l**********1
发帖数: 5204 | 1 UCSF Vice Executive Vice Chancellor
Jeffrey A. Bluestone
//www.diabetes.ucsf.edu/members/jeffrey-bluestone
//www.ncbi.nlm.nih.gov/pubmed/20432533
//www.ncbi.nlm.nih.gov/pubmed?term=%22Bluestone%20JA%22%5BAuthor%5D |
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l**********1
发帖数: 5204 | 3 Jian-kang Zhu (强哥)
//www.ncbi.nlm.nih.gov/pubmed?term=jian-kang%20zhu
without any co-authorship paper with Chua (冯敬荛)
Philip N. Benfey (丁力)
//www.ncbi.nlm.nih.gov/pubmed?term=Philip%20N.%20Benfey
had co-authorship papers records with Chua |
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l**********1
发帖数: 5204 | 4 continue again
陈 雪梅 (Xuemei Chen )
//www.hhmi.org/news/chenx_bg.html
//facultydirectory.ucr.edu/cgi-bin/pub/public_individual.pl?faculty=2491
//cepceb.ucr.edu/people/chen.html
//www.plantbiology.ucr.edu/faculty/chen.html
Chen X. (2012)
Small RNAs in development - insights from plants.
Curr Opin Genet Dev. May 9. [Epub ahead of print]
//www.ncbi.nlm.nih.gov/pubmed/22578318
//www.ncbi.nlm.nih.gov/pubmed?term=Chen%20Xuemei%20%20Riverside
Ps:
original hint was from
得到肯定答复后，朱健康教授随即与海外学者杨贞标、丁守伟、陈雪梅等... 阅读全帖 |
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l**********1
发帖数: 5204 | 5 continue again
陈 雪梅 (Xuemei Chen )
//www.hhmi.org/news/chenx_bg.html
//facultydirectory.ucr.edu/cgi-bin/pub/public_individual.pl?faculty=2491
//cepceb.ucr.edu/people/chen.html
//www.plantbiology.ucr.edu/faculty/chen.html
Chen X. (2012)
Small RNAs in development - insights from plants.
Curr Opin Genet Dev. May 9. [Epub ahead of print]
//www.ncbi.nlm.nih.gov/pubmed/22578318
//www.ncbi.nlm.nih.gov/pubmed?term=Chen%20Xuemei%20%20Riverside
Ps:
original hint was from
得到肯定答复后，朱健康教授随即与海外学者杨贞标、丁守伟、陈雪梅等... 阅读全帖 |
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l**********1
发帖数: 5204 | 8 after quit Bio wet lab
if move into Biostatistics
may face ChIP-RNA Seq by Bayesian Statistical Techniques with R package
relative papers PubMed links:
//www.ncbi.nlm.nih.gov/pubmed/21245054
or
//www.ncbi.nlm.nih.gov/pubmed/22556370 |
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l**********1
发帖数: 5204 | 9 Alleviating interactions.
Please go to AMPK(Sip2) Nature paper:
Functional dissection of lysine deacetylases reveals that HDAC1 and p300
regulate AMPK (2012)
link:
//www.ncbi.nlm.nih.gov/pubmed/22318606
its pp251
called both as
[synthetic lethal (negative/aggravating) and rescue (positive/alleviating)
interactions]
more reference:
Acetylation of yeast AMPK controls intrinsic aging independently of caloric
Cell 146: 969-
//www.ncbi.nlm.nih.gov/pubmed/21906795 |
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l**********1
发帖数: 5204 | 11 楼主少见啦
八年前的paper:
蜥蜴3D 运动记录的PNAS paper
Hsieh and Lauder (2004)
Running on water: Three-dimensional force generation by basilisk lizards.
PNAS 101: 16784-8.
//www.ncbi.nlm.nih.gov/pubmed/15550546
九年前的Nature paper:
水蛭 3D 运动 在水面 不会沉下去的Nature paper
Hu et al. (2003)
The hydrodynamics of water strider locomotion.
Nature 424: 663-6.
http://www.ncbi.nlm.nih.gov/pubmed/12904790
more about marine water strider 如何走过太平洋 大西洋的 papers please go
to:
CHENG, LANNA 新加坡华裔
Research Biologist of UCSD
//sio.ucsd.ed... 阅读全帖 |
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l**********1
发帖数: 5204 | 12 Bingo
plus one Chinese American super Bull in this field:
Frank Hu
Harvard Medical School
his group one paper:
Malik VS et al.(2010)
Sugar-sweetened beverages, obesity, type 2 diabetes mellitus, and
cardiovascular disease risk.
