Genome-Wide Bovine H3K27me3 Modifications and the Regulatory Effects on Genes Expressions in Peripheral

Genome-Wide Bovine H3K27me3 Modifications and the Regulatory Effects on Genes Expressions in Peripheral

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by Blood Lymphocytes , Yanghua He , Ying Yu , Yuan Zhang , Jiuzhou Song , Apratim Mitra , Yi Zhang , Yachun Wang , Dongxiao Sun , Shengli Zhang

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979	A new mathematical model for relative quantification in real-time RT–PCR. - MW - 2001 (Show Context) Citation Context ...er3/input.htm) and confirmed by Oligo 6.0. Primer sequences are given in Table S5. A standard curve was performed using genomic DNA prepared for each primer pair to determinate primer pair efficiency =-=[51]-=-, and three serial tenfold dilutions were used ranging from 0.5 ng to 50 ng. Each 20 mL reaction contained 7 mL of nuclease-free water (Gibco), 10 mL of LightCycler 480 SYBR Green I Master mix (Roche,...
721	High-resolution profiling of histone methylations in the human genome - Barski, Cuddapah, et al. - 2007 (Show Context) Citation Context ...reported that H3K27me3 are relatively stable through lymphocyte divisions and for preserving cell identity, and are therefore considered as potential marks for transmitting the epigenetic information =-=[20,21]-=-. In bovine, the remodeling of H3K27me3 was investigated during development of in vitro fertilization (IVF) and somatic cell nuclear transfer (SCNT) bovine embryos [22,23]. The global dynamics of H3K2...
337	Polycomb complexes repress developmental regulators in murine embryonic stem cells,” - Boyer, Plath, et al. - 2006 (Show Context) Citation Context ... genes (Figure 4, Table S1). As expected, H3K27me3 signals were correlated with gene repression (Figure 4), which is in agreement with previous studies in human T cell and murine embryonic stem cells =-=[30,31]-=-. Obviously, H3K27me3 levels were higher at silent genes than at active genes. Intriguingly, H3K27me3 levels were elevated surrounding the TSSs and peaked at upstream 2 K of TSS for the silent genes s...
270	Model-based analysis of ChIP-seq (MACS). Genome Biol - Zhang - 2008 (Show Context) Citation Context ....0 software, and its function is to isolate ChIP-enriched regions from non-enriched regions based on a dynamic Poisson distribution model. Detailed algorithms and models were described by Zhang et al =-=[46]-=-. We set up a bandwidth of 200 bp, mfold of 30, p-value of 1.00e-05 under a FDR cutoff of 1% to call peaks representing enriched H3K27me3 marks. The output result includes one EXCEL file containing th...
152	2008. Mapping short DNA sequencing reads and calling variants using mapping quality scores. Genome Res. 18:1851–1858. Gallagher et al. 8 ® mbio.asm.org January/February 2011 Volume 2 Issue 1 e00315-10 m bio.asm .org o n Septem ber 16, 2016 - Published by - Li, Ruan, et al. (Show Context) Citation Context ...s with sequencing length of 35 bp, but tags that include CATG site were of 21 bp length. To determine the position of tags sequences, a more stringent mapping method (SOAP 2.21 software) were adopted =-=[47,48]-=- to map all tags to the bovine reference genome. Raw sequences were transformed into clean tags after certain steps of data-processing. All clean tags were mapped to the reference sequences and only t...
71	Mortazavi A, Myers RM,Wold B. 2007. Genome-widemapping of in vivo protein-DNA interactions. Science 316 - DS (Show Context) Citation Context ...ome-wide measurements for studying the interactions between histone and DNA as well as their regulation on transcriptional activity were increased rapidly by high-throughput DNA sequencing techniques =-=[35,36]-=-. In the present study, we first described the genome-wide H3K27me3 profiling of peripheral blood lymphocytes in dairy cows. The results indicated that H3K27me3 modification were associated with gene ...
