المؤلفون: Qi Zhang, Dong-Ha Oh, Sandra Feuer DiTusa, Mangu V. RamanaRao, Niranjan Baisakh, Maheshi Dassanayake, Aaron P. Smith

المصدر: BMC Genomics, Vol 19, Iss 1, Pp 1-16 (2018)

مصطلحات موضوعية: Nucleosome patterns, Phosphate starvation, Chromatin remodeling, Differential gene expression, MNase-seq, RNA-seq, Biotechnology, TP248.13-248.65, Genetics, QH426-470

وصف الملف: electronic resource

Relation: http://link.springer.com/article/10.1186/s12864-017-4397-8; https://doaj.org/toc/1471-2164

URL الوصول: https://doaj.org/article/e37cf86c9ef64c6fa47a2cb688a4fdf7

المؤلفون: David A. Bates (11592564), Charles E. Bates (11592567), Andrew S. Earl (11592570), Colin Skousen (11592573), Ashley N. Fetbrandt (11592576), Jordon Ritchie (11592579), Paul M. Bodily (11592582), Steven M. Johnson (17357)

مصطلحات موضوعية: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Cancer, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, reads falling close, nearly identical libraries, eukaryotic gene regulation, downstream data analysis, div >< p, dna regulatory elements, although nucleosomes prefer, different known ends, nucleosomes prefer, linear dna, fragmented dna, dna fragments, dna ends, vivo <, vitro <, typically discarded, terminal ends, skew results, recover nucleosomes, reconstituted nucleosomes, nucleosome patterns, nucleosome occupancy, nucleosome formation

Relation: https://figshare.com/articles/figure/Reads_suspected_recovered_and_tossed_at_11_bp_/16848957

الاتاحة: https://doi.org/10.1371/journal.pone.0258737.s001

المؤلفون: David A. Bates (11592564), Charles E. Bates (11592567), Andrew S. Earl (11592570), Colin Skousen (11592573), Ashley N. Fetbrandt (11592576), Jordon Ritchie (11592579), Paul M. Bodily (11592582), Steven M. Johnson (17357)

مصطلحات موضوعية: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Cancer, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, reads falling close, nearly identical libraries, eukaryotic gene regulation, downstream data analysis, div >< p, dna regulatory elements, although nucleosomes prefer, different known ends, nucleosomes prefer, linear dna, fragmented dna, dna fragments, dna ends, vivo <, vitro <, typically discarded, terminal ends, skew results, recover nucleosomes, reconstituted nucleosomes, nucleosome patterns, nucleosome occupancy, nucleosome formation

Relation: https://figshare.com/articles/figure/Program_parameters_/16848969

الاتاحة: https://doi.org/10.1371/journal.pone.0258737.s003

المؤلفون: David A. Bates (11592564), Charles E. Bates (11592567), Andrew S. Earl (11592570), Colin Skousen (11592573), Ashley N. Fetbrandt (11592576), Jordon Ritchie (11592579), Paul M. Bodily (11592582), Steven M. Johnson (17357)

مصطلحات موضوعية: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Cancer, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, reads falling close, nearly identical libraries, eukaryotic gene regulation, downstream data analysis, div >< p, dna regulatory elements, although nucleosomes prefer, different known ends, nucleosomes prefer, linear dna, fragmented dna, dna fragments, dna ends, vivo <, vitro <, typically discarded, terminal ends, skew results, recover nucleosomes, reconstituted nucleosomes, nucleosome patterns, nucleosome occupancy, nucleosome formation

Relation: https://figshare.com/articles/figure/Ratios_of_invitrosome_starts_around_i_HincII_i_restriction_sites_in_the_genome_/16848984

الاتاحة: https://doi.org/10.1371/journal.pone.0258737.g002

المؤلفون: David A. Bates (11592564), Charles E. Bates (11592567), Andrew S. Earl (11592570), Colin Skousen (11592573), Ashley N. Fetbrandt (11592576), Jordon Ritchie (11592579), Paul M. Bodily (11592582), Steven M. Johnson (17357)

مصطلحات موضوعية: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Cancer, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, reads falling close, nearly identical libraries, eukaryotic gene regulation, downstream data analysis, div >< p, dna regulatory elements, although nucleosomes prefer, different known ends, nucleosomes prefer, linear dna, fragmented dna, dna fragments, dna ends, vivo <, vitro <, typically discarded, terminal ends, skew results, recover nucleosomes, reconstituted nucleosomes, nucleosome patterns, nucleosome occupancy, nucleosome formation

