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New genomic technique uncovers coral transcriptome

...ically addresses problems that had hindered the sequencing of transcriptomes with 454, such as homopolymer (A/T) tracks, adaptor artifacts, and uneven transcript coverage". The new method requires as little as 1 microgram of total RNA, eliminates the need for a strand-selection step prior to emulsion PCR, a...

New technique used to profile anthrax genome

...esearch Institute. "With traditional methods, transcript structure and abundance really have to be determin...ce the data were together, it was very easy to see transcript structure across the genome," said Bergman. "We co...start and stop. This was really exciting, because transcript boundaries tell us precisely where to find the reg...

Boehringer Ingelheim uses Genomatix' Next Generation Sequencing data analysis systems

...k finding, and performs automated binding pattern identification. For RNAseq experiments, normalized expression values are calculated at the exon and transcript level. A special GenomeThesaurus is also provided for potential splice junctions, which allows for splice junction analysis and identification of new ...

A new gene silencing platform -- silence is golden

... inhibit the pre-mRNA maturation step of polyA tail addition in a gene specific manner. Further, the domains of the oligonucleotide are independent so transcript binding and U1 snRNP binding can be independently optimized and adapted to a wide array of genes associated with disease. "The U1 Adaptor platform ...

Genomatix joins Illumina-Connect program

...k finding, and performs automated binding pattern identification. For RNAseq experiments, normalized expression values are calculated at the exon and transcript level. A special GenomeThesaurus is also provided for potential splice junctions, which allows for splice junction analysis and identification of new ...

New method provides panoramic view of protein-RNA interactions in living cells

...cientists turned to RNA, a direct yet more complex transcript of DNA. But methodological problems have historica.... When DNA is transcribed into RNA, the primary transcript is divided into many blocks called exons, which ar...separated by empty spaces. In order to convert the transcript into some sort of message, all the spaces need to ...

CSHL team traces extensive networks regulating alternative RNA splicing

...on. The protein's shape--and function--will vary depending on how the splicing factors back in the nucleus have cut and pasted together the final RNA transcript which has served as the blueprint for the protein's manufacture. How are splicing-factor targets recognized? The question addressed by Zhang a...

Stowers Institute's Shilatifard Lab identifies new role for factor critical to transcription

...essenger RNA to carry genetic information from DNA to the protein-synthesizing machinery of the cell. Precise control of the timing and location of transcript elongation by Pol II is essential for development. In a paper published online in the Early Edition of the Proceedings of the National Academy of Sci...

UD researchers discover novel 'gene toggles' in world's top food crop

... monocotyledons--plants that have solitary seed leaves--such as rice, corn and other grains. The novel microRNAs, target sites, and sense-antisense transcript arrangement that we discovered are conserved among monocots, indicating that this pathway is at least 50 million years old, Meyers noted. The next ...

Mummy lice found in Peru may give new clues about human migration

...ng their parasites since people have carried these parasites with them as they moved around the globe, he said. Called a parascript, its a whole other transcript of our evolutionary history that can either add to what we know or in some cases inform us about things we didnt know. Looking at evidence from par...

New, noninvasive prostate cancer test beats PSA in detecting prostate cancer

...ictors of prostate cancer: GOLPH2, which is generally over-expressed in prostate cancer; SPINK1, over-expressed in a subset of these cancers; the PCA3 transcript expression; and TMPRSS2:ERG fusion status. Of the seven markers, only PCA3 had been previously reported as a diagnostic biomarker. When tested as...

Integral Vision, Inc. Announces SharpEye(TM) Order From New Customer

...r committed to providing automated solutions to the quality issues Microdisplay, OLED and LCD manufacturers face in today's competitive marketplace. A transcript of an interview by our CEO, which gives an overview of the Company, can be found at http://www.iv-usa.com/financials/Integral.pdf . More information ...

Oliguridylation-mediated histone mRNA decay

... at both ends by components of the general mRNA decay machinery. This work represents the first example of the half-life of a specific mammalian mRNA transcript being regulated by oligouridylation. ...

'Insulator' helps silence genes in dormant herpes virus

...e genes that would cause it to replicate. In this dormant state, only a tiny fragment of the virus genome ?a single gene called the Latency-Associated transcript gene (LAT) ?remains active. Scientists have long puzzled over the mechanism used to keep this small region of the genome going while nearby genes rema...

