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Academic Journal

Uncovering uncharacterized binding of transcription factors from ATAC-seq footprinting data.

Authors : Schultheis H; Bioinformatics Core Unit (BCU), Max Planck Institute for Heart and Lung Research, Bad Nauheim, Germany.; Bentsen M

Subjects: Transcription Factors*/Transcription Factors*/Transcription Factors*/metabolism ; Transcription Factors*/Transcription Factors*/Transcription Factors*/genetics ; Zebrafish*/Zebrafish*/Zebrafish*/genetics

Source: Scientific reports [Sci Rep] 2024 Apr 23; Vol. 14 (1), pp. 9275. Date of Electronic Publication: 2024 Apr 23.Publisher: Nature Publishing Group Country of Publication: England NLM ID: 101563288 Publication Model: Electronic Cited Medium: Internet ISSN:

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Academic Journal

From compartments to loops: understanding the unique chromatin organization in neuronal cells.

Authors : Zagirova D; Center for Molecular and Cellular Biology, Skolkovo Institute of Science and Technology, Bolshoy Boulevard 30, Build.1, Moscow, 121205, Russia.; Research and Training Center on Bioinformatics, Institute for Information Transmission Problems (Kharkevich Institute) RAS, Bolshoy Karetny per. 19, Build.1, Moscow, 127051, Russia.

Subjects: Neurons*/Neurons*/Neurons*/metabolism ; Neurons*/Neurons*/Neurons*/cytology ; Chromatin*/Chromatin*/Chromatin*/metabolism

Source: Epigenetics & chromatin [Epigenetics Chromatin] 2024 May 23; Vol. 17 (1), pp. 18. Date of Electronic Publication: 2024Publisher: BioMed Central Country of Publication: England NLM ID: 101471619 Publication Model: Electronic Cited Medium: Internet ISSN: 1756-8935

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Academic Journal

Genomic transcription factor binding site selection is edited by the chromatin remodeling factor CHD4.

Authors : Saotome M; Department of Biomedical Sciences, University of North Dakota School of Medicine and Health Sciences, Grand Forks, ND 58202, USA.; Poduval DB

Subjects: Chromatin*/Chromatin*/Chromatin*/metabolism ; Mi-2 Nucleosome Remodeling and Deacetylase Complex*/Mi-2 Nucleosome Remodeling and Deacetylase Complex*/Mi-2 Nucleosome Remodeling and Deacetylase Complex*/metabolism ; Mi-2 Nucleosome Remodeling and Deacetylase Complex*/Mi-2 Nucleosome Remodeling and Deacetylase Complex*/Mi-2 Nucleosome Remodeling and Deacetylase Complex*/genetics

Source: Nucleic acids research [Nucleic Acids Res] 2024 Apr 24; Vol. 52 (7), pp. 3607-3622.Publisher: Oxford University Press Country of Publication: England NLM ID: 0411011 Publication Model: Print Cited Medium: Internet ISSN:

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Academic Journal

MMGAT: a graph attention network framework for ATAC-seq motifs finding.

Authors : Wu X; Key Laboratory of Symbol Computation and Knowledge Engineering of Ministry of Education, College of Computer Science and Technology, Jilin University, Changchun, 130012, China.; School of Artificial Intelligence, Jilin University, Changchun, 130012, China.

Subjects: Chromatin Immunoprecipitation Sequencing* ; Genomics*/Genomics*/Genomics*/methods; Humans

Source: BMC bioinformatics [BMC Bioinformatics] 2024 Apr 20; Vol. 25 (1), pp. 158. Date of Electronic Publication: 2024 Apr 20.Publisher: BioMed Central Country of Publication: England NLM ID: 100965194 Publication Model: Electronic Cited Medium: Internet ISSN: 1471-2105

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Academic Journal

A low-input high resolution sequential chromatin immunoprecipitation method captures genome-wide dynamics of bivalent chromatin.

Authors : Seneviratne JA; Peter MacCallum Cancer Centre, Melbourne, Victoria, 3000, Australia.; Sir Peter MacCallum Department of Oncology, The University of Melbourne, Victoria, 3010, Australia.

Subjects: Chromatin*/Chromatin*/Chromatin*/genetics ; Histones*/Histones*/Histones*/genetics; Animals

Source: Epigenetics & chromatin [Epigenetics Chromatin] 2024 Feb 10; Vol. 17 (1), pp. 3. Date of Electronic Publication: 2024 Publisher: BioMed Central Country of Publication: England NLM ID: 101471619 Publication Model: Electronic Cited Medium: Internet ISSN: 1756-8935

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Academic Journal

Comparative study on chromatin loop callers using Hi-C data reveals their effectiveness.

