w********2
发帖数: 632 | 1 Mobile genetic elements
MGEs are non-essential (accessory) genomic elements composed of genes and
structural features that facil- itate their spread both within and between
organisms (Doolittle and Sapienza, 1980; Orgel and Crick, 1980). They are
found in the genomes of all prokaryotes and eukaryotes. MGEs share many
features and often share a common ancestry with viruses. The main difference
is that viruses are usually capable of extracellular persis- tence.
MGEs, including defective forms, are... 阅读全帖 |
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l**********1
发帖数: 5204 | 2 if that PCR mutation coincidencely happend on the key ponit or region of the
binding sites between that
probe and Genomic DNA sample, which is simialr to loss of docking site in
Western Blotting , then how can you expect both bind tightly unless p32 or
s35 etc isotope labelling can pick weak binging up but Dig labelling Can't
pick that kind of weak binging.
And after sub cloning that the slected white clone can keep your probe
almost no changed and inserted into that vector with LacZ gene of β-
... 阅读全帖 |
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I***i
发帖数: 14557 | 3 再来看个英文的，做个对照。
Washington: A new study has found that the American paddlefish -- known for
its bizarre, protruding snout and eggs harvested for caviar -- duplicated
its entire genome about 42 million years ago.
This finding may add a new twist to the way scientists study how fins
evolved into limbs since the paddlefish is often used as a proxy for a more
representative ancestor shared by humans and fishes.
“We found that paddlefish have had their own genome duplication. This
creates extra genetic... 阅读全帖 |
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p*****c
发帖数: 20445 | 4 Jun Lu PhD
Assistant Professor of Genetics
General Info
Bio
Research & Publications
Biographical Info
Education & Training
Ph.D.Boston University(2003)Postdoc AssociateBroad Institute or MIT and
Harvard, Cancer Program (2004 - 2008)
Research Summary
We are interested in using genomics to understand the role of non-coding
RNAs in mammalian development and disease. Currently, we are focusing on the
following topics. 1. Non-coding RNAs in blood stem cell differentiation and
malignancies 2. MicroRNA... 阅读全帖 |
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d*******3
发帖数: 8598 | 5 基因产业战：中国基因技术的尴尬
2014-01-06 1 来源：财经国家周刊 作者：陈荣4 V+ Z- R& K4 I# o
% w, d. q- k( e( I
工业化时代的监管思维和手段，有必要作出相应调整。中国对基因这一前沿科技的政策
必须更具前瞻性
没有机场，再好的飞机也难以飞向天空。
中国基因技术正面临这样的尴尬。由于注册死结迟迟未能解开，多地医院开展已久的无
创产前基因检测服务，被国家监管部门三度叫停。- O$ j: k; D* B- B1 s
基因被认为是人类生命科学的顶峰。通向这一顶峰的路上，中国民营机构参与了国际人
类基因组计划，并承担了部分测序任务(1%)，所幸没有被完全抛下。
其后，国内基因产业的先行者实现了由参与、接轨到同步及部分引领的跨越发展，并逆
向并购了美国上游公司。但这并不代表取得这场商业战争的完胜。整体观之，中国基因
产业企业在全球竞争中依然处于被动。& J, Y! N* q6 v% D$ a3 E* U
