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A new method for analyzing gene expression in single cells

A new method for analyzing gene expression in single cells | Developmental biology and Stem cells - large scale data | Scoop.it
A new method for analyzing gene expression in single cells opens a window into ...
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Building on their Smart-seq1 technology the team led by Prof. Sandberg of the Ludwig Institute for Cancer Research, improved the ability of researchers to analyze gene expression in single cells. The new technique called Smart-seq2 captures more rna molecules and reads more full lenghth sequences. All this with with off-the-shelf reagents and at lower cost. the article describing this technique was published in Nature methods (http://www.nature.com/nmeth/journal/vaop/ncurrent/full/nmeth.2639.html)

This new technique will have a great impact on basic science, development, and cancer research.

 

 

 
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Rules governing expression of developmental genes in mouse embryonic stem cells are more nuanced than anticipate Phys.Org

Rules governing expression of developmental genes in mouse embryonic stem cells are more nuanced than anticipate  Phys.Org | Developmental biology and Stem cells - large scale data | Scoop.it

A study by researchers at the Stowers Institute for Medical Research now revisits that notion. In this week's advance online edition of the journal Nature Structural and Molecular Biology, a team led by Investigator Ali Shilatifard, Ph.D., identifies the protein complex that implements the activating histone mark specifically at "poised" genes in mouse embryonic stem (ES) cells, but reports that its loss has little effect on developmental gene activation during differentiation. This suggests that there is more to learn about interpreting histone modification patterns in embryonic and even cancer cells.

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A surprising result shows that even without the Mll2 of the COMPASS methylation complex stem cells can still activate genes required for maturation, meaning that interpreting histone modification patterns in embryonic still has a ways to go.

 

______________________________________________________________For detailed information linking development and stem cells please see

http://discovery.lifemapsc.com/

 

 

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Discovery Reshapes Understanding of Embryonic Development - UCSF News Services

UCSF News Services Discovery Reshapes Understanding of Embryonic Development.  The researchers believe that cells use specialized filopodia as a means of targeted delivery of key signaling molecules in the limb to instruct formation of, say, a thumb versus a pinky finger. If that communication mechanism breaks down, then malformations occur – such as too many or too few fingers or toes.  .."

Yoel Bogoch's insight:

Researchers find new cellular mechanism to determine pattern formation in limb. The full article:

http://www.nature.com/nature/journal/vaop/ncurrent/full/nature12157.html

 

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More info on limb development can be found at:

http://discovery.lifemapsc.com/in-vivo-development/limb

 

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Nanog, Pou5f1 and SoxB1 activate zygotic gene expression during the maternal-to-zygotic transition

"After fertilization, maternal factors direct development and trigger zygotic genome activation (ZGA) at the maternal-to-zygotic transition (MZT)."

Yoel Bogoch's insight:

Following fertilization there is a stage  in development called the maternal to zygotic transition in which the development of the embryo comes under the exclusive control of the zygotic genome. This requires the activation of the zygote genome (ZGA). However untill now the genes responsible for starting the zygotic genetic program were unknown. In an article in nature (http://www.nature.com/nature/journal/vaop/ncurrent/full/nature12632.html) Lee et al. use ribosomal profiling in zebrafish to determine that thre genes (Nanog, Soxb1 and oct4 (pou5f1)) are responsible for regulating the activation. Surprisingly these are three of the factors used for reprogramming adult cells into an embryonic state. 

 

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For more information about human development please see http://discovery.lifemapsc.com/

 

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Complete Description of Gene Expression in the Human Retina - Science Daily (press release)

Complete Description of Gene Expression in the Human Retina Science Daily (press release). In a study published today in the journal BMC Genomics, reported a complete catalog of the genes expressed in the retina.The retina is the neural tissue in the back of the eye that initiates vision.

 

Yoel Bogoch's insight:

Using RNA Sequencing technology to identify all of the messenger RNAs (mRNAs) produced in the human retina. The researchers found novel transcripts and even potential novel genes. This work is valuable to help scientists understand how the retina works, and how it is affected by disease

 

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If you are interested in more information on the retina please visit:

http://discovery.lifemapsc.com/in-vivo-development/eye/retina

 

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Single-cell RNA sequencing yields genetic makeup of human and mouse embryos in unprecedented detail

Single-cell RNA sequencing yields genetic makeup of human and mouse embryos in unprecedented detail | Developmental biology and Stem cells - large scale data | Scoop.it

"UCLA scientists, in collaboration with teams in China, have used the powerful technology of single-cell RNA sequencing to track the genetic development of a human and a mouse embryo at an unprecedented level of accuracy."


Via Prof. Hankell
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See the full paper at: http://www.nature.com/nature/journal/vaop/ncurrent/full/nature12364.html

 

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For more high throuput experments in embryonic development please go to: http://discovery.lifemapsc.com/gene-expression-signals/high-throughput

 

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Prof. Hankell's curator insight, August 2, 2013 8:10 AM

RNA = ribonucleic acid: any of a class of single-stranded molecules transcribed from DNA in the cell nucleus or in the mitochondrion or chloroplast, containing along the strand a linear sequence of nucleotide bases that is complementary to the DNA strand from which it is transcribed: the composition of the RNA molecule is identical with that of DNA except for the substitution of the sugar ribose for deoxyribose and the substitution of the nucleotide base uracil for thymine.