Circulation. 121: 1356-1364.
link:
//www.ncbi.nlm.nih.gov/pubmed/20308626
his lab publications link:
//www.hsph.harvard.edu/faculty/frank-hu/publications/
and PubMed all papers link:
//www.ncbi.nlm.nih.gov/pubmed?term=Hu%20FB%5BAuthor%5D&cauthor=true&cauthor_
uid=2030862... 阅读全帖 |
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l**********1
发帖数: 5204 | 13 12.4 hr interval should be taken between IN VIVO De Novo blood sampling of
same tissue of
--Mouse/+-Mouse/++Mouse her/his mRNAs and proteins
if that mRNAs and produced proteins are Circadian controlled
please check one paper:
Connor K. and Gracey A.(2011)
Circadian cycles are the dominant transcriptional rhythm in the intertidal
mussel Mytilus californianus.
PNAS 108:16110-16115.
Abstract
Residents in the marine intertidal, the zone where terrestrial and marine
habitats converge, inhabit an env... 阅读全帖 |
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l**********1
发帖数: 5204 | 14 So what?
Is he (your PI) took left or right pathway? from below attached figure
from below b) nature sister?
a)
Huang S. (2009)
Non-genetic heterogeneity of cells in development: more than just noise.
Development.136: 3853-3862.
//www.ncbi.nlm.nih.gov/pubmed/19906852
b)
Strohman RC (1997)
The coming Kuhnian revolution in biology.
Nat Biotechnol. 15: 194-200.
//www.ncbi.nlm.nih.gov/pubmed/9062910
//bialystocker.net/files/kuhn.pdf |
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l**********1
发帖数: 5204 | 15 if originally omitted below attached figure shown right pathway
then no way can bet below report:
Levy SF et al.(2012)
Bet hedging in yeast by heterogeneous, age-correlated expression of a stress
protectant.
PLoS Biol. 10: e1001325.
Abstract
Genetically identical cells grown in the same culture display striking cell-
to-cell heterogeneity in gene expression and other traits. A crucial
challenge is to understand how much of this heterogeneity reflects the noise
tolerance of a robust system and ho... 阅读全帖 |
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l**********1
发帖数: 5204 | 16 Mark!
LZ can try ultra-low attachment 96-well plate
plus two papers:
Zhang J et al. (2009)
Functional cardiomyocytes derived from human induced pluripotent stem cells.
Circ Res. 104: e30-41.
link:
//www.ncbi.nlm.nih.gov/pubmed/19213953
and
Sheridan SD et al.
Analysis of embryoid bodies derived from human induced pluripotent stem
cells as a means to assess pluripotency.
Stem Cells Int. 2012:738910.
link:
//www.ncbi.nlm.nih.gov/pubmed/22550517 |
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l**********1
发帖数: 5204 | 17 Here you go.
Casals G. et al. (2009)
Hypoxia induces B-type natriuretic peptide release in cell lines derived
from human cardiomyocytes.
Am J Physiol Heart Circ Physiol. 297:H550-5.
link:
//www.ncbi.nlm.nih.gov/pubmed/19542490
citation:
Cell culture.
AC16 cells were generated from primary human
ventricular cardiomyocytes, as previously described (7). This immortalized,
stable cell line can be repeatedly frozen, thawed, and propagated.
Cells were seeded (1 106 cells/well) in gelatin-coated six-... 阅读全帖 |
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l**********1
发帖数: 5204 | 18 召唤sunnyday
有个问题 哈
membrane ruffle actin 异常的时侯 SWI/SNF 和Rest/Nrsf 浓度
是 increase? or decrease?
虽有
References:
1)
Lepagnol-Bestel AM at al. (2009)
DYRK1A interacts with the REST/NRSF-SWI/SNF chromatin remodelling complex to
deregulate gene clusters involved in the neuronal phenotypic traits of Down
syndrome.
Hum Mol Genet. 18: 1405-14.
//www.ncbi.nlm.nih.gov/pubmed/19218269
citation:
>
we show here that the doses of Rest/Nrsf and Elmo2 in the mouse brains are
inversely proportional. Differential... 阅读全帖 |
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l**********1
发帖数: 5204 | 19 Mulet X et al.