Relation: https://figshare.com/articles/figure/Visual_depiction_of_the_initial_classification_and_re-classification_method_/16848975

الاتاحة: https://doi.org/10.1371/journal.pone.0258737.g001

المؤلفون: David A. Bates (11592564), Charles E. Bates (11592567), Andrew S. Earl (11592570), Colin Skousen (11592573), Ashley N. Fetbrandt (11592576), Jordon Ritchie (11592579), Paul M. Bodily (11592582), Steven M. Johnson (17357)

مصطلحات موضوعية: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Cancer, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, reads falling close, nearly identical libraries, eukaryotic gene regulation, downstream data analysis, div >< p, dna regulatory elements, although nucleosomes prefer, different known ends, nucleosomes prefer, linear dna, fragmented dna, dna fragments, dna ends, vivo <, vitro <, typically discarded, terminal ends, skew results, recover nucleosomes, reconstituted nucleosomes, nucleosome patterns, nucleosome occupancy, nucleosome formation

Relation: https://figshare.com/articles/figure/Ratios_of_invitrosome_starts_around_i_RsaI_i_restriction_sites_in_the_genome_/16848990

الاتاحة: https://doi.org/10.1371/journal.pone.0258737.g003

المؤلفون: David A. Bates (11592564), Charles E. Bates (11592567), Andrew S. Earl (11592570), Colin Skousen (11592573), Ashley N. Fetbrandt (11592576), Jordon Ritchie (11592579), Paul M. Bodily (11592582), Steven M. Johnson (17357)

مصطلحات موضوعية: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Cancer, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, reads falling close, nearly identical libraries, eukaryotic gene regulation, downstream data analysis, div >< p, dna regulatory elements, although nucleosomes prefer, different known ends, nucleosomes prefer, linear dna, fragmented dna, dna fragments, dna ends, vivo <, vitro <, typically discarded, terminal ends, skew results, recover nucleosomes, reconstituted nucleosomes, nucleosome patterns, nucleosome occupancy, nucleosome formation

Relation: https://figshare.com/articles/figure/Expanded_Fig_3_/16849002

الاتاحة: https://doi.org/10.1371/journal.pone.0258737.g005

المؤلفون: David A. Bates (11592564), Charles E. Bates (11592567), Andrew S. Earl (11592570), Colin Skousen (11592573), Ashley N. Fetbrandt (11592576), Jordon Ritchie (11592579), Paul M. Bodily (11592582), Steven M. Johnson (17357)

مصطلحات موضوعية: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Cancer, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, reads falling close, nearly identical libraries, eukaryotic gene regulation, downstream data analysis, div >< p, dna regulatory elements, although nucleosomes prefer, different known ends, nucleosomes prefer, linear dna, fragmented dna, dna fragments, dna ends, vivo <, vitro <, typically discarded, terminal ends, skew results, recover nucleosomes, reconstituted nucleosomes, nucleosome patterns, nucleosome occupancy, nucleosome formation

Relation: https://figshare.com/articles/figure/_i_HincII_i_occupancy_of_positions_/16849011

الاتاحة: https://doi.org/10.1371/journal.pone.0258737.g006

المؤلفون: David A. Bates (11592564), Charles E. Bates (11592567), Andrew S. Earl (11592570), Colin Skousen (11592573), Ashley N. Fetbrandt (11592576), Jordon Ritchie (11592579), Paul M. Bodily (11592582), Steven M. Johnson (17357)

مصطلحات موضوعية: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Cancer, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, reads falling close, nearly identical libraries, eukaryotic gene regulation, downstream data analysis, div >< p, dna regulatory elements, although nucleosomes prefer, different known ends, nucleosomes prefer, linear dna, fragmented dna, dna fragments, dna ends, vivo <, vitro <, typically discarded, terminal ends, skew results, recover nucleosomes, reconstituted nucleosomes, nucleosome patterns, nucleosome occupancy, nucleosome formation

Relation: https://figshare.com/articles/figure/RsaI_occupancy_of_positions_/16849017

الاتاحة: https://doi.org/10.1371/journal.pone.0258737.g007

المؤلفون: David A. Bates (11592564), Charles E. Bates (11592567), Andrew S. Earl (11592570), Colin Skousen (11592573), Ashley N. Fetbrandt (11592576), Jordon Ritchie (11592579), Paul M. Bodily (11592582), Steven M. Johnson (17357)

