_247 [PCA.1028]


title: prostate_cancer_primary_246 [PCA.1027]


title: prostate_cancer_primary_241 [PCA.1022]


title: prostate_cancer_primary_243 [PCA.1024]


title: prostate_cancer_primary_242 [PCA.1023]


title: prostate_cancer_primary_240 [PCA.1021]


title: prostate_cancer_primary_237 [PCA.1018]


title: prostate_cancer_primary_238 [PCA.1019]


title: prostate_cancer_primary_235 [PCA.1016]


title: prostate_cancer_primary_232 [PCA.1013]


title: prostate_cancer_primary_245 [PCA.1026]


title: prostate_cancer_primary_230 [PCA.1011]


title: prostate_cancer_primary_236 [PCA.1017]


title: prostate_cancer_primary_234 [PCA.1015]


title: prostate_cancer_primary_233 [PCA.1014]


title: prostate_cancer_primary_231 [PCA.1012]


title: prostate_cancer_primary_239 [PCA.1020]


title: prostate_cancer_primary_229 [PCA.1010]


title: prostate_cancer_primary_221 [PCA.1002]


title: prostate_cancer_primary_220 [PCA.1001]


title: prostate_cancer_primary_224 [PCA.1005]


title: prostate_cancer_primary_226 [PCA.1007]


title: prostate_cancer_primary_227 [PCA.1008]


title: prostate_cancer_primary_225 [PCA.1006]


title: prostate_cancer_primary_222 [PCA.1003]


title: prostate_cancer_primary_219 [PCA.1000]


title: prostate_cancer_primary_223 [PCA.1004]


title: prostate_cancer_primary_228 [PCA.1009]


title: prostate_cancer_primary_217 [PCA.998]


title: prostate_cancer_primary_216 [PCA.997]


title: prostate_cancer_primary_311 [PCA.1092]


title: prostate_cancer_primary_218 [PCA.999]


title: prostate_cancer_primary_206 [PCA.987]


title: prostate_cancer_primary_207 [PCA.988]


title: prostate_cancer_primary_205 [PCA.986]


title: prostate_cancer_primary_208 [PCA.989]


title: prostate_cancer_primary_210 [PCA.991]


title: prostate_cancer_primary_204 [PCA.985]


title: prostate_cancer_primary_214 [PCA.995]


title: prostate_cancer_primary_209 [PCA.990]


title: prostate_cancer_primary_212 [PCA.993]


title: prostate_cancer_primary_202 [PCA.983]


title: prostate_cancer_primary_211 [PCA.992]


title: prostate_cancer_primary_203 [PCA.984]


title: prostate_cancer_primary_201 [PCA.982]


title: prostate_cancer_primary_200 [PCA.981]


title: prostate_cancer_primary_197 [PCA.978]


title: prostate_cancer_primary_199 [PCA.980]


title: prostate_cancer_primary_213 [PCA.994]


title: prostate_cancer_primary_195 [PCA.976]


title: prostate_cancer_primary_196 [PCA.977]


title: prostate_cancer_primary_191 [PCA.972]


title: prostate_cancer_primary_194 [PCA.975]


title: prostate_cancer_primary_192 [PCA.973]


title: prostate_cancer_primary_215 [PCA.996]


title: prostate_cancer_primary_198 [PCA.979]


title: prostate_cancer_primary_193 [PCA.974]


title: prostate_cancer_primary_190 [PCA.971]


title: prostate_cancer_primary_187 [PCA.968]


title: prostate_cancer_primary_188 [PCA.969]


title: prostate_cancer_primary_183 [PCA.964]


title: prostate_cancer_primary_186 [PCA.967]


title: prostate_cancer_primary_189 [PCA.970]


title: prostate_cancer_primary_181 [PCA.962]


title: prostate_cancer_primary_182 [PCA.963]


title: prostate_cancer_primary_177 [PCA.958]


title: prostate_cancer_primary_180 [PCA.961]


title: prostate_cancer_primary_178 [PCA.959]


title: prostate_cancer_primary_175 [PCA.956]


title: prostate_cancer_primary_174 [PCA.955]


title: prostate_cancer_primary_176 [PCA.957]


