Correlation of expression profiles between microRNAs and mRNA targets using NCI-60 data.

abstract：BACKGROUND:Insertion sequences (IS) are small transposable elements, commonly found in bacterial genomes. Identifying the location of IS in bacterial genomes can be useful for a variety of purposes including epidemiological tracking and predicting antibiotic resistance. However IS are commonly present in multiple copie...

journal_title：BMC genomics

authors： Hawkey J,Hamidian M,Wick RR,Edwards DJ,Billman-Jacobe H,Hall RM,Holt KE

更新日期：2015-09-03 00:00:00

abstract：BACKGROUND:Finger millet (Eleusine coracana (L.) Gaertn.) is an important staple food crop widely grown in Africa and South Asia. Among the millets, finger millet has high amount of calcium, methionine, tryptophan, fiber, and sulphur containing amino acids. In addition, it has C4 photosynthetic carbon assimilation mech...

journal_title：BMC genomics

authors： Hittalmani S,Mahesh HB,Shirke MD,Biradar H,Uday G,Aruna YR,Lohithaswa HC,Mohanrao A

更新日期：2017-06-15 00:00:00

abstract：BACKGROUND:Co-expressing genes tend to cluster in eukaryotic genomes. This paper analyzes correlation between the proximity of eukaryotic genes and their transcriptional expression pattern in the zebrafish (Danio rerio) genome using available microarray data and gene annotation. RESULTS:The analyses show that neighbou...

journal_title：BMC genomics

authors： Ng YK,Wu W,Zhang L

更新日期：2009-01-22 00:00:00

abstract：BACKGROUND:Fluctuations in external salinity force eukaryotic cells to respond by changes in the gene expression of proteins acting in protective biochemical processes, thus counteracting the changing osmotic pressure. The high-osmolarity glycerol (HOG) signaling pathway is essential for the efficient up-regulation of ...

journal_title：BMC genomics

authors： Vaupotic T,Plemenitas A

更新日期：2007-08-16 00:00:00

abstract：BACKGROUND:The problem of supervised DNA sequence classification arises in several fields of computational molecular biology. Although this problem has been extensively studied, it is still computationally challenging due to size of the datasets that modern sequencing technologies can produce. RESULTS:We introduce CLA...

journal_title：BMC genomics

authors： Ounit R,Wanamaker S,Close TJ,Lonardi S

更新日期：2015-03-25 00:00:00

abstract：BACKGROUND:High Density Oligonucleotide arrays (HDONAs), such as the Affymetrix HG-U133A GeneChip, use sets of probes chosen to match specified genes, with the expectation that if a particular gene is highly expressed then all the probes in that gene's probe set will provide a consistent message signifying the gene's p...

journal_title：BMC genomics

authors： Upton GJ,Langdon WB,Harrison AP

更新日期：2008-12-18 00:00:00

abstract：BACKGROUND:Malaria is the most important parasitic disease in the world with approximately two million people dying every year, mostly due to Plasmodium falciparum infection. During its complex life cycle in the Anopheles vector and human host, the parasite requires the coordinated and modulated expression of diverse s...

journal_title：BMC genomics

authors： Bischoff E,Vaquero C

更新日期：2010-01-15 00:00:00

abstract：BACKGROUND:Nontuberculous mycobacterium (NTM) species are ubiquitous microorganisms. NTM pulmonary disease (NTM-PD) is thought to be caused not by human-to-human transmission but by independent environmental acquisition. However, recent studies using next-generation sequencing (NGS) have reported trans-continental spre...

journal_title：BMC genomics

authors： Yoon JK,Kim TS,Kim JI,Yim JJ

更新日期：2020-04-23 00:00:00

abstract：BACKGROUND:Controlling gene expression is fundamental to biological complexity. The nematode Caenorhabditis elegans is an important model for studying principles of gene regulation in multi-cellular organisms. A comprehensive parts list of putative regulatory motifs was yet missing for this model system. In this study,...

journal_title：BMC genomics

authors： Dieterich C,Sommer RJ

更新日期：2008-01-23 00:00:00

abstract：BACKGROUND:Large mammals are capable of thermoregulation shortly after birth due to the presence of brown adipose tissue (BAT). The majority of BAT disappears after birth and is replaced by white adipose tissue (WAT). RESULTS:We analyzed the postnatal transformation of adipose in sheep with a time course study of the ...

journal_title：BMC genomics

authors： Basse AL,Dixen K,Yadav R,Tygesen MP,Qvortrup K,Kristiansen K,Quistorff B,Gupta R,Wang J,Hansen JB