MicroRNAs as tumor suppressors

...ations that are associated with human tumors, the researchers found that in normal cells, a microRNA called let-7 binds to the 3?end of the HMGA2 mRNA transcript and suppresses its expression in the cell cytosol. However, chromosomal breaks that shorten the 3?end of the HMGA2 transcript, and prevent let-7 bindi...

MicroRNAs can be tumor suppressors

...tions that are associated with human tumors, the researchers found that, in normal cells, a microRNA called let-7 binds to the 3?end of the HMGA2 mRNA transcript and suppresses its expression in the cell cytosol. However, chromosomal breaks that shorten the 3?end of the HMGA2 transcript,and prevent let-7 bindin...

New nanotechnology able to examine single molecules, aiding in determining gene expression

...ork reported in Nanotechnology were able to isolate and identify individual transcript molecules—a sensitivity not achieved with earlier methods. "Gene expre...analyzed. Nanotechnology allows us to push down to the level of individual transcript molecules." "We are likely to see more of these kinds of highly multi-...

Nobel Laureate finds 'elegant' explanation for DNA transcribing enzyme's high fidelity

...olymerases, the researchers explained. Common features include an unwound region of about 15 base pairs of the DNA with some eight residues of the RNA transcript hybridized with the DNA in the center of the “transcription bubble.?The enzyme polymerases involved are capable of moving both forward and backward on...

RNA map provides first comprehensive understanding of alternative splicing

...Of those, all 30 fit the rules of the RNA map. "In other words, every transcript that we could predict as a Nova-regulated alternatively spliced RNA fit the...y small number of regulatory splicing factors acting in concert on a single transcript can potentially generate a large number of different protein variants," say...

Infected for life

...ex virus-1 (HSV-1), the virus that causes cold sores and ocular keratitis, produces an miRNA molecule. This miRNA is encoded by the Latency-Associated transcript gene (LAT) in the viral genome and works through a process called RNA interference to prevent normal cell death or apoptosis. Thus, the latent viral i...

Non-coding RNAs help silence the mammalian transcription

...n and colleagues (Princeton University) lend new insight into the mechanism of genomic imprinting, demonstrating a necessary role for a non-coding RNA transcript in the silencing of an imprinted gene cluster in mice. Imprinting, or the differential expression of a gene based upon which parent it has been inhe...

Mammalian Transcriptome Mapped

... into RNA. Antisense transcription is the "reverse" expression of genomic DNA. If the same molecule of DNA is transcribed into antisense RNA, then the transcript has the reverse sequence as the original DNA sequence. Antisense RNA transcripts can exert function because they can bind to the RNA transcripts fo...

Chemical Engineer Kao Explores Antibiotic Synthesis With DNA Chips

...cultures of erythromycin-producing bacteria were infused with fluorescent dye and applied to the microarray. "This experiment revealed that the RNA transcript abundance of the erythromycin-producing genes remained higher for longer times in the Saccharopolyspora erythraea mutant strain," Kao said. Searchi...

Scientists analyze chromosomes 2 and 4

...edicine's Genome Sequencing Center and senior author of the study. In another intriguing finding, the researchers identified a messenger RNA (mRNA) transcript from a gene on chromosome 2 that possibly may produce a protein unique to humans and chimps. Scientists have tentative evidence that the gene may be u...

Touching Molecules With Your Bare Hands

...responded to reduced protein synthesis. When the authors modified the ORF73 transcript to circumvent T cell evasion, the T cells “wiped out?latent virus. These re...orted translation events, it may be that evasive action is taken at the RNA transcript stage, before RNA is translated into protein. Evading killer T cells, the a...

How A Latent Virus Eludes Immune Defenses

...responded to reduced protein synthesis. When the authors modified the ORF73 transcript to circumvent T cell evasion, the T cells “wiped out?latent virus. These re...orted translation events, it may be that evasive action is taken at the RNA transcript stage, before RNA is translated into protein. Evading killer T cells, the a...

Researchers rein in regulatory RNAs

...ci generated multiple transcripts of various sizes, in contrast to a single transcript that is expected under the traditional one gene-one transcript model. Furthermore, the SATs tended to be poly(A)-negative and enriched in ...

An HIV Protein Plays a Surprising Role in Gene Activation

...oded in the HIV genome, is required for HIV gene activation and viral replication. It affects these processes, the current model holds, by stimulating transcript elongation and increasing RNA polymerase's processing efficiency. In a new study, Tamal Raha, Grace Cheng, and Michael Green work with human cell line...
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