title: prostate_cancer_primary_165 [PCA.946]


title: prostate_cancer_primary_160 [PCA.941]


title: prostate_cancer_primary_185 [PCA.966]


title: prostate_cancer_primary_179 [PCA.960]


title: prostate_cancer_primary_171 [PCA.952]


title: prostate_cancer_primary_166 [PCA.947]


title: prostate_cancer_primary_172 [PCA.953]


title: prostate_cancer_primary_184 [PCA.965]


title: prostate_cancer_primary_164 [PCA.945]


title: prostate_cancer_primary_169 [PCA.950]


title: prostate_cancer_primary_173 [PCA.954]


title: prostate_cancer_primary_163 [PCA.944]


title: prostate_cancer_primary_170 [PCA.951]


title: prostate_cancer_primary_161 [PCA.942]


title: prostate_cancer_primary_167 [PCA.948]


title: prostate_cancer_primary_159 [PCA.940]


title: prostate_cancer_primary_158 [PCA.939]


title: prostate_cancer_primary_157 [PCA.938]


title: prostate_cancer_primary_168 [PCA.949]


title: prostate_cancer_primary_162 [PCA.943]


title: prostate_cancer_primary_152 [PCA.933]


title: prostate_cancer_primary_155 [PCA.936]


title: prostate_cancer_primary_147 [PCA.928]


title: prostate_cancer_primary_156 [PCA.937]


title: prostate_cancer_primary_153 [PCA.934]


title: prostate_cancer_primary_148 [PCA.929]


title: prostate_cancer_primary_150 [PCA.931]


title: prostate_cancer_primary_151 [PCA.932]


title: prostate_cancer_primary_149 [PCA.930]


title: prostate_cancer_primary_154 [PCA.935]


title: prostate_cancer_primary_146 [PCA.927]


title: prostate_cancer_primary_145 [PCA.926]


title: prostate_cancer_primary_144 [PCA.925]


title: prostate_cancer_primary_143 [PCA.924]


title: prostate_cancer_primary_140 [PCA.921]


title: prostate_cancer_primary_133 [PCA.914]


title: prostate_cancer_primary_134 [PCA.915]


title: prostate_cancer_primary_135 [PCA.916]


title: prostate_cancer_primary_132 [PCA.913]


title: prostate_cancer_primary_137 [PCA.918]


title: prostate_cancer_primary_131 [PCA.912]


title: prostate_cancer_primary_139 [PCA.920]


title: prostate_cancer_primary_128 [PCA.909]


title: prostate_cancer_primary_127 [PCA.908]


title: prostate_cancer_primary_129 [PCA.910]


title: prostate_cancer_primary_126 [PCA.907]


title: prostate_cancer_primary_142 [PCA.923]


title: prostate_cancer_primary_117 [PCA.898]


title: prostate_cancer_primary_124 [PCA.905]


title: prostate_cancer_primary_116 [PCA.897]


title: prostate_cancer_primary_138 [PCA.919]


title: prostate_cancer_primary_120 [PCA.901]


title: prostate_cancer_primary_136 [PCA.917]


title: prostate_cancer_primary_118 [PCA.899]


title: prostate_cancer_primary_121 [PCA.902]


title: prostate_cancer_primary_125 [PCA.906]


title: prostate_cancer_primary_123 [PCA.904]


title: prostate_cancer_primary_141 [PCA.922]


title: prostate_cancer_primary_130 [PCA.911]


title: prostate_cancer_primary_122 [PCA.903]


title: prostate_cancer_primary_119 [PCA.900]


title: prostate_cancer_primary_114 [PCA.895]


title: prostate_cancer_primary_110 [PCA.891]


title: prostate_cancer_primary_112 [PCA.893]


title: prostate_cancer_primary_113 [PCA.894]


title: prostate_cancer_primary_111 [PCA.892]


title: prostate_cancer_primary_109 [PCA.890]


title: prostate_cancer_primary_108 [PCA.889]


title: prostate_cancer_primary_105 [PCA.886]


title: prostate_cancer_primary_106 [PCA.887]


title: prostate_cancer_primary_107 [PCA.888]


