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6355 result(s) for 'general transcription factors vs specific' within BMC Genomics

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  1. The fall webworm Hyphantria cunea is an invasive and polyphagous defoliator pest that feeds on nearly any type of deciduous tree worldwide. The silk web of H. cunea aids its aggregating behavior, provides thermal...

    Authors: Qi Chen, Hanbo Zhao, Ming Wen, Jiaxin Li, Haifeng Zhou, Jiatong Wang, Yuxin Zhou, Yulin Liu, Lixin Du, Hui Kang, Jian Zhang, Rui Cao, Xiaoming Xu, Jing-Jiang Zhou, Bingzhong Ren and Yinliang Wang
    Citation: BMC Genomics 2020 21:242
    Content type: Research article Published on:

  2. Loaches of Cobitinae, widely distributed in Eurasian continent, have high economic, ornamental and scientific value. However, the phylogeny of Cobitinae fishes within genera or family level remains complex and...

    Authors: Peng Yu, Li Zhou, Wen-Tao Yang, Li-jun Miao, Zhi Li, Xiao-Juan Zhang, Yang Wang and Jian-Fang Gui
    Citation: BMC Genomics 2021 22:50
    Content type: Research article Published on:

  3. Rice germplasm collections continue to grow in number and size around the world. Since maintaining and screening such massive resources remains challenging, it is important to establish practical methods to ma...

    Authors: Tae-Sung Kim, Qiang He, Kyu-Won Kim, Min-Young Yoon, Won-Hee Ra, Feng Peng Li, Wei Tong, Jie Yu, Win Htet Oo, Buung Choi, Eun-Beom Heo, Byoung-Kook Yun, Soon-Jae Kwon, Soon-Wook Kwon, Yoo-Hyun Cho, Chang-Yong Lee…
    Citation: BMC Genomics 2016 17:408
    Content type: Research article Published on:

  4. Freshwaters are exposed to multiple anthropogenic stressors, leading to habitat degradation and biodiversity decline. In particular, agricultural stressors are known to result in decreased abundances and commu...

    Authors: Marie V. Brasseur, Arne J. Beermann, Vasco Elbrecht, Daniel Grabner, Bianca Peinert-Voss, Romana Salis, Martina Weiss, Christoph Mayer and Florian Leese
    Citation: BMC Genomics 2022 23:816
    Content type: Research Published on:

  5. Complex diseases are characterized by multiple subtle perturbations to biological processes. New omics platforms can detect these perturbations, but translating the diverse molecular and statistical informatio...

    Authors: Le Shu, Yuqi Zhao, Zeyneb Kurt, Sean Geoffrey Byars, Taru Tukiainen, Johannes Kettunen, Luz D. Orozco, Matteo Pellegrini, Aldons J. Lusis, Samuli Ripatti, Bin Zhang, Michael Inouye, Ville-Petteri Mäkinen and Xia Yang
    Citation: BMC Genomics 2016 17:874
    Content type: Methodology article Published on:

  6. Dendrobium catenatum/D. officinale (here after D. catenatum), a well-known economically important traditional medicinal herb, produces a variety of bioactive metabolites including polysaccharides, alkaloids, and ...

    Authors: Zhicai Wang, Meili Zhao, Xiaojie Zhang, Xuming Deng, Jian Li and Meina Wang
    Citation: BMC Genomics 2022 23:612
    Content type: Research Published on:

  7. 5-Azacytidine (5-azaC) promotes the development of ‘Kyoho’ grape berry but the associated changes in gene expression have not been reported. In this study, we performed transcriptome analysis of grape berry at...

    Authors: Da-Long Guo, Qiong Li, Xiao-Ru Ji, Zhen-Guang Wang and Yi-He Yu
    Citation: BMC Genomics 2019 20:825
    Content type: Research article Published on:

  8. Chromatin immunoprecipitation-sequencing (ChIP-seq) is a widely used epigenetic approach for investigating genome-wide protein-DNA interactions in cells and tissues. The approach has been relatively well estab...

    Authors: Jian Zhong, Zhenqing Ye, Samuel W. Lenz, Chad R. Clark, Adil Bharucha, Gianrico Farrugia, Keith D. Robertson, Zhiguo Zhang, Tamas Ordog and Jeong-Heon Lee
    Citation: BMC Genomics 2017 18:985
    Content type: Methodology Published on:

  9. Rhodotorula glutinis is recognized as a biotechnologically important oleaginous red yeast, which synthesizes numerous meritorious compounds with wide industrial usages. One of the most notable properties of R. gl...