更新日期：2015-03-19 00:00:00

abstract：BACKGROUND:Non-coding RNAs (ncRNAs), which perform diverse regulatory roles, have been found in organisms from all superkingdoms of life. However, there have been limited numbers of studies on the functions of ncRNAs, especially in nonmodel organisms such as Kluyveromyces marxianus that is widely used in the field of i...

journal_title：BMC genomics

authors： Cho YB,Lee EJ,Cho S,Kim TY,Park JH,Cho BK

更新日期：2016-02-29 00:00:00

abstract：BACKGROUND:Mycobacterium abscessus complex, the third most frequent mycobacterial complex responsible for community- and health care-associated infections in developed countries, comprises of M. abscessus subsp. abscessus and M. abscessus subsp. bolletii reviously referred as Mycobacterium bolletii and Mycobacterium ma...

journal_title：BMC genomics

authors： Sassi M,Drancourt M

更新日期：2014-05-12 00:00:00

abstract：BACKGROUND:An organism can respond to changing environmental conditions by adjusting gene regulation and by forming alternative phenotypes. In nematodes, these mechanisms are coupled because many species will form dauer larvae, a stress-resistant and non-aging developmental stage, when exposed to unfavorable environmen...

journal_title：BMC genomics

authors： Sinha A,Sommer RJ,Dieterich C

更新日期：2012-06-19 00:00:00

abstract：BACKGROUND:The Iberian lynx (Lynx pardinus) has been acknowledged as the most endangered felid species in the world. An intense contraction and fragmentation during the twentieth century left less than 100 individuals split in two isolated and genetically eroded populations by 2002. Genetic monitoring and management so...

journal_title：BMC genomics

authors： Kleinman-Ruiz D,Martínez-Cruz B,Soriano L,Lucena-Perez M,Cruz F,Villanueva B,Fernández J,Godoy JA

更新日期：2017-07-21 00:00:00

abstract：BACKGROUND:Leaf blight caused by Calonectria spp. is one of the most destructive diseases to affect Eucalyptus nurseries and plantations. These pathogens mainly attack Eucalyptus, a tree with a diversity of secondary metabolites employed as defense-related phytoalexins. To unravel the fungal adaptive mechanisms to vari...

journal_title：BMC genomics

authors： Ye X,Zhong Z,Liu H,Lin L,Guo M,Guo W,Wang Z,Zhang Q,Feng L,Lu G,Zhang F,Chen Q

更新日期：2018-05-10 00:00:00

abstract：BACKGROUND:It is believed that the main factors of low prenatal growth in mammals are genetic and environmental. We used isogenic mice maintained in standard conditions to analyze how natural non-genetic microsomia (low birth weight) is produced in inbred mice and its long term effect on health. To better understand th...

journal_title：BMC genomics

authors： Miranda A,López-Cardona AP,Laguna-Barraza R,Calle A,López-Vidriero I,Pintado B,Gutiérrez-Adán A

更新日期：2014-05-01 00:00:00

abstract：BACKGROUND:Distinguishing orthologous and paralogous relationships between genes across multiple species is essential for comparative genomic analyses. Various computational approaches have been developed to resolve these evolutionary relationships, but strong trade-offs between precision and recall of orthologue predi...

journal_title：BMC genomics

authors： Rane RV,Oakeshott JG,Nguyen T,Hoffmann AA,Lee SF

更新日期：2017-08-31 00:00:00

abstract：BACKGROUND:Oxidative stress caused by ground level ozone is a contributor to yield loss in a number of important crop plants. Soybean (Glycine max) is considered to be ozone sensitive, and current research into its response to oxidative stress is limited. To better understand the genetic response in soybean to oxidativ...

journal_title：BMC genomics

authors： Whaley A,Sheridan J,Safari S,Burton A,Burkey K,Schlueter J

更新日期：2015-06-04 00:00:00

abstract：BACKGROUND:Matrix attachment regions (MAR) are the sites on genomic DNA that interact with the nuclear matrix. There is increasing evidence for the involvement of MAR in regulation of gene expression. The unsuitability of experimental detection of MAR for genome-wide analyses has led to the development of computational...

journal_title：BMC genomics

authors： Anthony A,Blaxter M

更新日期：2007-11-15 00:00:00

abstract：BACKGROUND:DNA methylation is a key modulator of gene expression in mammalian development and cellular differentiation, including neurons. To date, the role of DNA modifications in long-term potentiation (LTP) has not been explored. RESULTS:To investigate the occurrence of DNA methylation changes in LTP, we undertook ...

journal_title：BMC genomics

authors： Maag JL,Kaczorowski DC,Panja D,Peters TJ,Bramham CR,Wibrand K,Dinger ME

更新日期：2017-03-23 00:00:00

abstract：BACKGROUND:The increasing use of DNA microarrays for genetical genomics studies generates a need for platforms with complete coverage of the genome. We have compared the effective gene coverage in the mouse genome of different commercial and noncommercial oligonucleotide microarray platforms by performing an in-house g...