Antagonistic interactions of Pseudomonas aeruginosa antibiotic resistance
mechanisms in planktonic but not biofilm growth.
Antimicrob Agents Chemother. 55: 4560-8.
Abstract
Pseudomonas aeruginosa has an extraordinary capacity to evade the activity
of antibiotics through a complex interplay of intrinsic and mutation-driven
resistance pathways, which are, unfortunately, often additive or synergistic
, leading to multidrug (or even pandrug) resistance. However, we show that
one of th... 阅读全帖 |
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l**********1
发帖数: 5204 | 20 ps:
LZ those two alle excluded HGT (horizontal gene transfer )acquired its/both
's possibility already?
unless even from 它物种 acquired HST gene that 物种 pathway/network can
control this 物种 ability 哦
Reference:
Chen HD et al. (2011)
Ancestral genes can control the ability of horizontally acquired loci to
confer new traits.
PLoS Genet. 7: e1002184.
//www.ncbi.nlm.nih.gov/pubmed/22363555
or
Kholodenko BN. (2006)
Cell-signalling dynamics in time and space.
Nat Rev Mol Cell Biol. 7: 165-76.
//www.nc... 阅读全帖 |
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l**********1
发帖数: 5204 | 21 就是虫子
还有这个呢: cryptic development
pls refer:
Duveau F et al. (2012)
Role of pleiotropy in the evolution of a cryptic developmental variation in
Caenorhabditis elegans.
PLoS Biol. 10: e1001230.
link:
//www.ncbi.nlm.nih.gov/pubmed/22235190
and
Chandler CH (2010)
Cryptic intraspecific variation in sex determination in Caenorhabditis
elegans revealed by mutations.
Heredity 105: 473-82.
link:
//www.ncbi.nlm.nih.gov/pubmed/20502478
NB: LZ 没有透露任何 模式生物 或非模式生物其名称 也没有透露那两alleles 是否
有关性分化 或 进化 所以如果这两线虫的文章 ... 阅读全帖 |
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l**********1
发帖数: 5204 | 23 Cell 2012 may 同一期
三姐/妹 印度裔英国人 Serena Nik-Zainal
Supervisor: Mike Stratton
Exploring the cancer genomes of tumours derived from germline BRCA1 and
BRCA2 mutations carriers
//www.cimr.cam.ac.uk/study/clinicians/current_fellows.html
Nik-Zainal S et al. (2012)
The life history of 21 breast cancers.
Cell. 149:994-1007.
//www.ncbi.nlm.nih.gov/pubmed/22608083
Nik-Zainal S et al. (2012)
Mutational processes molding the genomes of 21 breast cancers.
Cell.149: 979-93.
//www.ncbi.nlm.nih.gov/pubmed/22... 阅读全帖 |
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l**********1
发帖数: 5204 | 27 Agree with sunny said.
btw, for 肽类analog from mushrom
pls refer
one 2011 review:
by
Wasser SP (2011)
Current findings, future trends, and unsolved problems in studies of
medicinal mushrooms.
Appl Microbiol Biotechnol. 89: 1323-32.
Its PubMed link:
http://www.ncbi.nlm.nih.gov/pubmed/21190105
and for 肽类analog modification to anti-tumor drugs
pls refer,
by
Iwasaki T et al. (2009)
Selective cancer cell cytotoxicity of enantiomeric 9-mer peptides derived
from beetle defensins depends on negatively ... 阅读全帖 |
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C***U
发帖数: 2406 | 29 I am using NCBI BLAST, here it is
http://blast.ncbi.nlm.nih.gov/
in the document, it says it takes 11 as default value for word size.
Thanks.
use |
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u**********d
发帖数: 573 | 30 UCSC genome browser进去后，有一个“track search”的按钮，点进去就是搜索栏啦
，搜到了想要的，勾上，选择用“full”来显示，然后回到browser，就有了。
如果你是想砍人的，ENCODE爆了很多ChIP-seq的数据，一般都能搜到。如果是想看老鼠
的，UCSC里又搜不到，怎么办呢？
1.去我上面贴的那个NCBI的epigenomics的链接，那里面分物种分细胞类型再分不同的
ChIP-seq实验，扫描一遍看看有没有想要的，要是有，那么就选中并进入browser模式
（把你的鼠标到处试探一下，其中一个按钮就是进入browser的），就可以看了，还可
以切换到UCSC browser里去显示，挺强大的。
2.要是NCBI还是没有，那就杯具了，只好将就下了：比如这个suz12吧，你可以看看
K27me3或者Ezh2的数据来代替一下；或者看看人的同源基因上面的分布来大体推测一下。
good luck！ |
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l**********1
发帖数: 5204 | 31 LZ is doing Mitochondrial Ca(2+) apoptosis works now?