业界认为，坐拥足够大的市场需求，宝贵的主场优势，中国基因技术和产业，完全有理
由做得更好。
但前提是，中国对基因这一前沿科技的政策更具前瞻性，成为这... 阅读全帖 |
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C*I
发帖数: 4736 | 6 最近这些天，lubbock一直拼命宣传病毒不是武汉所泄露出来的，明说暗示可能是美国
人投的毒。因此，刻意从bioRxiv上找来了一个matthew wong的未经正式发表preprint
的paper来佐证。说蝙蝠病毒不是新冠状病毒的initial病毒，穿山甲所带的冠状病毒才
是这次武汉病毒的原始宿主。为此，接二连三的在买买提开贴，带领一帮大小男女五毛
，乎着号子制造舆论风潮，误导视听，百般为病毒所解脱。
既然lubbock过来过去都是这个什么马来西亚人matthew wong的论文，那我们就看看这
matthew wong到底是个什么人物了。
按照bioRxiv的公开介绍，这watthew wong，只是一个大学本科/bs的学生，既没有硕士
学位，也不是phd candidate, 而是在 Alkek Center for Metagenomics and
Microbiome Research, Department of Molecular Virology and Microbiology,
Baylor College of Medicine上学或者工作。
至于他对新冠病毒的... 阅读全帖 |
|
C*I
发帖数: 4736 | 7 lubbock34，又名“胡汉三又回来了”，从名字判断，其年龄在53岁以上，职业应当是
个5毛。因为其马甲连续系列被多少穿戴使用，难说不是个5毛团伙。
最近这些天，lubbock一直拼命宣传病毒不是武汉所泄露出来的，明说暗示可能是美国
人投的毒。因此，刻意从bioRxiv上找来了一个matthew wong的未经正式发表preprint
的paper来佐证。说蝙蝠病毒不是新冠状病毒的initial病毒，穿山甲所带的冠状病毒才
是这次武汉病毒的原始宿主。为此，接二连三的在买买提开贴，带领一帮大小男女五毛
，乎着号子制造舆论风潮，误导视听，百般为病毒所解脱。
既然lubbock过来过去都是这个什么马来西亚人matthew wong的论文，那我们就看看这
matthew wong到底是个什么人物了。
按照bioRxiv的公开介绍，这watthew wong，只是一个大学本科/bs的学生，既没有硕士
学位，也不是phd candidate, 而是在 Alkek Center for Metagenomics and
Microbiome Research, Department of Mole... 阅读全帖 |
|
C*I
发帖数: 4736 | 8 lubbock34，又名“胡汉三又回来了”，从名字判断，其年龄在53岁以上，职业应当是
个5毛。因为其马甲连续系列被多少穿戴使用，难说不是个5毛团伙。
最近这些天，lubbock一直拼命宣传病毒不是武汉所泄露出来的，明说暗示可能是美国
人投的毒。因此，刻意从bioRxiv上找来了一个matthew wong的未经正式发表preprint
的paper来佐证。说蝙蝠病毒不是新冠状病毒的initial病毒，穿山甲所带的冠状病毒才
是这次武汉病毒的原始宿主。为此，接二连三的在买买提开贴，带领一帮大小男女五毛
，乎着号子制造舆论风潮，误导视听，百般为病毒所解脱。
既然lubbock过来过去都是这个什么马来西亚人matthew wong的论文，那我们就看看这
matthew wong到底是个什么人物了。
按照bioRxiv的公开介绍，这watthew wong，只是一个大学本科/bs的学生，既没有硕士
学位，也不是phd candidate, 而是在 Alkek Center for Metagenomics and
Microbiome Research, Department of Mole... 阅读全帖 |
|
C*I
发帖数: 4736 | 9 lubbock34，又名“胡汉三又回来了”，从名字判断，其年龄在53岁以上，职业应当是
个5毛。因为其马甲连续系列被多少穿戴使用，难说不是个5毛团伙。
最近这些天，lubbock一直拼命宣传病毒不是武汉所泄露出来的，明说暗示可能是美国
人投的毒。因此，刻意从bioRxiv上找来了一个matthew wong的未经正式发表preprint
的paper来佐证。说蝙蝠病毒不是新冠状病毒的initial病毒，穿山甲所带的冠状病毒才
是这次武汉病毒的原始宿主。为此，接二连三的在买买提开贴，带领一帮大小男女五毛
，乎着号子制造舆论风潮，误导视听，百般为病毒所解脱。
既然lubbock过来过去都是这个什么马来西亚人matthew wong的论文，那我们就看看这
matthew wong到底是个什么人物了。
按照bioRxiv的公开介绍，这watthew wong，只是一个大学本科/bs的学生，既没有硕士
学位，也不是phd candidate, 而是在 Alkek Center for Metagenomics and
Microbiome Research, Department of Mole... 阅读全帖 |
|
w***7
发帖数: 1637 | 10 虽然广告上说要求三年经验，但负责找人的我那个朋友说fresh graduate 也行。
I will be happy to forward cv to him if any one is interested. send your cv
to my email: s*****[email protected]
or you can directly submit the application via link:
http://www.mountsinai.org/careers/career-pathways/research/bioi
belows are requirement:
Job Description:
The Bioinformatician I manages and organizes large databases, and conducts
statistical and genomic analysis. Uses software to gather, store, manipulate
and analyzes research data.