66	MA: Next-generation tag sequencing for cancer gene expression profiling. Genome Res 2009 - AS, RD, et al. (Show Context) Citation Context ...then normalized to TPM (number of transcript copies in per million clean tags), equaling to copy number of clean tags for this gene divided by total number of clean tags and multiplied by one million =-=[49,50]-=-. Sequencing quality evaluation is shown in Figure S3. Combination Analysis of ChIP-seq with DGE Data To study the correlation of H3K27me3 modifications with gene expressions, transcriptional levels o...
37	Ariyurek Y, Thygesen HH, Vreugdenhil E, Vossen RHAM, et al. (2008) Deep sequencing-based expression analysis shows major advances in robustness, resolution and inter-lab portability over five microarray platforms. Nucleic Acids Res 36: e141 - PAC (Show Context) Citation Context ...then normalized to TPM (number of transcript copies in per million clean tags), equaling to copy number of clean tags for this gene divided by total number of clean tags and multiplied by one million =-=[49,50]-=-. Sequencing quality evaluation is shown in Figure S3. Combination Analysis of ChIP-seq with DGE Data To study the correlation of H3K27me3 modifications with gene expressions, transcriptional levels o...
34	High-throughput DNA sequencing–concepts and limitations - Kircher, Kelso - 2010 (Show Context) Citation Context ...ome-wide measurements for studying the interactions between histone and DNA as well as their regulation on transcriptional activity were increased rapidly by high-throughput DNA sequencing techniques =-=[35,36]-=-. In the present study, we first described the genome-wide H3K27me3 profiling of peripheral blood lymphocytes in dairy cows. The results indicated that H3K27me3 modification were associated with gene ...
30	Efficient yeast ChIP-Seq using multiplex short-read DNA sequencing. - Lefrancois, GM, et al. - 2009 (Show Context) Citation Context ...ion To assess the accuracy of the ChIP-seq mapping result, bovine CD4 and IL10 cytokine genes were used to confirm their H3K27me3 enrichment profile using ChIP - quantitative PCR (ChIP-qPCR) approach =-=[34]-=-. We arbitrarily chose five enriched regions from the H3K27me3 maps for the two genes (4 sites on the gene body region of CD4 and 1 site on the promoter region of IL10). Relative enrichment was quanti...
25	Regulation of MicroRNA expression and abundance during lymphopoiesis,” - Kuchen, Resch, et al. - 2010 (Show Context) Citation Context ... system. Numerous studies are working on understanding the contribution of transcriptional and epigenetic regulation during lymphopoiesis at both physiological and pathological levels in recent years =-=[9,10,11,12,13]-=-. PLoS ONE \| www.plosone.org 1 June 2012 \| Volume 7 \| Issue 6 \| e39094 The complex relationships between transcription level and the epigenetic machinery of lymphocytes identity and development are pa...
25	Histone modifications in transcriptional regulation - SL - 2002 (Show Context) Citation Context ...nd development are partially revealed [12,14,15]. Posttranslational histone modifications are the major part of epigenetics, which include acetylation, methylation, phosphorylation and ubiquitination =-=[16]-=-. Acetylation is the most frequently studied histone modification and is commonly localized to active chromatin. However, histone methylation plays a dual role as it is important in both activation an...
18	Wang J: SOAP: short oligonucleotide alignment program - RQ, YR, et al. (Show Context) Citation Context ...s with sequencing length of 35 bp, but tags that include CATG site were of 21 bp length. To determine the position of tags sequences, a more stringent mapping method (SOAP 2.21 software) were adopted =-=[47,48]-=- to map all tags to the bovine reference genome. Raw sequences were transformed into clean tags after certain steps of data-processing. All clean tags were mapped to the reference sequences and only t...
17	Transgenerational epigenetic inheritance of longevity in Caenorhabditis elegans. Nature 479: 365–371 - EL, TJ, et al. - 2011 (Show Context) Citation Context ...s it is important in both activation and repression, depending on where the methyl group is modified. Trimethylation of lysine four on histone H3 (H3K4me3) is associated with transcriptional activity =-=[17]-=-. By contrast, trimethylaiton of lysine 27 on histone H3 (H3K27me3) is related with inactivation of genes expressions or located in heterochromatin [18,19]. Studies reported that H3K27me3 are relative...