If Yes,
pls refer below figure which just cited from
Giorgi C et al. (2012)
Mitochondrial Ca(2+) and apoptosis.
Cell Calcium. 52: 36-43.
web link:
http://www.ncbi.nlm.nih.gov/pubmed/22480931
more references:
Patergnani S et al. (2011)
Calcium signaling around Mitochondria Associated Membranes (MAMs).
Cell Commun Signal. 9:19.
link:
http://www.ncbi.nlm.nih.gov/pubmed/21939514 |
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l**********1
发帖数: 5204 | 32 En
one aspect:
To keep stability and safety of Somatic cell Reprogramming to iPS cell
pls refer
Hamada M. et al. (2012)
Reprogramming to Pluripotency Can Conceal Somatic Cell Chromosomal
Instability.
PLoS Genet. 8: e1002913.
Abstract
ignored
These findings suggest that aneuploid cells can be selected for or against
during reprogramming depending on the W-CIN gene defect and present the
novel concept that somatic cell W-CIN can be concealed in the pluripotent
state. Thus, karyotypic analysis of s... 阅读全帖 |
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l**********1
发帖数: 5204 | 33 >ESC是一个动态变化的cell
population（或者说其heterogeneity非常大），即使subcloning以后，一个cell pool
里，各个细胞之间差别可能比我们想象的要大———无论是transcriptome水平，还是
epigenetic水平——但这一点，估计得靠singel cell analysis来验证的。
Sure
plus Monte Carlo Markov Chain Stochastic approch
pls refer
Hanna J et al. (2009)
Direct cell reprogramming is a stochastic process amenable to acceleration.
Nature. 462: 595-601.
link:
http://www.ncbi.nlm.nih.gov/pubmed/19898493
or
Max Flöttmann et al. (2012)
A Stochastic Model of Epigenetic Dynamics in Somatic Cell R... 阅读全帖 |
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l**********1
发帖数: 5204 | 34 microfluidic platforms plus nanopore
pls refer
1)
Choi JW et al. (2012)
High-Throughput Analysis of Protein–Protein Interactions in Picoliter-
Volume Droplets Using Fluorescence Polarization
Anal. Chem. 84: 3849–3854
http://pubs.acs.org/doi/abs/10.1021/ac300414g
2)
Rudenko MI et al. (2011)
Controlled gating and electrical detection of single 50S ribosomal subunits
through a solid-state nanopore in a microfluidic chip.
Biosens Bioelectron. 29: 34-9.
http://www.ncbi.nlm.nih.gov/pubmed/21855314
3)
... 阅读全帖 |
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l**********1
发帖数: 5204 | 36 生物统计的入门教材之一 哈 of course english version:
http://www.roma1.infn.it/~dagos/rpp/
Introduction
Uncertainty and probability
Rules of probability
Probability of simple propositions
Probability of complete classes
Probability rules for uncertain variables
Bayesian inference for simple problems
Background information
Bayes' theorem
Inference for simple hypotheses
Inferring numerical values of physics quantities -- General ideas and basic
examples
Bayesian inference on uncertain variables and posterior ... 阅读全帖 |
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b***s
发帖数: 14 | 37 先看看无数的CNS是什么就知道了，尤其第一作者
列子先：http://www.ncbi.nlm.nih.gov/pubmed/18267069
Oncogenic BRAF Induces Senescence and Apoptosis through Pathways Mediated by
the Secreted Protein IGFBP7
Narendra Wajapeyee1, Ryan W. Serra1, Xiaochun Zhu1, Meera Mahalingam2 and
Michael R. Green1, Go To Corresponding Author,
http://www.ncbi.nlm.nih.gov/pubmed/20478260
Cell. 2010 May 14;141(4):717-27.
IGFBP7 is not required for B-RAF-induced melanocyte senescence. |
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b***s
发帖数: 14 | 38 先看看无数的CNS是什么就知道了，尤其第一作者
列子先：http://www.ncbi.nlm.nih.gov/pubmed/18267069
Oncogenic BRAF Induces Senescence and Apoptosis through Pathways Mediated by
the Secreted Protein IGFBP7
Narendra Wajapeyee1, Ryan W. Serra1, Xiaochun Zhu1, Meera Mahalingam2 and
Michael R. Green1, Go To Corresponding Author,
http://www.ncbi.nlm.nih.gov/pubmed/20478260
Cell. 2010 May 14;141(4):717-27.
