Similar Datasets
Project description:Klebsiella sp. Z2 strain:Z2 Genome sequencing and assembly
| PRJNA529350 | ENA
Project description:Rhodoplanes sp. Z2-YC6860 Genome sequencing
| PRJNA238489 | ENA
Project description:uncultured prokaryote strain:Z2 Raw sequence reads
| PRJNA329612 | ENA
Project description:Flavobacterium psychrophilum strain:Z2 Genome sequencing and assembly
| PRJNA293776 | ENA
Project description:Two ramie cultivars, Zhongzhu no 2(Z2) and Huazhu no 4 (H4), showed constructing adventitious root formation (ARF) rate. Comparative transcriptome analysis was performed to study gene expression profiles in Z2 and H4 ramie during adventitious root formation. Illumina sequencing yielded a total of 92,794,556,688 bases data, and about 301.47 M and 313.06 M raw reads for Z2 and H4 plants, respectively. After quality control, every library obtained over 43 million reads, which is enough for the quantitative analysis of gene expression. Using Trinity software, these clean reads were first assembled into 121,492 transcripts, finally into 66,881 unigenes with an average length of 1144.25 bp. About 148.74 M and 138.72 M clean reads of H4 and Z2 were mapped to reference genes via Bowtie, respectively. The ratio of mapped clean reads for eight libraries ranged from 74.47% to 75.38% (average: 74.8%). By comparing gene expression levels in Tm and CK ramie stems, we identified 772 DEGs in H4 plants during RPF, including 7220 up-regulated and 8154 down-regulated DEGs. We identified 1256 DEGs in Z2 plants during RPF, which included 779 up-regulated and 447 down-regulated DEGs. We also identified 1919 DEGs between Z2 and H4 plants. There were 1147 (731 up-regulate and 416 down-regulated) DEGs uniquely in Z2, and 603 (202 up-regulate and 461 down-regulated) DEGs uniquely in H4 plants. The two genotypes shared 109 DEGs, which indicates some common pathways during ARF.
2019-06-20 | GSE116063 | GEO
Project description:LEAF-FUNGAL ENDOPHYTES OF NEOTROPICAL GYMNOSPERMS: A CULTURE-BASED, SANGER SEQUENCING AND WHOLE GENOME APPROACH
| PRJNA1048478 | ENA
Project description:modENCODE_submission_5619 This submission comes from a modENCODE project of Gary Karpen. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: We aim to determine the locations of the major histone modifications across the Drosophila melanogaster genome. The modifications under study are involved in basic chromosomal functions such as DNA replication, gene expression, gene silencing, and inheritance. We will perform Chromatin ImmunoPrecipitation (ChIP) using genomic tiling arrays. We will initially assay localizations using chromatin from three cell lines and two embryonic stages, and will then extend the analysis of a subset of proteins to four additional animal tissues/stages. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf EXPERIMENT TYPE: CHIP-chip. BIOLOGICAL SOURCE: Strain: Sexed Female Jil mutant(official name : Jil-1 z2 genotype : Jil-1 z2/ Jil-1 z2 outcross : 1 transgene : deletion tags : Transposon tag : none description : - The JIL-1 allele JIL-1z2 was isolated in a screen for imprecise excisions of the EP transposon (Rørth et al. description : 1998) in w; EP(3)3657/?2?3 Sb heterozygotes Developmental Stage: 3rd Instar Larvae Sexed Female ; Genotype: Jil-1 z2/ Jil-1 z2; Sex: Female; Transgene: deletion; NUMBER OF REPLICATES: 4; EXPERIMENTAL FACTORS: Strain Sexed Female Jil mutant(official name : Jil-1 z2 genotype : Jil-1 z2/ Jil-1 z2 outcross : 1 transgene : deletion tags : Transposon tag : none description : - The JIL-1 allele JIL-1z2 was isolated in a screen for imprecise excisions of the EP transposon (Rørth et al. description : 1998) in w; EP(3)3657/?2?3 Sb heterozygotes Antibody H4K16ac(M) (target is H4K16ac); Developmental Stage 3rd Instar Larvae Sexed Female