مصطلحات موضوعية: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Cancer, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, reads falling close, nearly identical libraries, eukaryotic gene regulation, downstream data analysis, div >< p, dna regulatory elements, although nucleosomes prefer, different known ends, nucleosomes prefer, linear dna, fragmented dna, dna fragments, dna ends, vivo <, vitro <, typically discarded, terminal ends, skew results, recover nucleosomes, reconstituted nucleosomes, nucleosome patterns, nucleosome occupancy, nucleosome formation

Relation: https://figshare.com/articles/figure/Expanded_Fig_6_/16849026

الاتاحة: https://doi.org/10.1371/journal.pone.0258737.g008

المؤلفون: David A. Bates (11592564), Charles E. Bates (11592567), Andrew S. Earl (11592570), Colin Skousen (11592573), Ashley N. Fetbrandt (11592576), Jordon Ritchie (11592579), Paul M. Bodily (11592582), Steven M. Johnson (17357)

مصطلحات موضوعية: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Cancer, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, reads falling close, nearly identical libraries, eukaryotic gene regulation, downstream data analysis, div >< p, dna regulatory elements, although nucleosomes prefer, different known ends, nucleosomes prefer, linear dna, fragmented dna, dna fragments, dna ends, vivo <, vitro <, typically discarded, terminal ends, skew results, recover nucleosomes, reconstituted nucleosomes, nucleosome patterns, nucleosome occupancy, nucleosome formation

Relation: https://figshare.com/articles/figure/Expanded_Fig_7_/16849032

الاتاحة: https://doi.org/10.1371/journal.pone.0258737.g009

المؤلفون: David A. Bates (11592564), Charles E. Bates (11592567), Andrew S. Earl (11592570), Colin Skousen (11592573), Ashley N. Fetbrandt (11592576), Jordon Ritchie (11592579), Paul M. Bodily (11592582), Steven M. Johnson (17357)

مصطلحات موضوعية: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Cancer, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, reads falling close, nearly identical libraries, eukaryotic gene regulation, downstream data analysis, div >< p, dna regulatory elements, although nucleosomes prefer, different known ends, nucleosomes prefer, linear dna, fragmented dna, dna fragments, dna ends, vivo <, vitro <, typically discarded, terminal ends, skew results, recover nucleosomes, reconstituted nucleosomes, nucleosome patterns, nucleosome occupancy, nucleosome formation

Relation: https://figshare.com/articles/figure/Reads_suspected_recovered_and_tossed_at_200_bp_/16849038

الاتاحة: https://doi.org/10.1371/journal.pone.0258737.g010

المؤلفون: David A. Bates (11592564), Charles E. Bates (11592567), Andrew S. Earl (11592570), Colin Skousen (11592573), Ashley N. Fetbrandt (11592576), Jordon Ritchie (11592579), Paul M. Bodily (11592582), Steven M. Johnson (17357)

مصطلحات موضوعية: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Cancer, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, reads falling close, nearly identical libraries, eukaryotic gene regulation, downstream data analysis, div >< p, dna regulatory elements, although nucleosomes prefer, different known ends, nucleosomes prefer, linear dna, fragmented dna, dna fragments, dna ends, vivo <, vitro <, typically discarded, terminal ends, skew results, recover nucleosomes, reconstituted nucleosomes, nucleosome patterns, nucleosome occupancy, nucleosome formation

Relation: https://figshare.com/articles/figure/Role_of_sequencing_depth_and_end_bias_/16849047

الاتاحة: https://doi.org/10.1371/journal.pone.0258737.g012

المؤلفون: David A. Bates (11592564), Charles E. Bates (11592567), Andrew S. Earl (11592570), Colin Skousen (11592573), Ashley N. Fetbrandt (11592576), Jordon Ritchie (11592579), Paul M. Bodily (11592582), Steven M. Johnson (17357)

مصطلحات موضوعية: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Cancer, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, reads falling close, nearly identical libraries, eukaryotic gene regulation, downstream data analysis, div >< p, dna regulatory elements, although nucleosomes prefer, different known ends, nucleosomes prefer, linear dna, fragmented dna, dna fragments, dna ends, vivo <, vitro <, typically discarded, terminal ends, skew results, recover nucleosomes, reconstituted nucleosomes, nucleosome patterns, nucleosome occupancy, nucleosome formation