    Authors: Chun-Ji Li, Die Zhao, Ping Cheng, Li Zheng and Guo-Hui Yu
    Citation: BMC Genomics 2020 21:834
    Content type: Research article Published on:

  11. The process of crop domestication often consists of two stages: initial domestication, where the wild species is first cultivated by humans, followed by diversification, when the domesticated species are subse...

    Authors: Elizabeth A. Cooper, Zachary W. Brenton, Barry S. Flinn, Jerry Jenkins, Shengqiang Shu, Dave Flowers, Feng Luo, Yunsheng Wang, Penny Xia, Kerrie Barry, Chris Daum, Anna Lipzen, Yuko Yoshinaga, Jeremy Schmutz, Christopher Saski, Wilfred Vermerris…
    Citation: BMC Genomics 2019 20:420
    Content type: Research article Published on:

  12. The noble scallop Chlamys nobilis Reeve displays polymorphism in shell and muscle colors. Previous research showed that the orange scallops with orange shell and muscle had a significantly higher carotenoid conte...

    Authors: Helu Liu, Huaiping Zheng, Hongkuan Zhang, Longhui Deng, Wenhua Liu, Shuqi Wang, Fang Meng, Yajun Wang, Zhicheng Guo, Shengkang Li and Guofan Zhang
    Citation: BMC Genomics 2015 16:44
    Content type: Research article Published on:

  13. Voice disorders are a worldwide problem impacting human health, particularly for occupational voice users. Avoidance of surface dehydration is commonly prescribed as a protective factor against the development...

    Authors: Taylor W. Bailey, Andrea Pires dos Santos, Naila Cannes do Nascimento, Shaojun Xie, Jyothi Thimmapuram, M. Preeti Sivasankar and Abigail Cox
    Citation: BMC Genomics 2020 21:888
    Content type: Research article Published on:

  14. Although numerous investigations have compared gene expression microarray platforms, preprocessing methods and batch correction algorithms using constructed spike-in or dilution datasets, there remains a pauci...

    Authors: Arianne C Richard, Paul A Lyons, James E Peters, Daniele Biasci, Shaun M Flint, James C Lee, Eoin F McKinney, Richard M Siegel and Kenneth GC Smith
    Citation: BMC Genomics 2014 15:649
    Content type: Research article Published on:

  15. The gut of phloem feeding insects is critical for nutrition uptake and xenobiotics degradation. However, partly due to its tiny size, genomic information for the gut of phloem feeding insects is limited.

    Authors: Xiao-Dong Ye, Yun-Lin Su, Qiong-Yi Zhao, Wen-Qiang Xia, Shu-Sheng Liu and Xiao-Wei Wang
    Citation: BMC Genomics 2014 15:370
    Content type: Research article Published on:

  17. Mycobacterium tuberculosis infection in humans is often associated with extended period of latency. To adapt to the hostile hypoxic environment inside a macrophage, M. tuberculosis cells undergo several physiolog...

    Authors: Tungadri Bose, Chandrani Das, Anirban Dutta, Vishnuvardhan Mahamkali, Sudipta Sadhu and Sharmila S. Mande
    Citation: BMC Genomics 2018 19:555
    Content type: Research article Published on:

  18. Members of the plant MAP Kinases superfamily have been mostly studied in Arabidopsis thaliana and little is known in most other species. In Solanum chacoense, a wild species close to the common potato, it had bee...

    Authors: Caroline Daigle and Daniel P. Matton
    Citation: BMC Genomics 2015 16:1037
    Content type: Research article Published on:

  19. micro RNA (miRNA) are important regulators of gene expression and may influence phenotypes and disease traits. The connection between genetics and miRNA expression can be determined through expression quantita...

    Authors: Gordon Kordas, Pratyaydipta Rudra, Audrey Hendricks, Laura Saba and Katerina Kechris
    Citation: BMC Genomics 2019 20:849
    Content type: Research article Published on:

  20. The dense phytoplankton blooms that characterize productive regions and seasons in the oceans are dominated, from high to low latitudes and from coast line to open ocean, by comparatively few, often cosmopolit...