The Bioinfo... 阅读全帖 |
|
l******a
发帖数: 16364 | 11 ☆─────────────────────────────────────☆
break8811 (池蛙) 于 (Thu Nov 8 15:06:11 2012, 美东) 提到:
我最近才开始了解自闭症。一些不成熟的想法抛出来，请大家指正。
Autistic disorder(严重自闭症)和ASD(autism spectrum disorder，泛自闭症，也包
含Autistic disorder)都是受遗传影响，神经系统发育不全而导致的语言社交能力障碍
。ASD很多症状和汞中毒接近，但后者不是遗传导致的。诊断ASD时都要排除汞中毒的可
能。
ASD和正常小孩之间其实没有明显的界限，本来"正常"就只有统计学意义。很多被诊断
为ASD的小孩的神经发育，只是比较缓慢而已，只要父母有耐心，更大点之后小孩就正
常了。但也有很多ASD小孩的神经系统，如果不人工干预，就永远无法发育正常--其实
即使人工干预，也往往只能做点改善，难以完全正常。
说到这儿，我觉得有必要引入“基因表达”的概念。曾看过一篇报导(对不起原文找不
到了)，说某个村庄的风俗，小孩老绑着不让到处跑，导致当地人群的... 阅读全帖 |
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w***7
发帖数: 1637 | 12 【 以下文字转载自 Statistics 讨论区 】
发信人: wk007 (work hard, play hard), 信区: Statistics
标 题: a bioinformatician/statician position is opened at nyc
发信站: BBS 未名空间站 (Tue Sep 24 18:10:06 2013, 美东)
虽然广告上说要求三年经验，但负责找人的我那个朋友说fresh graduate 也行。
I will be happy to forward cv to him if any one is interested. send your cv
to my email: s*****[email protected]
or you can directly submit the application via link:
http://www.mountsinai.org/careers/career-pathways/research/bioi
belows are requirement:
Job Description:
The Bio... 阅读全帖 |
|
c*********r
发帖数: 1312 | 13 我做了四个RNA-seq样品，前两个是mRNA-seq，后两个是自己用invitrogen的Ribo-
Minus除去rRNA，期望能得到long ncRNA。样品是学校的Genomic core facility制备的
，一个大概$400多，测序和分析是在collaborator那里做的，目前没要钱，所以还不知
道他家的价钱。
但学校Genomic core facility的报价是：2x75 GA v5 kits：$2060/lane.
去年七月份在new mexico的一个institute做了一个咨询，价格大概是这样的：
Given:
- 2 libraries (you have already used the illumina SIPE kit to make paired
end library)
- Request for mRNA sequencing (PE)
- Sea urchin. genome size is ~850Mbases http://www.scienceonline.org/cgi/content/full/314/5801/941 so... 阅读全帖 |
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n*********m
发帖数: 38 | 14 Doubts about Johns Hopkins research have gone unanswered, scientist says
By Peter Whoriskey, Published: March 11
The numbers didn’t add up.
Over and over, Daniel Yuan, a medical doctor and statistician, couldn’t
understand the results coming out of the lab, a prestigious facility at
Johns Hopkins Medical School funded by millions from the National Institutes
of Health.
He raised questions with the lab’s director. He reran the calculations on
his own. He looked askance at the articles arising fro... 阅读全帖 |
|
w***7
发帖数: 1637 | 15 【 以下文字转载自 Statistics 讨论区 】
发信人: wk007 (work hard, play hard), 信区: Statistics
标 题: a bioinformatician/statician position is opened at new yor
发信站: BBS 未名空间站 (Tue Sep 24 18:10:06 2013, 美东)
虽然广告上说要求三年经验，但负责找人的我那个朋友说fresh graduate 也行。
I will be happy to forward cv to him if any one is interested. send your cv
to my email: s*****[email protected]
or you can directly submit the application via link:
http://www.mountsinai.org/careers/career-pathways/research/bioi
belows are requirement:
Job Description:
The... 阅读全帖 |
|
n********b
发帖数: 27 | 16 There is a position opening for a Principal Lab Assistant in a new Genomics
Center of a University located in southern California. The position is
supported by hard money with good benefit plans. Please send your resume
and email to [email protected]
/* */, if you are interested. Thanks!
------------
Principal Lab Assistant
Center for Genomics
Job descriptions:
1. Performs bench work related to research projects using different genomic
technologies including next-generation sequencing (N... 阅读全帖 |
|
a********t
发帖数: 270 | 17 Background:
Fireflies! These silent fireworks on warm summer nights fill us with wonder.
But so much about these fascinating critters remains shrouded in mystery-
from the details of how they light up their lanterns to the way some species
are disappearing.