Authors : Chowdhury HMAM; Department of Computer Science, University of Colorado at Colorado Springs, 1420 Austin Bluffs Pkwy, Colorado Springs, CO, 80918, USA.; Boult T

Subjects: Chromatin*/Chromatin*/Chromatin*/genetics ; Chromosomes*; DNA

Source: BMC bioinformatics [BMC Bioinformatics] 2024 Mar 21; Vol. 25 (1), pp. 123. Date of Electronic Publication: 2024 Mar 21.Publisher: BioMed Central Country of Publication: England NLM ID: 100965194 Publication Model: Electronic Cited Medium: Internet ISSN: 1471-2105

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Academic Journal

MMCT-Loop: a mix model-based pipeline for calling targeted 3D chromatin loops.

Authors : Tang L; Hunan Provincial Key Lab on Bioinformatics, School of Computer Science and Engineering, Central South University, Changsha 410083, China.; Liao J

Subjects: Chromatin*/Chromatin*/Chromatin*/chemistry ; Chromatin*/Chromatin*/Chromatin*/genetics ; Genomics*/Genomics*/Genomics*/methods

Source: Nucleic acids research [Nucleic Acids Res] 2024 Mar 21; Vol. 52 (5), pp. e25.Publisher: Oxford University Press Country of Publication: England NLM ID: 0411011 Publication Model: Print Cited Medium: Internet ISSN:

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Academic Journal

Integration analysis of ATAC-seq and RNA-seq provides insight into fatty acid biosynthesis in Schizochytrium limacinum under nitrogen limitation stress.

Authors : Chen D; The Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Products of the State Oceanic Administration, Center of Engineering Technology Research for Microalga Germplasm Improvement of Fujian, Fujian Key Laboratory of Special Marine Bioresource Sustainable Utilization, College of Life Sciences, Fujian Normal University, Fuzhou, China.; Chen J

Subjects: Chromatin Immunoprecipitation Sequencing* ; Stramenopiles*/Stramenopiles*/Stramenopiles*/genetics ; Stramenopiles*/Stramenopiles*/Stramenopiles*/metabolism

Source: BMC genomics [BMC Genomics] 2024 Feb 05; Vol. 25 (1), pp. 141. Date of Electronic Publication: 2024 Feb 05.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium: Internet ISSN: 1471-2164

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Academic Journal

Peak Scores Significantly Depend on the Relationships between Contextual Signals in ChIP-Seq Peaks.

Authors : Vishnevsky OV; Institute of Cytology and Genetics, 630090 Novosibirsk, Russia.; Department of Natural Science, Novosibirsk State University, 630090 Novosibirsk, Russia.

Subjects: Chromatin Immunoprecipitation Sequencing* ; Transcription Factors*/Transcription Factors*/Transcription Factors*/genetics; Chromatin Immunoprecipitation

Source: International journal of molecular sciences [Int J Mol Sci] 2024 Jan 13; Vol. 25 (2). Date of Electronic Publication: 2024 Jan 13.Publisher: MDPI Country of Publication: Switzerland NLM ID: 101092791 Publication Model: Electronic Cited Medium: Internet ISSN: 1422-0067

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Academic Journal

The CHD family chromatin remodeling enzyme, Kismet, promotes both clathrin-mediated and activity-dependent bulk endocytosis.

Authors : Hendricks EL; Department of Biological Sciences, Southern Illinois University Edwardsville, Edwardsville, Illinois, United States of America.; Liebl FLW

Subjects: Clathrin*/Clathrin*/Clathrin*/metabolism ; Chromatin*; Animals

Source: PloS one [PLoS One] 2024 Mar 21; Vol. 19 (3), pp. e0300255. Date of Electronic Publication: 2024 Mar 21 (Print Publication: 2024).Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet

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نتائج البحث

فلترة النتائج

Uncovering uncharacterized binding of transcription factors from ATAC-seq footprinting data.

From compartments to loops: understanding the unique chromatin organization in neuronal cells.

Genomic transcription factor binding site selection is edited by the chromatin remodeling factor CHD4.

MMGAT: a graph attention network framework for ATAC-seq motifs finding.

A low-input high resolution sequential chromatin immunoprecipitation method captures genome-wide dynamics of bivalent chromatin.

Comparative study on chromatin loop callers using Hi-C data reveals their effectiveness.

MMCT-Loop: a mix model-based pipeline for calling targeted 3D chromatin loops.

Integration analysis of ATAC-seq and RNA-seq provides insight into fatty acid biosynthesis in Schizochytrium limacinum under nitrogen limitation stress.

Peak Scores Significantly Depend on the Relationships between Contextual Signals in ChIP-Seq Peaks.

The CHD family chromatin remodeling enzyme, Kismet, promotes both clathrin-mediated and activity-dependent bulk endocytosis.