    Authors: Chiara Lauritano, Ida Orefice, Gabriele Procaccini, Giovanna Romano and Adrianna Ianora
    Citation: BMC Genomics 2015 16:411
    Content type: Research article Published on:

  22. Fatty acid composition contributes greatly to the quality and nutritional value of meat. However, the molecular regulatory mechanisms underlying fatty acid accumulation in poultry have not yet been cleared. Th...

    Authors: Wenlei Fan, Wenjing Liu, Hehe Liu, Qingshi Meng, Yaxi Xu, Yuming Guo, Baowei Wang, Zhengkui Zhou and Shuisheng Hou
    Citation: BMC Genomics 2020 21:58
    Content type: Research article Published on:

  23. The bacterial genus Listeria contains pathogenic and non-pathogenic species, including the pathogens L. monocytogenes and L. ivanovii, both of which carry homologous virulence gene clusters such as the prfA clust...

    Authors: Henk C den Bakker, Craig A Cummings, Vania Ferreira, Paolo Vatta, Renato H Orsi, Lovorka Degoricija, Melissa Barker, Olga Petrauskene, Manohar R Furtado and Martin Wiedmann
    Citation: BMC Genomics 2010 11:688
    Content type: Research article Published on:

  24. Borrelia bavariensis is one of the agents of Lyme Borreliosis (or Lyme disease) in Eurasia. The genome of the Borrelia burgdorferi sensu lato species complex, that includes B. bavariensis, is known to be very com...

    Authors: Noémie S. Becker, Robert E. Rollins, Kateryna Nosenko, Alexander Paulus, Samantha Martin, Stefan Krebs, Ai Takano, Kozue Sato, Sergey Y. Kovalev, Hiroki Kawabata, Volker Fingerle and Gabriele Margos
    Citation: BMC Genomics 2020 21:702
    Content type: Research article Published on:

  25. Various bacteria can use non-ribosomal peptide synthesis (NRPS) to produce peptides or other small molecules. Conserved features within the NRPS machinery allow the type, and sometimes even the structure, of t...

    Authors: Monique Royer, Ralf Koebnik, Mélanie Marguerettaz, Valérie Barbe, Guillaume P Robin, Chrystelle Brin, Sébastien Carrere, Camila Gomez, Manuela Hügelland, Ginka H Völler, Julie Noëll, Isabelle Pieretti, Saskia Rausch, Valérie Verdier, Stéphane Poussier, Philippe Rott…
    Citation: BMC Genomics 2013 14:658
    Content type: Research article Published on:

  26. Several miRNAs are known to control myogenesis in vertebrates. Some of them are specifically expressed in muscle while others have a broader tissue expression but are still involved in establishing the muscle ...

    Authors: Catarina Campos, Arvind YM Sundaram, Luisa MP Valente, Luis EC Conceição, Sofia Engrola and Jorge MO Fernandes
    Citation: BMC Genomics 2014 15:525
    Content type: Research article Published on:

  27. Chick pinealocytes exhibit all the characteristics of a complete circadian system, comprising photoreceptive inputs, molecular clockworks and an easily measured rhythmic output, melatonin biosynthesis. These p...

    Authors: Stephen P Karaganis, Vinod Kumar, Phillip D Beremand, Michael J Bailey, Terry L Thomas and Vincent M Cassone
    Citation: BMC Genomics 2008 9:206
    Content type: Research article Published on:

  28. The evaluation of alternative splicing, including differential isoform expression and differential exon usage, can provide some insights on the transcriptional changes that occur in response to environmental p...

    Authors: Lihe Liu, Rocío Amorín, Philipe Moriel, Nicolás DiLorenzo, Phillip A. Lancaster and Francisco Peñagaricano
    Citation: BMC Genomics 2021 22:780
    Content type: Research Published on:

  29. Bamboo is an important member of the family Poaceae and has many inflorescence and flowering features rarely observed in other plant groups. It retains an unusual form of perennialism by having a long vegetati...

    Authors: Smritikana Dutta, Prasun Biswas, Sukanya Chakraborty, Devrani Mitra, Amita Pal and Malay Das
    Citation: BMC Genomics 2018 19:190
    Content type: Research article Published on:

  30. Seagull as a migratory wild bird has become most popular species in southwest China since 1980s. Previously, we analyzed the gut microbiota and intestinal pathogenic bacteria configuration for this species by ...