The firefly genome project is one of 5 FINALISTS TO WIN A FREE DE NOVO
GENOME SEQUENCING hosted by the PacBio 2016 “Explore Your Most Interesting
Genome” genome contest， which will be determined by community polling.
Request:
If you’d lik... 阅读全帖 |
|
l*******1
发帖数: 16217 | 18 看你们这二道贩子文章 不如看底下英文UC伯克利是怎么耍臭不要脸的
专利局都说了张峰的专利在真核生物中有效 是一个separate case
UC 伯克利还在那意淫要所有细胞类型中的专利 你让美国专利局自己抽自己的脸吗
Appeals board clears way for UC Berkeley to receive patent on CRISPR-Cas9
gene editing
By Robert Sanders, Media relations | FEBRUARY 15, 2017
Click to share on Twitter (Opens in new window)181Click to share on Facebook
(Opens in new window)181Click to share on Google+ (Opens in new window)
Click to share on Reddit (Opens in new window)Click to email this to a
friend (Opens in new window)... 阅读全帖 |
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c*********r
发帖数: 1312 | 19 那我们俩说的不是同一个annotation。我主要是说的gene model annotation。
一个物种测了genome或者测了transcriptome，然后做个组装，预测的gene model和
coding sequence，然后把这些通过genome sequencing和RNA-seq测序得到的“
predicted” protein sequence提交到了uniprot里边，大多数应该是靠谱的，但是有
相当一部分是不靠谱的。对于人和老鼠这种genome和gene model研究都相对透彻的系统
来说，问题不大，但对于其他动物来说，很可能就是一个严重的问题。至少我PhD期间
做的三个gene的蛋白序列在uniprot里边都是fragmented或者干脆就是错的。。。这些
错误都源自最早的genome sequencing的质量太差，gene model annotation不好，接下
来的以这个genome作为reference RNA-seq或者MS都会有些问题。除非是做de novo
assembly绕过这个genome，或者重新做新的genome referen... 阅读全帖 |
|
w***7
发帖数: 1637 | 20 虽然广告上说要求三年经验，但负责找人的我那个朋友说fresh graduate 也行。
I will be happy to forward cv to him if any one is interested. send your cv
to my email: s*****[email protected]
or you can directly submit the application via link:
http://www.mountsinai.org/careers/career-pathways/research/bioi
belows are requirement:
Job Description:
The Bioinformatician I manages and organizes large databases, and conducts
statistical and genomic analysis. Uses software to gather, store, manipulate
and analyzes research data.
The Bioinfo... 阅读全帖 |
|
y*****l
发帖数: 5997 | 21 来自主题: _pennystock版 - HGSI Human Genome Sciences Incorporated
Human Genome (HGSI) is scheduled to report earnings on Tuesday after the
close of the session. Human Genome has one approved drug, which is the
highly watched Benlysta. Briefly put, Benlysta was approved in March in
conjunction with GlaxoSmithKline (GSK). The treatment is priced at a
whopping $35,000 per year. Because of this, Human Genome's stock has lost
some of its luster because investors are not expecting large sales from the
treatment. This opens up an op... 阅读全帖 |
|
v**********m
发帖数: 5516 | 22 这下热闹了。
四家律师楼一起来。这种诉讼原告有赢的先例吗？
The Law Firm of Levi & Korsinsky Notifies Investors With Losses on Their
Investment in Human Genome Sciences, Inc. of Class Action Lawsuit and
the
Deadline of January 10, 2012 to Seek a Lead Plaintiff Position
NEW YORK, NY--(Marketwire - Nov 16, 2011) - Levi & Korsinsky announces
that
a class action lawsuit has been commenced in the District Court of
Maryland
on behalf of purchasers of Human Genome Sciences, Inc. ("HGS" or the "
Company") (NASDAQ: HGSI) common stock... 阅读全帖 |
|
b********n
发帖数: 38600 | 23 http://www.breitbart.com/Breitbart-London/2014/05/19/science-an
POLITICAL CORRECTNESS MAKES RACE AND GENETICS TABOO IN THE WEST, WHICH IS
WHY CHINA IS WINNING
Most scientists will tell you that race has no biological basis—it is, in
academic-speak, a “social construct.” But a new book by distinguished
journalist Nicholas Wade challenges that assumption, concluding that race is
real and human social behaviour is subject to natural selection just like
everything else.
