Results 121 to 130 of about 5,141,166 (402)

Finding regulatory elements and regulatory motifs: a general probabilistic framework [PDF]

BMC Bioinformatics, 2007
Over the last two decades a large number of algorithms has been developed for regulatory motif finding. Here we show how many of these algorithms, especially those that model binding specificities of regulatory factors with position specific weight matrices (WMs), naturally arise within a general Bayesian probabilistic framework. We discuss how WMs are
openaire   +4 more sources

Statistically Significant Strings are Related to Regulatory Elements in the Promoter Regions of Saccharomyces cerevisiae [PDF]

, 2000
Finding out statistically significant words in DNA and protein sequences forms the basis for many genetic studies. By applying the maximal entropy principle, we give one systematic way to study the nonrandom occurrence of words in DNA or protein ...
Bin Wang, Burge, Derisi, Goffeau, Helden, Hertz, Hinnebusch, Honerkamp, Lawrence, Li, Mantegna, Peng, Pevzer, Phillips, Rui Hu, Shannon, Zhang, Zhu   +17 more
core   +2 more sources

Insights into pegRNA design from editing of the cardiomyopathy‐associated phospholamban R14del mutation

FEBS Letters, EarlyView.
This study reveals how prime editing guide RNA (pegRNA) secondary structure and reverse transcriptase template length affect prime editing efficiency in correcting the phospholamban R14del cardiomyopathy‐associated mutation. Insights support the design of structurally optimized enhanced pegRNAs for precise gene therapy.
Bing Yao, Qiangbing Yang, Christian J.B. Snijders Blok, Mark A. Daniels, Pieter A. Doevendans, Raymond Schiffelers, Joost P.G. Sluijter, Zhiyong Lei   +7 more
wiley   +1 more source

Transposable elements as a potent source of diverse cis-regulatory sequences in mammalian genomes

Philosophical Transactions of the Royal Society of London. Biological Sciences, 2020
Eukaryotic gene regulation is mediated by cis-regulatory elements, which are embedded within the vast non-coding genomic space and recognized by the transcription factors in a sequence- and context-dependent manner.
Vasavi Sundaram, J. Wysocka
semanticscholar   +1 more source

Transcriptionally active HERV-H retrotransposons demarcate topologically associating domains in human pluripotent stem cells. [PDF]

, 2019
Chromatin architecture has been implicated in cell type-specific gene regulatory programs, yet how chromatin remodels during development remains to be fully elucidated.
Amaral, Maria Luisa, Chee, Sora, Chi, Neil C, Destici, Eugin, Evans, Sylvia M, Fang, Rongxin, Farah, Elie N, Grinstein, Jonathan D, Hu, Rong, Huang, Hui, Izpisua Belmonte, Juan Carlos, Lee, Ah Young, Li, Ting, Ma, Kaiyue, Preissl, Sebastian, Qiu, Yunjiang, Ren, Bing, Wu, Jun, Ye, Zhen, Yu, Leqian, Zhang, Yanxiao, Zhu, Quan   +21 more
core   +2 more sources

Single‐cell insights into the role of T cells in B‐cell malignancies

FEBS Letters, EarlyView.
Single‐cell technologies have transformed our understanding of T cell–tumor cell interactions in B‐cell malignancies, revealing new T‐cell subsets, functional states, and immune evasion mechanisms. This Review synthesizes these findings, highlighting the roles of T cells in pathogenesis, progression, and therapy response, and underscoring their ...
Laura Llaó‐Cid
wiley   +1 more source

Analysis of CcDREB1D promoter region from drought-tolerant and susceptible clones of Coffea canephora by homologous genetic transformation of Coffea arabica [PDF]

, 2014
In several plant species, the DREB genes play a key role in responses to abiotic stress. Since the development of molecular markers is one of the major goals for accelerating breeding programs, a study was done to evaluate the sequence variability of the
Alves, Gabriel Sergio Costa, Andrade, Alan Carvalho, Dechamp, Eveline, Etienne, Hervé, Freire, Luciana Pereira, Marraccini, Pierre, Paiva, L.V., This, Dominique   +7 more
core   +1 more source

Gene Regulatory Elements, Major Drivers of Human Disease.

Annual review of genomics and human genetics (Print), 2017
Gene expression changes, the driving forces for cellular diversity in multicellular organisms, are regulated by a diverse set of gene regulatory elements that direct transcription in specific cells.
S. Chatterjee, N. Ahituv
semanticscholar   +1 more source

Intron‐oriented HTLV‐1 integration in an adult T‐cell leukemia/lymphoma cell line sustains expression of intact ift81 mRNA

FEBS Letters, EarlyView.
In the adult T‐cell leukemia/lymphoma (ATL) cell line ED, the human T‐cell leukemia virus type 1 (HTLV‐1) provirus was integrated into the intron of the ift81 gene in the antisense orientation. Despite this integration, both the intact ift81 and the viral oncogene hbz were simultaneously expressed, likely due to the functional insufficiency of viral ...
Mayuko Yagi, Yuka Hirosawa, Yusaku Sagisaka, Minami Hama, Satoshi Takeda, Jun A. Komano   +5 more
wiley   +1 more source

Optimizing a Human Papillomavirus Type 16 L1-Based Chimaeric Gene for Expression in Plants

Frontiers in Bioengineering and Biotechnology, 2018
Human papillomaviruses (HPVs) are the causative agents of cervical cancer, the fourth most prevalent cancer in women worldwide. The major capsid protein L1 self-assembles into virus-like particles (VLPs), even in the absence of the minor L2 protein: such
Inga I. Hitzeroth, Aleyo Chabeda, Mark P. Whitehead, Marcus Graf, Edward P. Rybicki, Edward P. Rybicki   +5 more
doaj   +1 more source