title: prostate_cancer_primary_101 [PCA.882]


title: prostate_cancer_primary_104 [PCA.885]


title: prostate_cancer_primary_102 [PCA.883]


title: prostate_cancer_primary_115 [PCA.896]


title: prostate_cancer_primary_103 [PCA.884]


title: prostate_cancer_primary_99 [PCA.880]


title: prostate_cancer_primary_100 [PCA.881]


title: prostate_cancer_primary_98 [PCA.879]


title: prostate_cancer_primary_96 [PCA.877]


title: prostate_cancer_primary_91 [PCA.872]


title: prostate_cancer_primary_97 [PCA.878]


title: prostate_cancer_primary_94 [PCA.875]


title: prostate_cancer_primary_87 [PCA.868]


title: prostate_cancer_primary_93 [PCA.874]


title: prostate_cancer_primary_90 [PCA.871]


title: prostate_cancer_primary_89 [PCA.870]


title: prostate_cancer_primary_85 [PCA.866]


title: prostate_cancer_primary_88 [PCA.869]


title: prostate_cancer_primary_84 [PCA.865]


title: prostate_cancer_primary_83 [PCA.864]


title: prostate_cancer_primary_92 [PCA.873]


title: prostate_cancer_primary_81 [PCA.862]


title: prostate_cancer_primary_80 [PCA.861]


title: prostate_cancer_primary_73 [PCA.854]


title: prostate_cancer_primary_78 [PCA.859]


title: prostate_cancer_primary_77 [PCA.858]


title: prostate_cancer_primary_82 [PCA.863]


title: prostate_cancer_primary_95 [PCA.876]


title: prostate_cancer_primary_70 [PCA.851]


title: prostate_cancer_primary_76 [PCA.857]


title: prostate_cancer_primary_86 [PCA.867]


title: prostate_cancer_primary_74 [PCA.855]


title: prostate_cancer_primary_72 [PCA.853]


title: prostate_cancer_primary_69 [PCA.850]


title: prostate_cancer_primary_75 [PCA.856]


title: prostate_cancer_primary_71 [PCA.852]


title: prostate_cancer_primary_67 [PCA.848]


title: prostate_cancer_primary_61 [PCA.842]


title: prostate_cancer_primary_60 [PCA.841]


title: prostate_cancer_primary_57 [PCA.838]


title: prostate_cancer_primary_58 [PCA.839]


title: prostate_cancer_primary_65 [PCA.846]


title: prostate_cancer_primary_59 [PCA.840]


title: prostate_cancer_primary_79 [PCA.860]


title: prostate_cancer_primary_66 [PCA.847]


title: prostate_cancer_primary_63 [PCA.844]


title: prostate_cancer_primary_56 [PCA.837]


title: prostate_cancer_primary_55 [PCA.836]


title: prostate_cancer_primary_68 [PCA.849]


title: prostate_cancer_primary_54 [PCA.835]


title: prostate_cancer_primary_51 [PCA.832]


title: prostate_cancer_primary_53 [PCA.834]


title: prostate_cancer_primary_43 [PCA.824]


title: prostate_cancer_primary_45 [PCA.826]


title: prostate_cancer_primary_44 [PCA.825]


title: prostate_cancer_primary_41 [PCA.822]


title: prostate_cancer_primary_48 [PCA.829]


title: prostate_cancer_primary_39 [PCA.820]


title: prostate_cancer_primary_50 [PCA.831]


title: prostate_cancer_primary_47 [PCA.828]


title: prostate_cancer_primary_52 [PCA.833]


title: prostate_cancer_primary_62 [PCA.843]


title: prostate_cancer_primary_46 [PCA.827]


title: prostate_cancer_primary_49 [PCA.830]


title: prostate_cancer_primary_40 [PCA.821]


title: prostate_cancer_primary_33 [PCA.814]


title: prostate_cancer_primary_36 [PCA.817]


title: prostate_cancer_primary_35 [PCA.816]


title: prostate_cancer_primary_29 [PCA.810]


title: prostate_cancer_primary_38 [PCA.819]


title: prostate_cancer_primary_34 [PCA.815]