As the New York Review of Boo... 阅读全帖 |
|
w********2
发帖数: 632 | 24 Anomalous nucleotide composition
HGT inferred from anomalous nucleotide composition is based on the premise
that genomes evolve to species- specific values due to replication,
transcription and trans- lation biases, variations in nucleotide and amino
acid pools, and different DNA repair preferences. Thus, if codon usage, GC
content or oligonucleotide signatures differ significantly from the mean for
a given genome, then HGT may be invoked (Dufraigne et al., 2005; Hooper and
Berg, 2002; Kanaya et... 阅读全帖 |
|
w********2
发帖数: 632 | 25 HGT involving prokaryotes
Many studies support the significant role of HGT in the evolution of
prokaryotes (Gogarten et al., 2002; Jain et al., 2003; Kunin and Ouzounis,
2003). The principle sources of novel genes are provided by other prokary-
otes, viruses and MGEs (Fig. 1). In particular, plasmids and composite
mobile elements contribute significantly to HGT between prokaryotes. In some
cases, composite elements and megaplasmids are composed of more than 100
genes (Bentley et al., 2002; Hacke... 阅读全帖 |
|
w********2
发帖数: 632 | 26 HGT involving viruses
Viruses undergo frequent HGT but this is typically re- stricted to gene
exchange between viral genomes present in the same infection. Many viral
genomes have few genes (less than 10), which constrains the number and types
of genes that can be expected to increase or even maintain fitness.
Consequently, viruses with small genomes have been rarely reported to
contain non- virally derived genetic elements (Agranovsky et al., 1991;
Becker, 2000; Khatchikian et al., 1989; Masuta... 阅读全帖 |
|
w********2
发帖数: 632 | 27 Cellular competency (natural transformation) refers to the active uptake of
free (extracellular) DNA across the cell wall and cell membrane(s) using
cellular machinery designed to facilitate the process (Dubnau, 1999; Lorenz
and Wackernagel, 1994). It is a highly regulated physio- logical state that
is often sensitive to environmental cues (Molin and Tolker-Nielsen, 2003).
When the DNA is her- itably incorporated into the recipient’s genome, the
pro- cess is known as transformation.
Bacterial co... 阅读全帖 |
|
M*P
发帖数: 6456 | 28 A postdoctoral position is available in the research group of Dr. Ivan
Ovcharenko at the National Institutes of Health (NIH). Our current research
projects include computational studies of epigenetic and sequence-based
mechanisms of gene regulation. We are developing computational approaches to
decipher the regulatory landscape of the human genome. By combining next
generation sequencing data with a large body of experimental enhancer
characterization, our computational approaches target transcr... 阅读全帖 |
|
c*******u
发帖数: 12899 | 29 ☆─────────────────────────────────────☆
aprilxu (妞妞是个乖宝宝) 于 (Fri Mar 30 00:33:44 2012, 美东) 提到:
我已经很久很久不发帖了，自从我女儿确诊以后，我就再没有心思在网上发帖和回帖了
。这几天看了一些关于残疾孩子和流产的帖子，我忍不住想说几句我自己的经历，也算
是一种倾诉吧。
我女儿快三岁了，又漂亮又聪明，可是，她不会走路，而且永远也不会。她患有SMA (
Spinal Muscular Atrophy) 。这是一种genetic disorder，由于基因缺失身体无
法制造一种蛋白，严重影响她的运动神经元和所控制的肌肉，导致肌张力低下。SMA是
一种罕见病，发病率仅为万分之一，由于我和我老公都是携带者（我们都不知道，也没
有家族史），我们的孩子有四分之一的几率患病，我的女儿很不幸。
但是幸运的是，我的女儿不是最严重的情况。Type 1，也就是最严重的情况，孩子一般
不会活过两岁。我女儿属于type 2，医生没说能活多久，只是告诉我们，最终依靠仪器
，她也许能活到成年，能上college，但是... 阅读全帖 |
|
t*******r
发帖数: 22634 | 30 其实结果还是值得怀疑的。才研究了 “258 patients and 158
people without ASDs”，搞成这个样子也凑合了。还不知道
这 416 个人是不是 decode 了 full genome 还只是怀疑的
部分段。
要能达到实用的程度，我看得研究“258K patients and 158K people
without ASDs” 差不多。目前俺看到的最好的 complete human
genome decoding 的单价差不多是 5000 美刀到 10,000 美刀，
then do your math 。。。
Complete Genomics charges approximately US$10,000 to
sequence a complete human genome (less for large orders).