2013-03-13 | E-GEOD-45106 | biostudies-arrayexpress
Project description:modENCODE_submission_5609 This submission comes from a modENCODE project of Gary Karpen. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: We aim to determine the locations of the major histone modifications across the Drosophila melanogaster genome. The modifications under study are involved in basic chromosomal functions such as DNA replication, gene expression, gene silencing, and inheritance. We will perform Chromatin ImmunoPrecipitation (ChIP) using genomic tiling arrays. We will initially assay localizations using chromatin from three cell lines and two embryonic stages, and will then extend the analysis of a subset of proteins to four additional animal tissues/stages. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf EXPERIMENT TYPE: CHIP-chip. BIOLOGICAL SOURCE: Strain: Sexed Female Jil mutant(official name : Jil-1 z2 genotype : Jil-1 z2/ Jil-1 z2 outcross : 1 transgene : deletion tags : Transposon tag : none description : - The JIL-1 allele JIL-1z2 was isolated in a screen for imprecise excisions of the EP transposon (Rørth et al. description : 1998) in w; EP(3)3657/?2?3 Sb heterozygotes Developmental Stage: 3rd Instar Larvae Sexed Female ; Genotype: Jil-1 z2/ Jil-1 z2; Sex: Female; Transgene: deletion; NUMBER OF REPLICATES: 4; EXPERIMENTAL FACTORS: Strain Sexed Female Jil mutant(official name : Jil-1 z2 genotype : Jil-1 z2/ Jil-1 z2 outcross : 1 transgene : deletion tags : Transposon tag : none description : - The JIL-1 allele JIL-1z2 was isolated in a screen for imprecise excisions of the EP transposon (Rørth et al. description : 1998) in w; EP(3)3657/?2?3 Sb heterozygotes Antibody H3K9me3 (new lot) (target is H3K9me3); Developmental Stage 3rd Instar Larvae Sexed Female
2013-03-06 | E-GEOD-44891 | biostudies-arrayexpress
Project description:modENCODE_submission_5617 This submission comes from a modENCODE project of Gary Karpen. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: We aim to determine the locations of the major histone modifications across the Drosophila melanogaster genome. The modifications under study are involved in basic chromosomal functions such as DNA replication, gene expression, gene silencing, and inheritance. We will perform Chromatin ImmunoPrecipitation (ChIP) using genomic tiling arrays. We will initially assay localizations using chromatin from three cell lines and two embryonic stages, and will then extend the analysis of a subset of proteins to four additional animal tissues/stages. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf EXPERIMENT TYPE: CHIP-chip. BIOLOGICAL SOURCE: Strain: Sexed Female Jil mutant(official name : Jil-1 z2 genotype : Jil-1 z2/ Jil-1 z2 outcross : 1 transgene : deletion tags : Transposon tag : none description : - The JIL-1 allele JIL-1z2 was isolated in a screen for imprecise excisions of the EP transposon (Rørth et al. description : 1998) in w; EP(3)3657/?2?3 Sb heterozygotes Developmental Stage: 3rd Instar Larvae Sexed Female ; Genotype: Jil-1 z2/ Jil-1 z2; Sex: Female; Transgene: deletion; NUMBER OF REPLICATES: 4; EXPERIMENTAL FACTORS: Strain Sexed Female Jil mutant(official name : Jil-1 z2 genotype : Jil-1 z2/ Jil-1 z2 outcross : 1 transgene : deletion tags : Transposon tag : none description : - The JIL-1 allele JIL-1z2 was isolated in a screen for imprecise excisions of the EP transposon (Rørth et al. description : 1998) in w; EP(3)3657/?2?3 Sb heterozygotes Antibody H3K9me2-Ab2 (new lot) (target is H3K9me2); Developmental Stage 3rd Instar Larvae Sexed Female
2013-03-06 | E-GEOD-44895 | biostudies-arrayexpress