    Authors: Feng Liao, Jing Qian, Ruian Yang, Wenpeng Gu, Rufang Li, Tingting Yang, Xiaoqing Fu, Bing Yuan and Yunhui Zhang
    Citation: BMC Genomics 2023 24:269
    Content type: Research Published on:

  31. Increasing use of zebrafish in drug discovery and mechanistic toxicology demands knowledge of cytochrome P450 (CYP) gene regulation and function. CYP enzymes catalyze oxidative transformation leading to activa...

    Authors: Jared V Goldstone, Andrew G McArthur, Akira Kubota, Juliano Zanette, Thiago Parente, Maria E Jönsson, David R Nelson and John J Stegeman
    Citation: BMC Genomics 2010 11:643
    Content type: Research article Published on:

  32. Allopolyploids contain genomes composed of more than two complete sets of chromosomes that originate from at least two species. Allopolyploidy has been suggested as an important evolutionary mechanism that can...

    Authors: Keisha D. Carlson, Noe Fernandez-Pozo, Aureliano Bombarely, Rahul Pisupati, Lukas A. Mueller and Andreas Madlung
    Citation: BMC Genomics 2017 18:653
    Content type: Research article Published on:

  33. Some mobile genetic elements target the lagging strand template during DNA replication. Bacterial examples are insertion sequences IS608 and ISDra2 (IS200/IS605 family members). They use obligatory single-strande...

    Authors: Yves Quentin, Patricia Siguier, Mick Chandler and Gwennaele Fichant
    Citation: BMC Genomics 2018 19:475
    Content type: Research article Published on:

  34. Comparative genomics approaches have facilitated the discovery of many novel non-coding and structured RNAs (ncRNAs). The increasing availability of related genomes now makes it possible to systematically sear...

    Authors: Rebecca Kirsch, Stefan E. Seemann, Walter L. Ruzzo, Stephen M. Cohen, Peter F. Stadler and Jan Gorodkin
    Citation: BMC Genomics 2018 19:899
    Content type: Research article Published on:

  35. The complex balance between environmental and host factors is an important determinant of susceptibility to infection. Disturbances of this equilibrium may result in multifactorial diseases as illustrated by t...

    Authors: Rafael Diego Rosa, Julien de Lorgeril, Patrick Tailliez, Roman Bruno, David Piquemal and Evelyne Bachère
    Citation: BMC Genomics 2012 13:252
    Content type: Research article Published on:

  36. Understanding how plants and pathogens modulate gene expression during the host-pathogen interaction is key to uncovering the molecular mechanisms that regulate disease progression. Recent advances in sequenci...

    Authors: Albor Dobon, Daniel C. E. Bunting, Luis Enrique Cabrera-Quio, Cristobal Uauy and Diane G. O. Saunders
    Citation: BMC Genomics 2016 17:380
    Content type: Research article Published on:

  38. Several recent studies have demonstrated the use of Roche 454 sequencing technology for de novo transcriptome analysis. Low error rates and high coverage also allow for effective SNP discovery and genetic diversi...

    Authors: Shawn T O'Neil, Jason DK Dzurisin, Rory D Carmichael, Neil F Lobo, Scott J Emrich and Jessica J Hellmann
    Citation: BMC Genomics 2010 11:310
    Content type: Research article Published on:

  39. Single-cell RNA-sequencing (scRNA-seq) is fast becoming a powerful tool for profiling genome-scale transcriptomes of individual cells and capturing transcriptome-wide cell-to-cell variability. However, scRNA-s...

    Authors: Wenbin Ye, Guoli Ji, Pengchao Ye, Yuqi Long, Xuesong Xiao, Shuchao Li, Yaru Su and Xiaohui Wu
    Citation: BMC Genomics 2019 20:347
    Content type: Methodology article Published on:

  40. In livestock, residual variance has been studied because of the interest to improve uniformity of production. Several studies have provided evidence that residual variance is partially under genetic control; h...

    Authors: Laiza Helena de Souza Iung, Herman Arend Mulder, Haroldo Henrique de Rezende Neves and Roberto Carvalheiro
    Citation: BMC Genomics 2018 19:619
    Content type: Research article Published on:

  41. Colletotrichum siamense is a hemibiotrophic ascomycetous fungus responsible for mango anthracnose. The key genes involved in C. siamense infection remained largely unknown. In this study, we conducted weighted ge...