title: prostate_cancer_primary_30 [PCA.811]


title: prostate_cancer_primary_28 [PCA.809]


title: prostate_cancer_primary_27 [PCA.808]


title: prostate_cancer_primary_64 [PCA.845]


title: prostate_cancer_primary_32 [PCA.813]


title: prostate_cancer_primary_25 [PCA.806]


title: prostate_cancer_primary_26 [PCA.807]


title: prostate_cancer_primary_42 [PCA.823]


title: prostate_cancer_primary_37 [PCA.818]


title: prostate_cancer_primary_31 [PCA.812]


title: prostate_cancer_primary_23 [PCA.804]


title: prostate_cancer_primary_22 [PCA.803]


title: prostate_cancer_primary_21 [PCA.802]


title: prostate_cancer_primary_20 [PCA.801]


title: prostate_cancer_primary_16 [PCA.797]


title: prostate_cancer_primary_24 [PCA.805]


title: prostate_cancer_primary_15 [PCA.796]


title: prostate_cancer_primary_12 [PCA.793]


title: prostate_cancer_primary_11 [PCA.792]


title: prostate_cancer_primary_14 [PCA.795]


title: prostate_cancer_primary_13 [PCA.794]


title: prostate_cancer_primary_17 [PCA.798]


title: prostate_cancer_primary_19 [PCA.800]


title: prostate_cancer_primary_10 [PCA.791]


title: prostate_cancer_primary_18 [PCA.799]


title: prostate_cancer_primary_8 [PCA.789]


title: prostate_cancer_primary_9 [PCA.790]


title: prostate_cancer_primary_7 [PCA.788]


title: prostate_cancer_primary_6 [PCA.787]


title: prostate_cancer_primary_4 [PCA.785]


title: prostate_cancer_primary_781 (STAMPEDE)

growth_protocol: Not Applicable

treatment_protocol: Not Applicable


title: prostate_cancer_primary_2 [PCA.783]


title: prostate_cancer_primary_1 [PCA.782]


title: prostate_cancer_primary_3 [PCA.784]


title: prostate_cancer_primary_772 (STAMPEDE)


title: prostate_cancer_primary_776 (STAMPEDE)


title: prostate_cancer_primary_775 (STAMPEDE)


title: prostate_cancer_primary_774 (STAMPEDE)


title: prostate_cancer_primary_778 (STAMPEDE)


title: prostate_cancer_primary_780 (STAMPEDE)


title: prostate_cancer_primary_766 (STAMPEDE)


title: prostate_cancer_primary_779 (STAMPEDE)


title: prostate_cancer_primary_769 (STAMPEDE)


title: prostate_cancer_primary_773 (STAMPEDE)


title: prostate_cancer_primary_765 (STAMPEDE)


title: prostate_cancer_primary_764 (STAMPEDE)


title: prostate_cancer_primary_768 (STAMPEDE)


title: prostate_cancer_primary_777 (STAMPEDE)


title: prostate_cancer_primary_763 (STAMPEDE)


title: prostate_cancer_primary_762 (STAMPEDE)


title: prostate_cancer_primary_767 (STAMPEDE)


title: prostate_cancer_primary_761 (STAMPEDE)


title: prostate_cancer_primary_771 (STAMPEDE)


title: prostate_cancer_primary_770 (STAMPEDE)


title: prostate_cancer_primary_760 (STAMPEDE)


title: prostate_cancer_primary_5 [PCA.786]


title: prostate_cancer_primary_759 (STAMPEDE)


title: prostate_cancer_primary_757 (STAMPEDE)


title: prostate_cancer_primary_758 (STAMPEDE)


title: prostate_cancer_primary_756 (STAMPEDE)


title: prostate_cancer_primary_754 (STAMPEDE)


title: prostate_cancer_primary_755 (STAMPEDE)


title: prostate_cancer_primary_746 (STAMPEDE)


title: prostate_cancer_primary_751 (STAMPEDE)


title: prostate_cancer_primary_752 (STAMPEDE)


title: prostate_cancer_primary_749 (STAMPEDE)


title: prostate_cancer_primary_750 (STAMPEDE)