In May 2011, Illumina lowered its Full Genome Sequencing
service to US$5,000 per human genome.
factor |
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d******8
发帖数: 1972 | 31 Recent advances in whole-genome sequencing have brought the vision of
personal genomics and genomic medicine
closer to reality. However, current methods lack clinical accuracy and the
ability to describe the context (haplotypes) in
which genome variants co-occur in a cost-effective manner. Here we describe
a low-cost DNA sequencing and
haplotyping process, long fragment read (LFR) technology, which is similar
to sequencing long single DNA molecules
without cloning or separation of metaphase chro... 阅读全帖 |
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发帖数: 1 | 32 CRISPR, /ˈkrɪspər/, is a family of DNA sequences in bacteria
that contains snippets of DNA from viruses that have attacked the bacterium.
These snippets are used by the bacterium to detect and destroy DNA from
further attacks by similar viruses. These sequences play a key role in a
bacterial defence system,[2] and form the basis of a genome editing
technology known as CRISPR/Cas9 that allows permanent modification of genes
within organisms.[3]
The CRISPR/Cas system is a prokaryoti... 阅读全帖 |
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B******y
发帖数: 2255 | 33 俺说的是genome比较，这里面是有染色体多少的区别，基因次序的区别，包括和猩猩的
比较，都是测序后分段比较用算法来彼此分段match的。
UIUC首先完成的人猪比较并有下述报道：
http://www.aces.uiuc.edu/Discover/discover37.cfm
这上面说了人类的genome切成173片可以拼出一个猪的genome来， "Everything
matches up perfectly. The pig is genetically very close to humans."。
但俺没有找到更详细的文章，而且类似的研究后来都语焉不详。比如中国-丹麦的猪基
因研究在2005年测序66%后报道人猪非常接近后，也没有下文了。
俺还看到猪人genome相似度超过98%，大于人和chimpanzee的95%。但这个资料要找一找。
至于人和大猩猩：
http://www.ncbi.nlm.nih.gov/pubmed/12368483
讲了部分比较95%，区别大于人的估计。
后来，
The Chimpanzee Sequencing and Analysis Con... 阅读全帖 |
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d*****r
发帖数: 2583 | 34 ☆─────────────────────────────────────☆
timeonly (圆满) 于 (Thu Dec 23 15:28:05 2010, 美东) 提到:
发信人: desesperado (Estoy), 信区: Military
标 题: 方舟子谈蜂蜜：基本上是高浓度的糖
发信站: BBS 未名空间站 (Thu Dec 23 12:11:10 2010, 美东)
http://discover.news.163.com/10/1223/10/6OJ4ABLE000125LI.html
核心提示：方舟子认为用人工的方法，可以制造出一种与蜂蜜一模一样成分的东西。其实蜂蜜并不神秘，基本上就是高度浓缩的糖。蜂蜜除了水分，剩下的几乎都是各种各样的糖。蜂蜜的成分会有变化，但大同小异。
中青在线-中国青年报12月23日报道 什么是蜂蜜呢？这个问题似乎很简单，是蜜蜂采集花蜜酿造出来的甜味物质。蜜蜂把花蜜吸到它的第二个胃 ——“蜜胃”里面，在那里进行消化（让花蜜中的蔗糖大部分转化成果糖和葡萄糖），回到蜂巢吐出来，让水分蒸发、浓缩，这样，原来
含水分大约 80%）... 阅读全帖 |
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e*****t
发帖数: 642 | 35 lz可能刚刚接触genomics。
怎么可有把整个genome和另外一个genome做一次alignment？
genomic的核心就是找genome的不同：1.snp,2.del/insert; 3.structure variation (
CNV).这三个都有不同的软件可以用。
建议开始前先读读genomic的一些入门paper和书，其实开始不能着急，要慢慢看书，后
来上手了就快了。 |
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n*********4
发帖数: 99 | 36 Illumina Introduces the HiSeq 2500
Speed and Performance Enhancements Pave the Way to Future Clinical Use
Illumina ILMN +2.61% today introduced the HiSeq(R) 2500, a next-generation
sequencing system that will enable researchers and clinicians to sequence an
entire genome in approximately 24 hours, "Genome in a Day". The HiSeq 2500
leverages the continued technology advancements from both the HiSeq 2000 and
MiSeq(TM) platforms.