14	Gehani SS, et al. (2008) A model for transmission of the H3K27me3 epigenetic mark. Nature cell biology 10 - KH, AP, et al.
12	Promoter CpG methylation contributes to ES cell gene regulation - SD, Shen, et al. - 2008 (Show Context) Citation Context ...s (Figure 2B). These results were consistent with previous observations that H3K27me3 associates extensively with proximal promoters in human T cells, as well as human and murine embryonic stem cells =-=[25,26,27]-=-. Distribution of H3K27me3 peaks. As the final ChIP DNA fragments contain immunoprecipitated target DNA only at minor fraction (reportedly,1%) within a large proportion of background input DNA [28,29]...
11	Global DNA hypomethylation in peripheral blood leukocytes as a biomarker for cancer risk: a meta-analysis. PLoS One 2012 - HD, Kim (Show Context) Citation Context ... system. Numerous studies are working on understanding the contribution of transcriptional and epigenetic regulation during lymphopoiesis at both physiological and pathological levels in recent years =-=[9,10,11,12,13]-=-. PLoS ONE \| www.plosone.org 1 June 2012 \| Volume 7 \| Issue 6 \| e39094 The complex relationships between transcription level and the epigenetic machinery of lymphocytes identity and development are pa...
9	Courdy SJ, Boucher KM (2008) Empirical methods for controlling false positives and estimating confidence in chIP-seq peaks. BMC Bioinformatics 9 - DA (Show Context) Citation Context ...,26,27]. Distribution of H3K27me3 peaks. As the final ChIP DNA fragments contain immunoprecipitated target DNA only at minor fraction (reportedly,1%) within a large proportion of background input DNA =-=[28,29]-=-, many researchers seek to identify locations of ChIP target DNA in which sequence reads cluster into many enrichment regions, wherein overlapping reads appear as peaks. In the present study, MACS1.4....
5	Swanson KM, Molenaar AJ, Maqbool NJ, et al. (2010) Epigenetic regulation of milk production in dairy cows - Singh, RA (Show Context) Citation Context ...plosone.org 1 June 2012 \| Volume 7 \| Issue 6 \| e39094 The complex relationships between transcription level and the epigenetic machinery of lymphocytes identity and development are partially revealed =-=[12,14,15]-=-. Posttranslational histone modifications are the major part of epigenetics, which include acetylation, methylation, phosphorylation and ubiquitination [16]. Acetylation is the most frequently studied...
5	MJ, Trounson E, Hilton DJ, et al. (2011) ChIP-seq analysis reveals distinct H3K27me3 profiles that correlate with transcriptional activity - MD, TA, et al. (Show Context) Citation Context ...e3) is associated with transcriptional activity [17]. By contrast, trimethylaiton of lysine 27 on histone H3 (H3K27me3) is related with inactivation of genes expressions or located in heterochromatin =-=[18,19]-=-. Studies reported that H3K27me3 are relatively stable through lymphocyte divisions and for preserving cell identity, and are therefore considered as potential marks for transmitting the epigenetic in...
5	Moerkerk PT, van den Bosch SM, et al. (2009) Promoter CpG island hypermethylation- and H3K9me3 and H3K27me3mediated epigenetic silencing targets the deleted in colon cancer (DCC) gene in colorectal carcinogenesis without affecting neighboring genes on chr - Derks, LJ, et al. (Show Context) Citation Context ...e3) is associated with transcriptional activity [17]. By contrast, trimethylaiton of lysine 27 on histone H3 (H3K27me3) is related with inactivation of genes expressions or located in heterochromatin =-=[18,19]-=-. Studies reported that H3K27me3 are relatively stable through lymphocyte divisions and for preserving cell identity, and are therefore considered as potential marks for transmitting the epigenetic in...
5	Multiple histone site epigenetic modifications in nuclear transfer and in vitro fertilized bovine embryos. - Wu, Li, et al. - 2011 (Show Context) Citation Context ...g the epigenetic information [20,21]. In bovine, the remodeling of H3K27me3 was investigated during development of in vitro fertilization (IVF) and somatic cell nuclear transfer (SCNT) bovine embryos =-=[22,23]-=-. The global dynamics of H3K27me3 during bovine oocyte maturation and preimplantation development were detected by semiquantitative immunofluorescence [24]. However, genome-wide H3K27me3 modifications...