title: prostate_cancer_primary_747 (STAMPEDE)


title: prostate_cancer_primary_744 (STAMPEDE)


title: prostate_cancer_primary_740 (STAMPEDE)


title: prostate_cancer_primary_748 (STAMPEDE)


title: prostate_cancer_primary_742 (STAMPEDE)


title: prostate_cancer_primary_739 (STAMPEDE)


title: prostate_cancer_primary_745 (STAMPEDE)


title: prostate_cancer_primary_732 (STAMPEDE)


title: prostate_cancer_primary_733 (STAMPEDE)


title: prostate_cancer_primary_736 (STAMPEDE)


title: prostate_cancer_primary_737 (STAMPEDE)


title: prostate_cancer_primary_741 (STAMPEDE)


title: prostate_cancer_primary_731 (STAMPEDE)


title: prostate_cancer_primary_730 (STAMPEDE)


title: prostate_cancer_primary_753 (STAMPEDE)


title: prostate_cancer_primary_743 (STAMPEDE)


title: prostate_cancer_primary_738 (STAMPEDE)


title: prostate_cancer_primary_729 (STAMPEDE)


title: prostate_cancer_primary_735 (STAMPEDE)


title: prostate_cancer_primary_727 (STAMPEDE)


title: prostate_cancer_primary_726 (STAMPEDE)


title: prostate_cancer_primary_725 (STAMPEDE)


title: prostate_cancer_primary_724 (STAMPEDE)


title: prostate_cancer_primary_718 (STAMPEDE)


title: prostate_cancer_primary_720 (STAMPEDE)


title: prostate_cancer_primary_728 (STAMPEDE)


title: prostate_cancer_primary_723 (STAMPEDE)


title: prostate_cancer_primary_719 (STAMPEDE)


title: prostate_cancer_primary_721 (STAMPEDE)


title: prostate_cancer_primary_722 (STAMPEDE)


title: prostate_cancer_primary_713 (STAMPEDE)


title: prostate_cancer_primary_702 (STAMPEDE)


title: prostate_cancer_primary_715 (STAMPEDE)


title: prostate_cancer_primary_712 (STAMPEDE)


title: prostate_cancer_primary_706 (STAMPEDE)


title: prostate_cancer_primary_704 (STAMPEDE)


title: prostate_cancer_primary_700 (STAMPEDE)


title: prostate_cancer_primary_717 (STAMPEDE)


title: prostate_cancer_primary_705 (STAMPEDE)


title: prostate_cancer_primary_698 (STAMPEDE)


title: prostate_cancer_primary_714 (STAMPEDE)


title: prostate_cancer_primary_716 (STAMPEDE)


title: prostate_cancer_primary_710 (STAMPEDE)


title: prostate_cancer_primary_699 (STAMPEDE)


title: prostate_cancer_primary_708 (STAMPEDE)


title: prostate_cancer_primary_703 (STAMPEDE)


title: prostate_cancer_primary_707 (STAMPEDE)


title: prostate_cancer_primary_701 (STAMPEDE)


title: prostate_cancer_primary_709 (STAMPEDE)


title: prostate_cancer_primary_697 (STAMPEDE)


title: prostate_cancer_primary_711 (STAMPEDE)


title: prostate_cancer_primary_695 (STAMPEDE)


title: prostate_cancer_primary_694 (STAMPEDE)


title: prostate_cancer_primary_734 (STAMPEDE)


title: prostate_cancer_primary_692 (STAMPEDE)


title: prostate_cancer_primary_691 (STAMPEDE)


title: prostate_cancer_primary_690 (STAMPEDE)


title: prostate_cancer_primary_693 (STAMPEDE)


title: prostate_cancer_primary_687 (STAMPEDE)


title: prostate_cancer_primary_696 (STAMPEDE)


title: prostate_cancer_primary_688 (STAMPEDE)


title: prostate_cancer_primary_682 (STAMPEDE)


title: prostate_cancer_primary_685 (STAMPEDE)


title: prostate_cancer_primary_674 (STAMPEDE)


title: prostate_cancer_primary_686 (STAMPEDE)


title: prostate_cancer_primary_675 (STAMPEDE)