"The ability to sequence an entire genome in a day with the same high... 阅读全帖 |
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I***W
发帖数: 218 | 37 我是新手，完全不懂人类基因组的，所以愚蠢问题莫怪。
你所说的hg18 & 19是不是指更新的版本，其实是同一个genome，只是不同版本之间的
信息完整度有差别？那这个genome是纯的还是杂合的？我的意思是问这个genome的信息
是来源于一个个体还是多个个体？你说的中国（1%？）一开始就参与我有所耳闻，但参
与测序用的还是西方的样品吧，也就是白种人的genome？还是我理解有误？
就现在研究的结果而言，不同人种在genome上的差异大吗？我的意思是指有没有发现整
个基因的差别而不只是SNP差别而已（当然SNP是非常重要的，但在这里不是我想了解的
重点）？比如说有没有发现某个基因在黄种人里存在但不存在于白种人或黑人呢？
谢谢你的推荐，我回去看看这个Genome 1000。
project |
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s******l
发帖数: 125 | 38 1 Nature系列
Nature系列是赢家，Nature发表文章数逐年减少，又猛发cancer genomics papers，
会继续升。Nature Communications创刊以来争议不断，但第一个IF达到7，想知未来须
看历史，很多Nature子刊第一个都在6左右，包括Nature Methods, Nature Nano,
Nature Chem, Nat Physics，现在Nature Methods已达20，大多子刊在十几或20以上。
Nature Communications会继续升。因其发表数量多，但主攻小领域， 可能会抢很多
二线杂志 (在本专业内Top)papers， 因此未来几年可能下降的杂志有：PNAS, PLoS
Biol, Plant Cell, Gene Dev, Dev Cell, Curr Biol 等。Nature 搞了个类似 PLoS
One 的杂志叫 Scientific Reports。因没有在杂志加Nature，估计不能于PLoS One抗
衡。因PLoS系列曾被看好，PLoS One沾了大光，有些好paper被忽悠进去了。其IF不... 阅读全帖 |
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s******l
发帖数: 125 | 39 1 Nature系列
Nature系列是赢家，Nature发表文章数逐年减少，又猛发cancer genomics papers，
会继续升。Nature Communications创刊以来争议不断，但第一个IF达到7，想知未来须
看历史，很多Nature子刊第一个都在6左右，包括Nature Methods, Nature Nano,
Nature Chem, Nat Physics，现在Nature Methods已达20，大多子刊在十几或20以上。
Nature Communications会继续升。因其发表数量多，但主攻小领域， 可能会抢很多
二线杂志 (在本专业内Top)papers， 因此未来几年可能下降的杂志有：PNAS, PLoS
Biol, Plant Cell, Gene Dev, Dev Cell, Curr Biol 等。Nature 搞了个类似 PLoS
One 的杂志叫 Scientific Reports。因没有在杂志加Nature，估计不能于PLoS One抗
衡。因PLoS系列曾被看好，PLoS One沾了大光，有些好paper被忽悠进去了。其IF不... 阅读全帖 |
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l**********1
发帖数: 5204 | 40 RE LZ
even nematode pls try more genome browsers As U Could,
never trust only one Genome broswer for exons identifications.
pls refer
Other genome browsers
Ensembl Metazoa
UCSC
NCBI
WormBase
HTTP: //www.ensembl.org/Caenorhabditis_elegans/Location/Genome
original hint was from Facebook:
HTTPS : //www.facebook.com/EMBLEBI
or
HTTP: //www.ensembl.info/blog/2013/02/07/ensembl-genomes-release-17/?utm_
source=rss&utm_medium=rss&utm_campaign=ensembl-genomes-release-17 |
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s******9
发帖数: 283 | 41 人说：
"If this takes away from any of the R01s that would normally be funded by
the NIH, it would be bad. Right now the community is already so strapped we'
re at a breaking point."
called several of its technological proposals "science fiction"
...
http://www.sciencemag.org/content/339/6123/1022.full
Brain Project Draws Presidential Interest, but Mixed Reactions
Emily Underwood*
Shortly after President Barack Obama made a seemingly innocuous pitch for
more brain research in his State of the Union... 阅读全帖 |
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l**********1
发帖数: 5204 | 42 Pls check,
i) Trapnell C et al., (2012).
Differential gene and transcript expression analysis of RNA-seq experiments
with TopHat and Cufflinks.
Nat Protoc 7: 562–578.
ii) Li H et al., (2009).
The sequence alignment/Map format and SAMtools.
Bioinformatics 25: 2078–2079.
plus
Weikard R et al., (2013).
Identification of novel transcripts and noncoding RNAs in bovine skin by
deep next generation sequencing.