journal_title：BMC genomics

authors： Verdugo RA,Medrano JF

更新日期：2006-03-21 00:00:00

abstract：BACKGROUND:Dimethylsulfoniopropionate (DMSP) is a small sulphur compound which is produced in prodigious amounts in the oceans and plays a pivotal role in the marine sulfur cycle. Until recently, DMSP was believed to be synthesized exclusively by photosynthetic organisms; however we now know that corals and specific ba...

journal_title：BMC genomics

authors： Aguilar C,Raina JB,Motti CA,Fôret S,Hayward DC,Lapeyre B,Bourne DG,Miller DJ

更新日期：2017-08-14 00:00:00

abstract：BACKGROUND:Precise identification of three-dimensional genome organization, especially enhancer-promoter interactions (EPIs), is important to deciphering gene regulation, cell differentiation and disease mechanisms. Currently, it is a challenging task to distinguish true interactions from other nearby non-interacting o...

journal_title：BMC genomics

authors： Zeng W,Wu M,Jiang R

更新日期：2018-05-09 00:00:00

abstract：BACKGROUND:For centuries roses have been selected based on a number of traits. Little information exists on the genetic and molecular basis that contributes to these traits, mainly because information on expressed genes for this economically important ornamental plant is scarce. RESULTS:Here, we used a combination of ...

journal_title：BMC genomics

authors： Dubois A,Carrere S,Raymond O,Pouvreau B,Cottret L,Roccia A,Onesto JP,Sakr S,Atanassova R,Baudino S,Foucher F,Le Bris M,Gouzy J,Bendahmane M

更新日期：2012-11-20 00:00:00

abstract：BACKGROUND:Advances in human genomics have allowed unprecedented productivity in terms of algorithms, software, and literature available for translating raw next-generation sequence data into high-quality information. The challenges of variant identification in organisms with lower quality reference genomes are less we...

journal_title：BMC genomics

authors： Baes CF,Dolezal MA,Koltes JE,Bapst B,Fritz-Waters E,Jansen S,Flury C,Signer-Hasler H,Stricker C,Fernando R,Fries R,Moll J,Garrick DJ,Reecy JM,Gredler B

更新日期：2014-11-01 00:00:00

abstract：BACKGROUND:Increased focus surrounds identifying patients with advanced non-small cell lung cancer (NSCLC) who will benefit from treatment with epidermal growth factor receptor (EGFR) tyrosine kinase inhibitors (TKI). EGFR mutation, gene copy number, coexpression of ErbB proteins and ligands, and epithelial to mesenchy...

journal_title：BMC genomics

authors： Balko JM,Potti A,Saunders C,Stromberg A,Haura EB,Black EP

更新日期：2006-11-10 00:00:00

abstract：BACKGROUND:Two-component systems (TCS) play critical roles in sensing and responding to environmental cues. Azospirillum is a plant growth-promoting rhizobacterium living in the rhizosphere of many important crops. Despite numerous studies about its plant beneficial properties, little is known about how the bacterium s...

journal_title：BMC genomics

authors： Borland S,Oudart A,Prigent-Combaret C,Brochier-Armanet C,Wisniewski-Dyé F

更新日期：2015-10-22 00:00:00

abstract：BACKGROUND:Plants contain significant quantities of small RNAs (sRNAs) derived from various sRNA biogenesis pathways. Many of these sRNAs play regulatory roles in plants. Previous analysis revealed that numerous sRNAs in corn, rice and soybean seeds have high sequence similarity to animal genes. However, exogenous RNA ...

journal_title：BMC genomics

authors： Zhang Y,Wiggins BE,Lawrence C,Petrick J,Ivashuta S,Heck G

更新日期：2012-08-08 00:00:00

abstract：BACKGROUND:There is an increasing interest in berries, especially blackberries in the diet, because of recent reports of their health benefits due to their high content of flavonoids. A broad range of genomic tools are available for other Rosaceae species but these tools are still lacking in the Rubus genus, thus limit...

journal_title：BMC genomics

authors： Garcia-Seco D,Zhang Y,Gutierrez-Mañero FJ,Martin C,Ramos-Solano B

更新日期：2015-01-22 00:00:00

abstract：BACKGROUND:The unfolded protein response (UPR) is a network of intracellular signaling pathways that supports the ability of the secretory pathway to maintain a balance between the load of proteins entering the endoplasmic reticulum (ER) and the protein folding capacity of the ER lumen. Current evidence indicates that ...

journal_title：BMC genomics

authors： Krishnan K,Ren Z,Losada L,Nierman WC,Lu LJ,Askew DS

更新日期：2014-02-25 00:00:00