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695 results for “heterochromatin”
H4K20me3 is important for Ash1-mediated H3K36me3 and transcriptional silencing in facultative heterochromatin in a fungal pathogen
<p>Normalized ChIP-seq datasets for visualization in IGV. The tracks contain means of pooled replicate datasets.</p> <p>ChIP-seq data were quality-filtered and adapters removed with trimmomatic v.0.39 (Bolger et al., 2014). Mapping was performed with bowtie2 v.2.4.4 (Langmead and Salzberg, 2012), and sorting and indexing with samtools v.1.9 (Li, 2011). Normalized coverage bigwig files and heatmaps were created with deeptools v.3.5.1 (Ramírez et al., 2016). Wiggletools v.1.2 and the UCSC Genome Browser tools were used to calculate means for replicates and converting wig to bigwig files.</p> <p>Reference genome file is modified from Goodwin et al., 2011. Chromosome 18 was removed from the genome as our reference isolate is missing chromosome 18. </p> <p>Gene annotation file was obtained from FungiDB (release 53) and is based on the annotation published by Grandaubert et al., 2015.</p> <p>In this version, we have added new ChIP-seq bw tracks for ∆ash1::ash1-gfp-V5 and ∆kmt5::kmt5 complementation experiments. All tracks coming from this experiment are labeled *_compl_exp_mean.bw.</p> <p>We also added ChIP peak files (peaks called with HOMER: Heinz et al., 2010) for H4K20me3, H3K36me3 and H3K27me3 in WT, ∆kmt5 and ∆ash1, as well as H3K36me3 peak files for Set2- and Ash1-mediated H3K36me3.</p> <p>We have also added bed files (500 bp windows) containing facultative heterochromatin clusters 1 (Zt09_500bp_K27filtered_K36_K20_cluster1.bed) and 2 (Zt09_500bp_K27filtered_K36_K20_cluster2.bed). </p>
Hiding in the heterochromatin: Endogenous pararetroviruses escape elimination from the genome of sugar beet (Beta vulgaris)
<p>Here we provide supplementary data for our study of endogenous pararetroviruses in the sugar beet genome (beetEPRVs).</p> <p>Our genome-wide screen showed the presence of three beetEPRVs families in the genome of sugar beet (<em>Beta vulgaris</em>). This dataset contains the consensus sequence for each beetEPRV family (Data S1) and the underlying multiple sequence alignments of individual, genomic beetEPRV copies (Data S2-S5). All data are provided in FASTA format. Sequence names include information on the analysed sugar beet assembly (EL10.1; genebank accession SAMN07736104; Funk <em>et al.</em>, 2018), chromosomal position (chromosome identifier; start and stop position), and sequence orientation (forward = plus; reverse = minus).</p>
Local chromatin context dictates the genetic determinants of the heterochromatin spreading reaction. Analysis Code, Numerical and Primary data.
<p>Uploaded under this Zenodo DOI is the following:</p> <p>1. the Analysis Code used for Flow Cytometry analysis in the paper, GO complex analysis (Figure 3) and Hit visualization (Figure 1, 2 S1, S4 Figs).</p> <p>2. The primary Flow Cytometry data from both the initial screen (ScreenFlowFCS) and validation experiments (ValidationFlowFCS) are included as .zip files.</p> <p>3. a .zip folder is uploaded that contains all the analysis code for the ChIP-Seq experiments. </p> <p>4. Excel worksheets that contain the numerical source data for all qPCR bar plots.</p>
Raw Microscopy and Western Blot Data for "Distinct silencer states generate epigenetic states of heterochromatin"
<p>Raw microscopy and western blot images for "Distinct silencer states generate epigenetic states of heterochromatin"</p>
Figure 2 in Variations in heterochromatin content reveal important polymorphisms for studies of genetic improvement in garlic (Allium sativum L.)
Figure 2. Idiograms of the accessions "Sussuapara - PI" (A), "Santo Antônio de Lisboa - PI" (B), "Catetinho do Paraná 1254" (C), "Branco Mineiro - PI" (D), "Cateto Roxo 99" (E), "Roxo de Minas" (F), and "Sergipe" (G). Yellow dash and circle represent the CMA+/DAPI- band. Chromosomal order (CO), chromosome morphology (CM), metacentric (M), submetacentric (SM), short arm (p), and long arm (q). Vertical bar in karyogram and ideogram = 10 µm.
Figure 1. Allium sativum L in Variations in heterochromatin content reveal important polymorphisms for studies of genetic improvement in garlic (Allium sativum L.)
Figure 1. Allium sativum L.cytological data obtained by conventional Giemsa staining.Prophase and interphase nucleus (A), prometaphase (B), and metaphase (C) obtained with the use of antimitotic. Mitotic cycle is shown in d-f: anaphase (D), end of anaphase (E), and telophase (F). Dots and red arrow indicate the distended nucleolar organiser region (NOR). Bar = 10 µm.