BMC Genomics. 14: 789. [Epub ahead of print]
>http://www.ncbi.nlm.nih.gov/pubmed/24225384
c... 阅读全帖 |
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m*****n
发帖数: 1 | 43 MS/PhD in Life Sciences (bioinformatics) UNLV Spring 2015
We are seeking motivated students who are excited to begin their study in
the newly developing field of bioinformatics. We study the genomes of fruit
flies, mosquitoes, mammals and humans to understand the biological signals
embedded in the DNA.
Potential projects include studying gene rearrangements using comparative
genomics of closely related species, or inferring genomic regions that are
sensitive to insertion/deletions in the human g... 阅读全帖 |
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t******k
发帖数: 5617 | 44 发信人: nextgenlab (ox), 信区: Biology
标 题: Genomics Position, Full-time, Opened in the Center for Genomics of
LLU, California
关键字: Lab technician,genomics,next-generartion sequencing,molecular
biology
发信站: BBS 未名空间站 (Mon Apr 6 13:57:45 2015, 美东)
There is a genomics wet-lab full-time position opened in the Center for
Genomics at Loma Linda University, CA. This position, supported by hard
money, has a great potential of future career development with excellent
benefits including full medical insuran... 阅读全帖 |
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r**********e
发帖数: 587 | 45 TFBS在ENCODE project里面已经做烂了
http://www.nature.com/encode/#/threads
如果你关注的是纯计算TFBS prediction，我觉得已经很准确了。如果没记错，ENCODE
用的是MACS这个软件
https://github.com/taoliu/MACS
但是坦白说从纯biology角度，现在大家完全不满足于binding site；
1. Binding doesn't mean function! 好文章现在都要求证明binding后是否调控了
gene expression change
2. 蛋白-DNA和蛋白-蛋白作用非常复杂，所以很多ChIP实验本身就值得质疑，很多猫腻
3. ENCODE project当年豪言说根据他们的研究human genome 80%都有function，当时
受到了批评和质疑
你去看UCSC genome browser里面，一个位点可能有几十个TF在bind；你从单个TF
binding很难预测说，一旦XX TF bind后会有什么作用
对于noncoding human genome... 阅读全帖 |
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l*****7
发帖数: 8463 | 46 http://www.nature.com/news/the-unsung-heroes-of-crispr-1.20272?WT.mc_id=TWT_NatureNews
The unsung heroes of CRISPR
The soaring popularity of gene editing has made celebrities of the principal
investigators who pioneered the field — but their graduate students and
postdocs are often overlooked.
Heidi Ledford20 July 2016
When Blake Wiedenheft started studying microbes, his work was both remote
and obscure.
He spent his PhD sampling hot springs in Yellowstone National Park, then
created artificial ... 阅读全帖 |
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发帖数: 1 | 47 9月28日Joe Miano
Most of you have already moved on from this discussion but I wanted to chime
in one last time with our negative data in the mouse. Whether we used
original plasmid or a custom NgAgo that was codon-optimized for mouse with
untranslated sequences, a Kozak Methionine, and polyA tail the results were
uniformly negative. We used a 5' phosphorylated ssDNA (both IDT bought or
in vitro phosphorylated) along with the mRNA to codon-optimized NgAgo and an
HDR template we used successfully ... 阅读全帖 |
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f**********g
发帖数: 2252 | 48 来自主题: _pennystock版 - HGSI Piper Jaffrary Believes Now May Be Good Time for GSK to Acquire Human Genome
(GSK)
3 minutes ago - F70 via Comtex
Financial News Network Online - News CornerPiper Jaffray believes now be a
good time for GlaxoSmithKline (NYSE:GSK) to acquire Human Genome (NASDAQ:
HGSI) given the pullback in Human Genome shares.
Piper notes in addition to Benlysta, Human Genome and GSK collaborate on
Syncria for diabetes and darapladib for cardiovascular disease; two Phase
III assets Piper believes are not being v... 阅读全帖 |
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v**********m
发帖数: 5516 | 49 烟幕弹又来了，不知MM能拉到什么价位。
GlaxoSmithKline (GSK) And Biogen Idec (BIIB) Possible Candidates To Acquire
Human Genome Sciences (HGSI), Says Senior Analyst At Piper Jaffray; Read
More About This Prospect And Others In The Biotech Space In This Exclusive
Interview
November 21, 2011 - The Wall Street Transcript has just published
Biotechnology and Pharmaceuticals Report offering a timely review of the
Biotechnology sector. This Special Report contains expert industry
commentary through in-depth interviews w... 阅读全帖 |
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