Relation: https://figshare.com/articles/figure/Correlations_within_sub-libraries_/16849041

الاتاحة: https://doi.org/10.1371/journal.pone.0258737.g011

المؤلفون: David A. Bates (11592564), Charles E. Bates (11592567), Andrew S. Earl (11592570), Colin Skousen (11592573), Ashley N. Fetbrandt (11592576), Jordon Ritchie (11592579), Paul M. Bodily (11592582), Steven M. Johnson (17357)

مصطلحات موضوعية: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Cancer, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, reads falling close, nearly identical libraries, eukaryotic gene regulation, downstream data analysis, div >< p, dna regulatory elements, although nucleosomes prefer, different known ends, nucleosomes prefer, linear dna, fragmented dna, dna fragments, dna ends, vivo <, vitro <, typically discarded, terminal ends, skew results, recover nucleosomes, reconstituted nucleosomes, nucleosome patterns, nucleosome occupancy, nucleosome formation

Relation: https://figshare.com/articles/dataset/Reads_before_and_after_recovery_/16849050

الاتاحة: https://doi.org/10.1371/journal.pone.0258737.t001

المؤلفون: David A. Bates (11592564), Charles E. Bates (11592567), Andrew S. Earl (11592570), Colin Skousen (11592573), Ashley N. Fetbrandt (11592576), Jordon Ritchie (11592579), Paul M. Bodily (11592582), Steven M. Johnson (17357)

مصطلحات موضوعية: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Cancer, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, reads falling close, nearly identical libraries, eukaryotic gene regulation, downstream data analysis, div >< p, dna regulatory elements, although nucleosomes prefer, different known ends, nucleosomes prefer, linear dna, fragmented dna, dna fragments, dna ends, vivo <, vitro <, typically discarded, terminal ends, skew results, recover nucleosomes, reconstituted nucleosomes, nucleosome patterns, nucleosome occupancy, nucleosome formation

Relation: https://figshare.com/articles/dataset/Correlations_of_known_ends_to_unknown_end_libraries_/16849056

الاتاحة: https://doi.org/10.1371/journal.pone.0258737.t002

المؤلفون: Zhang, Qi

المصدر: LSU Doctoral Dissertations

مصطلحات موضوعية: Nucleosome patterns, Phosphate starvation, Differential gene expression, MNase-seq, RNA-seq, Rice, Agronomy and Crop Sciences, Bioinformatics, Genetics, Genomics, Plant Breeding and Genetics

وصف الملف: application/pdf

Relation: https://digitalcommons.lsu.edu/gradschool_dissertations/4502; https://digitalcommons.lsu.edu/context/gradschool_dissertations/article/5510/viewcontent/Zhang_diss.pdf

الاتاحة: https://digitalcommons.lsu.edu/gradschool_dissertations/4502
https://doi.org/10.31390/gradschool_dissertations.4502
https://digitalcommons.lsu.edu/context/gradschool_dissertations/article/5510/viewcontent/Zhang_diss.pdf

المؤلفون: Maheshi Dassanayake, Sandra Feuer DiTusa, Niranjan Baisakh, Aaron P. Smith, Dong Ha Oh, Qi Zhang, Mangu Venkata Ramanarao

المصدر: BMC Genomics
BMC Genomics, Vol 19, Iss 1, Pp 1-16 (2018)

مصطلحات موضوعية: 0301 basic medicine, lcsh:QH426-470, lcsh:Biotechnology, Eukaryotic DNA replication, Chromatin remodeling, 03 medical and health sciences, Transcription (biology), Gene Expression Regulation, Plant, Stress, Physiological, lcsh:TP248.13-248.65, Gene expression, Nucleosome patterns, Genetics, Nucleosome, MNase-seq, Gene, Phosphate starvation, Differential gene expression, 2. Zero hunger, biology, Sequence Analysis, RNA, food and beverages, Oryza, Chromatin Assembly and Disassembly, Chromatin, Cell biology, Nucleosomes, lcsh:Genetics, 030104 developmental biology, biology.protein, Rice, RNA-seq, Biotechnology, Micrococcal nuclease, Transcription Factors, Research Article

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::e9d4d943b93bce04a1a68ec4d37c5507
https://pubmed.ncbi.nlm.nih.gov/29373953