5	Regulatory natural killer cells: new players in the IL10 anti-inflammatory response. Cell Host Microbe 2009;6:493–5 - Vivier, Ugolini (Show Context) Citation Context ...ollowing mechanisms: due to low level of H3K27me3 modification of IL10, more IL10 released by cytotoxic T-cells could inhibit the actions of NK cells during the immune response to bacterial infection =-=[42]-=-. These results suggested H3K27me3 levels of vital genes related to immune response could serve as a prognostic factor for udder health of dairy cattle [43]. We applied direct sequencing of ChIP DNA u...
4	K 2006 The genomic landscape of histone modifications in human T cells - ROH, CUDDAPAH, et al. (Show Context) Citation Context ... genes (Figure 4, Table S1). As expected, H3K27me3 signals were correlated with gene repression (Figure 4), which is in agreement with previous studies in human T cell and murine embryonic stem cells =-=[30,31]-=-. Obviously, H3K27me3 levels were higher at silent genes than at active genes. Intriguingly, H3K27me3 levels were elevated surrounding the TSSs and peaked at upstream 2 K of TSS for the silent genes s...
3	Yang CH, Ruotti V, et al. (2007) Whole-genome analysis of histone H3 lysine 4 and lysine 27 methylation in human embryonic stem cells - GJ, SL, et al. (Show Context) Citation Context ...s (Figure 2B). These results were consistent with previous observations that H3K27me3 associates extensively with proximal promoters in human T cells, as well as human and murine embryonic stem cells =-=[25,26,27]-=-. Distribution of H3K27me3 peaks. As the final ChIP DNA fragments contain immunoprecipitated target DNA only at minor fraction (reportedly,1%) within a large proportion of background input DNA [28,29]...
3	Effects of breed, feeding system, and parity on udder health and milking characteristics - Walsh, Buckley, et al. - 2007 (Show Context) Citation Context ...s gene was not expressed in individual C3. doi:10.1371/journal.pone.0039094.g008 Genome-Wide Profiling of H3K27me3 in Bovine PLoS ONE \| www.plosone.org 9 June 2012 \| Volume 7 \| Issue 6 \| e39094 udder =-=[37,38,39]-=-. Considering the SCC of the third-parity cows (SCC.400,000 cells/ml) significantly higher than the first-parity cows (SCC ,150,000 cells/ml) [40], we compared the differences of H3K27me3 modification...
3	A Study of somatic cell counts in the milk of HolsteinFriesian cows managed in Mediterranean climatic conditions - Koc - 2008 (Show Context) Citation Context ...s gene was not expressed in individual C3. doi:10.1371/journal.pone.0039094.g008 Genome-Wide Profiling of H3K27me3 in Bovine PLoS ONE \| www.plosone.org 9 June 2012 \| Volume 7 \| Issue 6 \| e39094 udder =-=[37,38,39]-=-. Considering the SCC of the third-parity cows (SCC.400,000 cells/ml) significantly higher than the first-parity cows (SCC ,150,000 cells/ml) [40], we compared the differences of H3K27me3 modification...
2	Ruegg PL (2005) Assessment of the impact of somatic cell count on functional longevity in Holstein and Jersey cattle using survival analysis methodology - DZ, KA, et al. (Show Context) Citation Context ...rage herd life of Holsteins is under three lactations at present [1]. Studies reported that over 90% of all cows are culled due to reasons of infertility, mastitis, lameness and lower milk production =-=[2,3,4]-=-. Although somatic cells are normal constituent of milk, high somatic cell counts (SCC) in the milk have been shown to be significantly related with milk quality, milk losses and mastitis risk [5,6]. ...
