Báo cáo y học: "Estimating genomic coexpression networks using first-order conditional independence" ppt
Báo cáo y học: "Estimating genomic coexpression networks using first-order conditional independence" ppt
... ICL2 (a 2-methylisocitrate lyase).
In this combined pathway query the TCA cycle, glycolysis/
gluconeogenesis, and glyxoylate cycle are each represented
primarily by a single two-step connected ... pathways. This is par-
ticularly evident with respect to the glyoxylate cycle; the only
genes uniquely assigned to this pathway are ICL1 (encoding
an isocitrate lyase) and ICL2 (a 2-methylisocitrate...
Báo cáo y học: "Multi-tissue coexpression networks reveal unexpected subnetworks associated with disease" docx
... trend for
nodes in the TTC networks having reduced connectivity in the
hypothalamus and adipose coexpression networks, without
any apparent peak at any of the connectivity values. This
demonstrates ... Y (Npy) by activating the phos-
phatidylinositol 3-kinase pathway, is achieved in a manner
that is independent of the STAT3 pathway [22]. Alternatively,
leptin activates the JAK/STAT3 pa...
Báo cáo y học: "Protein-protein interaction networks in the spinocerebellar ataxias" pptx
... via an intermediary protein. Reproduced with permission from Elsevier [1].
Y2 H bait: ataxia-causing protein
Y2 H bait: paralog to or interactor
with ataxia-causing protein
Y2 H prey
Interaction from ... study by Lim et al. [1] sug-
gests that there may be common pathways shared by differ-
ent disease proteins. For instance, their screen revealed a
possible link between Purkinje cell atrop...
Báo cáo y học: "Ancient genomic architecture for mammalian olfactory receptor clusters" pptx
... the
analysis.
Mouse and rat
A total of 1,296 mouse ORs were kindly provided by Zhang
and Firestein [18] (accession numbers AY072961-
AY074256). A total of 17,58 rat ORs [16] were kindly provided
by ... amino-terminus and carboxyl-terminus typ-
ical lengths were considered automatically as intact ORs; oth-
erwise they were translated via FASTY. The typical OR
amino- and carboxyl-termini length...
Báo cáo y học: "Fast genomic μChIP-chip from 1,000 cells" ppt
... of a one-day
μChIP assay that enables genome-wide surveys of epigenetic
histone modifications from 1,000 cells using microarrays.
Typically, reliable resolution of ChIP location analysis is
ensured ... Sive HL, Young RA, Smith JC: Zebrafish pro-
moter microarrays identify actively transcribed embryonic
genes. Genome Biol 2006, 7:R71.
http://genomebiology.com/2009/10/2/R13 Genome Biology 200...
Báo cáo y học: " Microenvironmental genomic alterations reveal signaling networks for head and neck squamous cell carcinoma" pps
... are similar (Figure 3) in these
networks. In essence, we hypothesize that these networks
represent the biology in both tissue types, since they are
built upo n the genomic a lterations and integrated ... infections. Lakartidningen 2010,
107:1702-1704.
47. Slebos RJ, Yi Y, Ely K, Carter J, Evjen A, Zhang X, Shyr Y, Murphy BM,
Cmelak AJ, Burkey BB, et al: Gene expression differences asso...
Báo cáo y học: "Discovery of biological networks from diverse functional genomic data" ppt
... experimentally confirm the quality of predictions
made by our method. We have done so by using bioPIXIE to
generate hypotheses about previously uncharacterized pro-
teins in yeast and experimentally testing ... Biology 2005, 6:R114
Implementation
The Bayesian network used in integrating genomic data was
implemented using SMILE, a C++ library developed by the
Decision Systems Laboratory...
Báo cáo y học: "Serum-dependent transcriptional networks identify distinct functional roles for H-Ras and N-Ras during initial stages of the cell cycle" doc
... termocycler (Applied Biosystems). Results
were analyzed using the software Sequence Detection Sys-
tems (SDS) v2.1 (Applied Biosystems).
Western blot analysis of cellular extracts
Protein lysates ... view of the roles played by the retinoblastoma (Rb)
family members in the Rb-E2F pathway. J Cell Biochem 2007,
102:
1400-1404.
49. Irizarry RA, Hobbs B, Collin F, Beazer-Barclay YD, Antonellis...
Báo cáo y học: "Mining for coexpression across hundreds of datasets using novel rank aggregation and visualization methods" pptx
... cell cycle-regulated genes of the yeast Saccharomyces cer-
evisiae by microarray hybridization. Mol Biol Cell 1998,
9:3273-3297.
7. Allison DB, Cui X, Page GP, Sabripour M: Microarray data analy-
sis: ... tissue type.
Dataset selection
In multi-experiment coexpression analysis, some individual
datasets may produce noisy or even entirely random results
that are either caused by poor data qua...
Báo cáo y học: "Estimating enrichment of repetitive elements from high-throughput sequence data" ppt
... greedy algorithm, con-
structing phylogeny from the bottom up by iteratively
grouping sequences with the highest read set similarity
(see Materials and methods). The results of such analy-
sis ... respectively). Set
4, a cluster of repeats marked by the tri-methylation of H3
Lys36 (H3K36me3), a mark typically associated with tran-
scriptional elongation, is composed primarily of the SINE
repe...
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