IGFBP7 is not required for B-RAF-induced melanocyte senescence. |
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l**********1
发帖数: 5204 | 41 Re LZ
pls go to
one RNA-seq blog
one topic:
Long noncoding RNAs in pathogenesis
web link:
http://www.rna-seqblog.com/
LncRNAs (pronounced “link”) are long non-coding RNAs that are emerging as
important regulators of gene expression in biological processes and diseases
. In this issue of the Journal of Clinical Investigation, two papers connect
lncRNAs to inherited conditions in humans.
Sylvia B-hring and colleagues at the Experimental and Clinical Research
Center in Berlin found a chromosomal ... 阅读全帖 |
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a******a
发帖数: 283 | 42 please email to v*******[email protected], thanks alot!
pubmed link:
http://www.ncbi.nlm.nih.gov/pubmed/20384524
title
Rexin-G, a targeted genetic medicine for cancer
May 2010, Vol. 10, No. 5 , Pages 819-832 (doi:10.1517/14712598.2010.481666)
Authors info
Erlinda M Gordon†1 MD Medical Director & Frederick L Hall2 PhD Chief
Scientific Officer
1Epeius Biotechnologies Corporation, 475 Huntington Drive, San Marino, CA
91108, USA +1 626 441 6695; +1 626 441 6692; e*****[email protected]
2Epeius Bio... 阅读全帖 |
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l**********1
发帖数: 5204 | 45 不要只看到Bayesian+Markov Chain Monte Carlo (MCMC) 用于NGS sensitivity
analysis
新的非 Bayesian+MCMC的 Fisher Information Matrix (FIM) sensitivity
analysis 已有英国 帝国理工大的论文了吧 吧
Reference:
i,
Bioinformatics. (2012) 28:731-3.
web link:
HTTP://www.ncbi.nlm.nih.gov/pubmed/22378710
PDF file:
HTTP: //www.theosysbio.bio.ic.ac.uk/wp-content/uploads/2011/04/manual1.pdf
就是由减少Stochastic simulation process 中的参数 数量的 视点入手的
关联论文
ii,
J R Soc Interface. (2008) 5 Suppl 1:S59-69.
HTTP: //www.ncbi.nlm.nih.gov/pubmed/1848... 阅读全帖 |
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l**********1
发帖数: 5204 | 46 Moser C, Gupta M. (2012)
A generalized hidden Markov model for determining sequence-based predictors
of nucleosome positioning.
Stat Appl Genet Mol Biol. 11 doi: 10.2202/1544-6115.1707.
HTTP: //www.ncbi.nlm.nih.gov/pubmed/22499697
plus one Nature sisiter review
Davey JW et al. (2011)
Genome-wide genetic marker discovery and genotyping using next-generation
sequencing.
Nat Rev Genet. 12: 499-510.
HTTP: //www.ncbi.nlm.nih.gov/pubmed/21681211 |
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l**********1
发帖数: 5204 | 48 Conti:
plus
Li G et al. (2011).
HDAC6 α-tubulin deacetylase: a potential therapeutic target in
neurodegenerative diseases.
J Neurol Sci. 304: 1-8.
HTTP: //www.ncbi.nlm.nih.gov/pubmed/21377170
and
Mitra G et al. (2007).
Chaperone-mediated inhibition of tubulin self-assembly.
Proteins. 67: 112-20.
HTTP: //www.ncbi.nlm.nih.gov/pubmed/17243182 |
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l**********1
发帖数: 5204 | 49 Sure
plus one Plos Bio 2012 paper from that Tom Maniatis lab too:
Zhao M. xxx mmm nnn and Tom Maniatis (2012)
Stochastic Expression of the Interferon-β Gene
PLoS Biol. 10: e1001249.
HTTP : //www.ncbi.nlm.nih.gov/pubmed/22617958
plus
2012 one Nature sister:
Multi-layered stochasticity and paracrine signal propagation shape the type-
I interferon response.
HTTP: //www.ncbi.nlm.nih.gov/pubmed/22291574
ps: for how to Stochastic Hidden Markov chain simulating MAVS KEGG pathway
pls just try one R&Pyt... 阅读全帖 |
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