2	Effect of parity on lymphocytes in peripheral blood and colostrum of healthy Holstein dairy cows. Can J Vet Res 2010;74:130–135 - Ohtsuka (Show Context) Citation Context ...of cells, natural killer cells, T cells and B cells. Natural killer cells are a part of the innate immune system, whereas, T cells and B cells are the major components of the adaptive immune response =-=[8]-=-. Proper lymphocyte development and function are the result of multiple cell lineage choices and cellular transitions with the hematopoietic system. Numerous studies are working on understanding the c...
2	Epigenetic flexibility underlying lineage choices in the adaptive immune system - Kioussis, Georgopoulos - 2007 (Show Context) Citation Context ... system. Numerous studies are working on understanding the contribution of transcriptional and epigenetic regulation during lymphopoiesis at both physiological and pathological levels in recent years =-=[9,10,11,12,13]-=-. PLoS ONE \| www.plosone.org 1 June 2012 \| Volume 7 \| Issue 6 \| e39094 The complex relationships between transcription level and the epigenetic machinery of lymphocytes identity and development are pa...
2	Iager AE, Siripattarapravat K, et al. (2008) Polycomb gene expression and histone H3 lysine 27 trimethylation changes during bovine preimplantation development. Reproduction - PJ, NP, et al. (Show Context) Citation Context ...ll nuclear transfer (SCNT) bovine embryos [22,23]. The global dynamics of H3K27me3 during bovine oocyte maturation and preimplantation development were detected by semiquantitative immunofluorescence =-=[24]-=-. However, genome-wide H3K27me3 modifications and regulatory function are still unclear in bovine lymphocytes. The objectives of the study were to map the genomewide H3K27me3 landscape of bovine via h...
2	CD (2010) Rapid innovation in ChIP-seq peak-calling algorithms is outdistancing benchmarking efforts - AM, Schmid (Show Context) Citation Context ...,26,27]. Distribution of H3K27me3 peaks. As the final ChIP DNA fragments contain immunoprecipitated target DNA only at minor fraction (reportedly,1%) within a large proportion of background input DNA =-=[28,29]-=-, many researchers seek to identify locations of ChIP target DNA in which sequence reads cluster into many enrichment regions, wherein overlapping reads appear as peaks. In the present study, MACS1.4....
2	Saura CA, Lemere CA, Kim RD, et al. (2004) Reduced beta-amyloid production and increased inflammatory responses in presenilin conditional knock-out mice - Beglopoulos, Sun (Show Context) Citation Context ...pairs long term memory and cognitive deficits in AD patients. For PSEN1 and 2 double knock-out mice, loss of presenilins function leads to up-regulation of inflammatory markers in the cerebral cortex =-=[41]-=-. Thus the potential function of silenced PSEN2 on increased SCC companion with the thirdparity cows is worth further study. Unexpected, the down expressed genes involved in immune response in the fir...
2	Elling AA, Li XY, Li N, Peng ZY, et al. (2009) Genome-Wide and Organ-Specific Landscapes of Epigenetic Modifications and Their Relationships to mRNA - XF (Show Context) Citation Context ... for H3K27me3 marks in bovine lymphocytes. However, in the study, hundreds of peaks in bovine lymphocytes were found, which is far less than that in the human genome [44] and also in the maize genome =-=[45]-=- (see Figure S4). The reason may be associated with species, breeds or samples. As the H3K27me3 modification is highly complex, therefore, further studies are required to determine its function in dif...
1	JR (2006) Survival rates and productive herd life of dairy cattle in the United States - Hare, HD, et al. (Show Context) Citation Context ...e possible and the highest milk production of dairy cows should be at the fifth parity from physiological perspective. However, the average herd life of Holsteins is under three lactations at present =-=[1]-=-. Studies reported that over 90% of all cows are culled due to reasons of infertility, mastitis, lameness and lower milk production [2,3,4]. Although somatic cells are normal constituent of milk, high...
1	Svensson C (2009) Lifetime risk and cost of clinical mastitis in dairy cows in relation to heifer rearing conditions in southwest Sweden - Hultgren (Show Context) Citation Context ...rage herd life of Holsteins is under three lactations at present [1]. Studies reported that over 90% of all cows are culled due to reasons of infertility, mastitis, lameness and lower milk production =-=[2,3,4]-=-. Although somatic cells are normal constituent of milk, high somatic cell counts (SCC) in the milk have been shown to be significantly related with milk quality, milk losses and mastitis risk [5,6]. ...