Figure 1 in Heterochromatin distribution and localization of NORs in the 2n = 48 cytotypes of Nannospalax xanthodon and N. ehrenbergi
Figure 1. Collection sites of Nannospalax xanthodon (black square) and N. ehrenbergi (black triangle) in Turkey. The numbering of sampling localities corresponds to the data in the Table. The approximate ranges of both species are indicated after Kryštufek and Vohralík (2009).
Figure 4 in Heterochromatin distribution and localization of NORs in the 2n = 48 cytotypes of Nannospalax xanthodon and N. ehrenbergi
Figure 4. Standard karyotype (1), C-banded karyotype (2), and silver-stained karyotype (3) of Nannospalax ehrenbergi from Yayladağı. The heteromorphic chromosome pair is within the frame.
Figure 3 in Heterochromatin distribution and localization of NORs in the 2n = 48 cytotypes of Nannospalax xanthodon and N. ehrenbergi
Figure 3. Standard karyotype (1), C-banded karyotype (2), and silver-stained karyotype (3) of Nannospalax xanthodon from Malazgirt.
Figure 2 in Heterochromatin distribution and localization of NORs in the 2n = 48 cytotypes of Nannospalax xanthodon and N. ehrenbergi
Figure 2. Standard karyotype (1), C-banded karyotype (2), and silver-stained karyotype (3) of Nannospalax xanthodon from Şamanlı.
Figure 1 in C-Heterochromatin and nucleolus organizer region distribution of Myotis emarginatus (Chiroptera: Vespertilionidae) from Turkey
Figure 1. Collection sites of Myotis emarginatus in Dubnisa Cave from Kırklareli (1); in old church from Karaisalı, Adana (2); and in Black Cave from Yozgat (3) in Turkey.
Fig. 2 in Heterochromatin distribution and chromosomal mapping of microsatellite repeats in the genome of Frieseomelitta stingless bees (Hymenoptera: Apidae: Meliponini)
Fig. 2. Metaphase spreads of females of Frieseomelitta varia (a, g), Frieseomelitta sp. n. (b, h), Frieseomelitta meadewaldoi (c, i), Frieseomelitta dispar (d, j), Frieseomelitta francoi (e, k), and Frieseomelitta doederleini (f, l) afer basespecific fluorochrome staining. The arrows indicate the GC-rich regions.
Fig. 3 in Heterochromatin distribution and chromosomal mapping of microsatellite repeats in the genome of Frieseomelitta stingless bees (Hymenoptera: Apidae: Meliponini)
Fig. 3. Metaphase spreads of females of Frieseomelitta species afer fluorescence in situ hybridizaton with microsatellite probes.
Fig. 1. C in Heterochromatin distribution and chromosomal mapping of microsatellite repeats in the genome of Frieseomelitta stingless bees (Hymenoptera: Apidae: Meliponini)
Fig. 1. C-banded karyotypes of females of Frieseomelitta varia (a), Frieseomelitta doederleini (b), Frieseomelitta sp. nov. (c), Frieseomelitta meadewaldoi (d), Frieseomelitta dispar (e), and Frieseomelitta francoi (f). (M = metacentric, A = acrocentric, MT = metacentric with centromeric, and telomeric C-bands, AM = pseudoacrocentric).
Fig. 3 in Chromosome polymorphism of heterochromatin and nucleolar regions in two populations of the fish Astyanax bockmanni (Teleostei: Characiformes)
Fig. 3. Inter-individual polymorphisms of the heterochromatic blocks in Astyanax bockmanni from the Campo Novo River population. Each letter (a-d) represents a single individual.
Fig. 4. Sequential C in Chromosome polymorphism of heterochromatin and nucleolar regions in two populations of the fish Astyanax bockmanni (Teleostei: Characiformes)
Fig. 4. Sequential C-banding (a1 and b1) and Ag-NOR staining (a2 and b2) in a specimen from the Campo Novo River, demonstrating the association between heterochromatin and NOR. In (a2) and (b2), arrows indicate the presence of heterochromatin/NOR association, and arrowheads show NORs not associated with heterochromatin.
Fig. 1 in Chromosome polymorphism of heterochromatin and nucleolar regions in two populations of the fish Astyanax bockmanni (Teleostei: Characiformes)
Fig. 1. Karyotypes of Astyanax bockmanni arranged from Giemsa-stained chromosomes. Specimens from Barra Seca Stream (2n = 50) (a) and Campo Novo River (2n = 50) (b).
Figure 2 in C-Heterochromatin and nucleolus organizer region distribution of Myotis emarginatus (Chiroptera: Vespertilionidae) from Turkey
Figure 2. Standard karyotype of Myotis emarginatus in Turkey.
Figure 3. C in C-Heterochromatin and nucleolus organizer region distribution of Myotis emarginatus (Chiroptera: Vespertilionidae) from Turkey
Figure 3. C-banded karyotype of Myotis emarginatus in Turkey.
Figure 4 in C-Heterochromatin and nucleolus organizer region distribution of Myotis emarginatus (Chiroptera: Vespertilionidae) from Turkey
Figure 4. Silver-stained karyotype of Myotis emarginatus in Turkey.
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Allen Brain Atlas
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International Brain Laboratory public data
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OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.