    Authors: Zongling Liu, Zhengjie Zhu, Yuanhe Huang, Song Nong, Minli Jiang, Sangui Yi, Delong Xie and Hongliu Hu
    Citation: BMC Genomics 2023 24:710
    Content type: Research Published on:

  42. MicroRNAs (miRNAs) have been implicated in the regulation of milk protein synthesis and development of the mammary gland (MG). However, the specific functions of miRNAs in these regulations are not clear. Ther...

    Authors: Zhen Li, Hongyun Liu, Xiaolu Jin, Lijan Lo and Jianxin Liu
    Citation: BMC Genomics 2012 13:731
    Content type: Research article Published on:

  43. MicroRNAs (miRNAs) are 19-25 nucleotides non-coding RNAs known to have important post-transcriptional regulatory functions. The computational target prediction algorithm is vital to effective experimental test...

    Authors: Dong Yue, Maozu Guo, Yidong Chen and Yufei Huang
    Citation: BMC Genomics 2012 13(Suppl 8):S13
    Content type: Research Published on:

    This article is part of a Supplement: Volume 13 Supplement 8

  44. Lysobacter species are Gram-negative bacteria widely distributed in soil, plant and freshwater habitats. Lysobacter owes its name to the lytic effects on other microorganisms. To bette...

    Authors: Irene de Bruijn, Xu Cheng, Victor de Jager, Ruth Gómez Expósito, Jeramie Watrous, Nrupali Patel, Joeke Postma, Pieter C. Dorrestein, Donald Kobayashi and Jos M. Raaijmakers
    Citation: BMC Genomics 2015 16:991
    Content type: Research article Published on:

  45. While transcriptomics have become a valuable tool for linking physiology and ecology in aquatic microbes, the temporal dynamics of global transcriptomic patterns in Microcystis have rarely been assessed. Furtherm...

    Authors: Matthew J. Harke and Christopher J. Gobler
    Citation: BMC Genomics 2015 16:1068
    Content type: Research article Published on:

  46. Diapause or developmental arrest, is one of the major adaptations that allows mites and insects to survive unfavorable conditions. Diapause evokes a number of physiological, morphological and molecular modific...

    Authors: Astrid Bryon, Nicky Wybouw, Wannes Dermauw, Luc Tirry and Thomas Van Leeuwen
    Citation: BMC Genomics 2013 14:815
    Content type: Research article Published on:

  47. Brain diseases pose a significant threat to human health, and various network-based methods have been proposed for identifying gene biomarkers associated with these diseases. However, the brain is a complex sy...

    Authors: Ping Zhang, Weihan Zhang, Weicheng Sun, Jinsheng Xu, Hua Hu, Lei Wang and Leon Wong
    Citation: BMC Genomics 2024 25:175
    Content type: Research Published on:

  48. The G protein-coupled receptor (GPCR) signaling pathway plays an essential role in signal transmission and response to external stimuli in mammalian cells. Protein components of this pathway have been characte...

    Authors: Jesse A Port, Micaela S Parker, Robin B Kodner, James C Wallace, E Virginia Armbrust and Elaine M Faustman
    Citation: BMC Genomics 2013 14:503
    Content type: Research article Published on:

  49. Heat shock proteins (HSPs) function as molecular chaperones with critical roles in chicken embryogenesis, immune response to infectious diseases, and response to various environmental...

    Authors: Anh Duc Truong, Ha Thi Thanh Tran, Nhu Thi Chu, Huyen Thi Nguyen, Lanh Phan, Hoai Thi Phan, Thi Hao Vu, Ki-Duk Song, Hyun S. Lillehoj, Yeong Ho Hong and Hoang Vu Dang
    Citation: BMC Genomics 2023 24:793
    Content type: Research Published on:

  50. The complete genome sequences for human and the nematode Caenorhabditis elegans offer an opportunity to learn more about human gene function through functional characterization of orthologs in the worm. Based on ...

    Authors: Anna Henricson, Erik LL Sonnhammer, David L Baillie and Ana Vaz Gomes
    Citation: BMC Genomics 2004 5:85
    Content type: Research article Published on:

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