1	Svensson C (2009) Heifer rearing conditions affect length of productive life in Swedish dairy cows. Prev Vet Med 89 - Hultgren (Show Context) Citation Context ...rage herd life of Holsteins is under three lactations at present [1]. Studies reported that over 90% of all cows are culled due to reasons of infertility, mastitis, lameness and lower milk production =-=[2,3,4]-=-. Although somatic cells are normal constituent of milk, high somatic cell counts (SCC) in the milk have been shown to be significantly related with milk quality, milk losses and mastitis risk [5,6]. ...
1	de Haas Y, de Jong G, Lam TJ, Ouweltjes W, et al. (2009) Characterization of distributions of somatic cell counts - J (Show Context) Citation Context ...[2,3,4]. Although somatic cells are normal constituent of milk, high somatic cell counts (SCC) in the milk have been shown to be significantly related with milk quality, milk losses and mastitis risk =-=[5,6]-=-. Peripheral blood lymphocytes are the main source of somatic cells in the milk of dairy cows in response to the infection or injury of the mammary gland [7]. Lymphocytes include three major types of ...
1	Boichard D (2000) Relationship between milk somatic-cell counts in the first lactation and clinical mastitis occurrence in the second lactation of French Holstein cows. Prev Vet Med 46: 99–111 - Rupp, Beaudeau (Show Context) Citation Context ...[2,3,4]. Although somatic cells are normal constituent of milk, high somatic cell counts (SCC) in the milk have been shown to be significantly related with milk quality, milk losses and mastitis risk =-=[5,6]-=-. Peripheral blood lymphocytes are the main source of somatic cells in the milk of dairy cows in response to the infection or injury of the mammary gland [7]. Lymphocytes include three major types of ...
1	Coksaygan O, Olmstead L, Lein DH (2000) Longitudinal evaluation of CD4+ and CD8+ peripheral blood and mammary gland lymphocytes in cows experimentally inoculated with Staphylococcus aureus - AL, FW (Show Context) Citation Context ...k quality, milk losses and mastitis risk [5,6]. Peripheral blood lymphocytes are the main source of somatic cells in the milk of dairy cows in response to the infection or injury of the mammary gland =-=[7]-=-. Lymphocytes include three major types of cells, natural killer cells, T cells and B cells. Natural killer cells are a part of the innate immune system, whereas, T cells and B cells are the major com...
1	Clode N, Parreira L (2003) The spatial organization of centromeric heterochromatin during normal human lymphopoiesis: evidence for ontogenically determined spatial patterns. Experimental Cell Research 290: 358–369 - Alcobia, AS, et al. (Show Context) Citation Context ... system. Numerous studies are working on understanding the contribution of transcriptional and epigenetic regulation during lymphopoiesis at both physiological and pathological levels in recent years =-=[9,10,11,12,13]-=-. PLoS ONE \| www.plosone.org 1 June 2012 \| Volume 7 \| Issue 6 \| e39094 The complex relationships between transcription level and the epigenetic machinery of lymphocytes identity and development are pa...
1	Genetic and Epigenetic Effects on Bovine Immune Responses and their Implications to Dairy Health. Proc 9th World Congress Genetics Applied to Livestock Prod Aug 1–6 - KT, BA, et al. - 2010 (Show Context) Citation Context ... system. Numerous studies are working on understanding the contribution of transcriptional and epigenetic regulation during lymphopoiesis at both physiological and pathological levels in recent years =-=[9,10,11,12,13]-=-. PLoS ONE \| www.plosone.org 1 June 2012 \| Volume 7 \| Issue 6 \| e39094 The complex relationships between transcription level and the epigenetic machinery of lymphocytes identity and development are pa...
1	Akutsu H, Stagg CA, Sharov AA, et al. (2004) Ageassociated alteration of gene expression patterns in mouse oocytes. Human Molecular Genetics 13 - Hamatani, Falco (Show Context) Citation Context ...plosone.org 1 June 2012 \| Volume 7 \| Issue 6 \| e39094 The complex relationships between transcription level and the epigenetic machinery of lymphocytes identity and development are partially revealed =-=[12,14,15]-=-. Posttranslational histone modifications are the major part of epigenetics, which include acetylation, methylation, phosphorylation and ubiquitination [16]. Acetylation is the most frequently studied...
1	Bourhis D, Audouard C, Vignon X, Lelievre JM (2010) Nuclear Profiles of H3 Histones Trimethylated on - Breton, LE (Show Context) Citation Context ...g the epigenetic information [20,21]. In bovine, the remodeling of H3K27me3 was investigated during development of in vitro fertilization (IVF) and somatic cell nuclear transfer (SCNT) bovine embryos =-=[22,23]-=-. The global dynamics of H3K27me3 during bovine oocyte maturation and preimplantation development were detected by semiquantitative immunofluorescence [24]. However, genome-wide H3K27me3 modifications...
1	Sahoo A, Im SH (2009) Epigenetic regulation of cytokine gene expression in T lymphocytes - CG (Show Context) Citation Context ...nd transcription factors genes. Different effectors of lymphocytes are characterized by lineage-specific expression of cytokine genes, and transcription factors play a role in this lineage commitment =-=[33]-=-. To further characterize the regulatory effects of H3K27me3 on the marked genes, we combined H3K27me3 maps with DGE data to identify groups of genes associated with cytokines and transcription factor...
1	RI, Monardes HG, Moro-Méndez J, Wade KM (2008) Milk losses associated with somatic cell counts per breed, parity and stage of lactation in Canadian dairy cattle. Livestock Science 117 - JW, Cue (Show Context) Citation Context ...s gene was not expressed in individual C3. doi:10.1371/journal.pone.0039094.g008 Genome-Wide Profiling of H3K27me3 in Bovine PLoS ONE \| www.plosone.org 9 June 2012 \| Volume 7 \| Issue 6 \| e39094 udder =-=[37,38,39]-=-. Considering the SCC of the third-parity cows (SCC.400,000 cells/ml) significantly higher than the first-parity cows (SCC ,150,000 cells/ml) [40], we compared the differences of H3K27me3 modification...
1	YP (2008) Study on the relationships between polymorphisms of CXCR2 gene and milk quality and mastitis of dairy cow - Xu, FQ, et al. (Show Context) Citation Context ...9 June 2012 \| Volume 7 \| Issue 6 \| e39094 udder [37,38,39]. Considering the SCC of the third-parity cows (SCC.400,000 cells/ml) significantly higher than the first-parity cows (SCC ,150,000 cells/ml) =-=[40]-=-, we compared the differences of H3K27me3 modification and gene expression levels between the third-parity cows and the first-parity cows. As expected, the 25 decreased expression genes in the third p...
1	Loss of trimethylation at lysine 27 of histone H3 is a predictor of poor outcome in breast, ovarian, and pancreatic cancers. Molecular carcinogenesis 47: 701–706 - YK, WY, et al. - 2008 (Show Context) Citation Context ... the immune response to bacterial infection [42]. These results suggested H3K27me3 levels of vital genes related to immune response could serve as a prognostic factor for udder health of dairy cattle =-=[43]-=-. We applied direct sequencing of ChIP DNA using Illumina Hiseq2000, which is an efficient method for mapping genomewide distributions of histone modifications and chromatin protein target sites. The ...
1	Chromatin Signatures in Multipotent Human Hematopoietic Stem Cells Indicate the Fate of Bivalent Genes during Differentiation. Cell stem cell 4: 80–93 - KR, CZ, et al. - 2009 (Show Context) Citation Context ...ost comprehensive genome-wide data for H3K27me3 marks in bovine lymphocytes. However, in the study, hundreds of peaks in bovine lymphocytes were found, which is far less than that in the human genome =-=[44]-=- and also in the maize genome [45] (see Figure S4). The reason may be associated with species, breeds or samples. As the H3K27me3 modification is highly complex, therefore, further studies are require...