□ Particle Physicists Report 'Intriguing Hints' of Higgs Boson
>> http://www.insidescience.org/current-affairs/1-2389
Long-sought particle not conclusively detected yet, but researchers may have found its hiding place.
Giannoti reported that her team's data suggests that the most likely mass region for the Higgs lies between about 116-130 gigaelectron volts, or GeV, which corresponds very roughly to 116-130 times the mass of the hydrogen atom.
She reported an excess of collision events at around 126 GeV, but could not conclusively declare a discovery. Guido Tonelli, spokesperson for the CMS experiment, also reported what he called "intriguing, tantalizing hints" of the particle. His team reported a most likely mass range for the Higgs at between 115-127 GeV, with their results most compatible with a mass of 124 GeV. Both teams do not have enough statistics to declare a discovery.
Together, these two groups have independently found intriguing collision events between 124 and 126 GeV, suggesting that the Higgs may have been produced at the LHC.
"Higgs might be there."
しかしギリギリな領域だったHiggs。114GeV/c^2以下はLEP実験で既に除外されているし、2年前はフェルミラボのテバトロン実験で160未満だとされていた。LHCはもともとlower massを想定して設計されていないから、悲観的な予測が蔓延していたんだよね。会見終わりでも結構懐疑的な質問があったけれど"Higher consistancy"で乗り切った。
「（ヒッグス粒子を覗く為の）窓は狭く狭くなりつつある」っていう表現があったけれど、もう検出出来るチャンネルもほぼ目星をつけていて、予想通りだけど、2012年度予算はお願いしますよ的なパフォーマンス感も犇々。
□ CERN:
CERN press release: ATLAS and CMS experiments present Higgs search status ow.ly/7XQ8v
□ FQXi:
ATLAS overall result: 3.6σ @ 126GeV (Higgs→γγ result: 2.8σ @ 126GeV Higgs→ZZ* result: 2.1σ @ 126GeV Higgs→WW* result: 1.4σ
□ REasther:
The Englert-Brout-Higgs-Guralnik-Hagen-Kibble mechanism - or why scientific priority arguments are hard to fit into 140 characters...
□ sarahbadr:
GRID ? interactive multi-touch music visualisation app for live events, built with processing & openFrameworks: is.gd/G5NFjo
□ Cognitive Computing: When Computers Become Brains - Forbes http://shar.es/o9Vvh
The team recently built a smaller hardware version of the brain simulation, one with just 256 neurons, 262,000 programmable synapses, and 65,000 learning synapses. The good news is that this machine runs at within an order of magnitude of the power that a real brain consumes.
□ nutrigenomics:
Meta-analysis of GWAS => 8 new loci for type 2 diabetes in east Asians | Nature Genetics goo.gl/zsEho
□ GWASへの批判は、多重検定など技術的課題はともかく、それを扱う研究者のアップデートを怠った方法論を判別すべき。(マーカーが高コストという事情も) common variant-common diseaseにも疑問が呈されている今こそ、GWASで齎される有益性と役割を区別したい
GWASに用られるSNP、CNV検出のDNAチップ市場が、Affymetrix社とIllumina社で寡占状態にあるという事情もあるけど(シーケンス市場でも同じ)、だからこそ、より安価な競合商品を供給しようという動きがあって、
日本もハードでは遅れを取っている為、独自水準を売り込んでいかないと生き残れない時代。特に今後世界的に拡大すると見られる受託解析の市場においてシェアを勝ち取る戦略が必要
□ 昨年の300億ドルに及ぶ資金投入といい、NIHの散撒きすげーな。奴ら本気だ / NIH puts up $460 Million for pushing genome-sequencing into mainstream medicine nature.com/news/funds-ded…
米・会計検査院からもNIHに対し、民間研究助成・雇用サポートの名目で82億ドルの予算強化にGO. こういう屋台骨が日本も欲しい / GAO says health funding in stimulus has created jobs
thehill.com/blogs/healthwa…
□ sociallifeofdna:
Most Reported Genetic Associations with General Intelligence Are Probably False Positives sns.mx/R6hGy2
and we used SNP-based relatedness calculations to replicate estimates that about half of the variance in g is accounted for by common genetic variation among individuals.We conclude that different approaches than candidate genes are needed in the molecular genetics of psychology and social science.
一般的知能と行動特性の遺伝的関連の報告の多くは偽陽性を示している？SNPベースの候補遺伝子特定において、形質遺伝の知能への有意な影響範囲はどこまで計量可能？
□ MiRaGE法：ES細胞分化段階のmiRNA遺伝子制御の推論 Inference of Gene Regulation: miRNAs During ES Cell Differentiation Using MiRaGE Method http://t.co/9z0KgdEH
□ SAGRudd:
Identifying small interfering RNA loci from high-throughput sequencing data = #awesome #Rstats tools for #miRNA #siRNA bioinformatics.oxfordjournals.org/content/early/…
High-throughput sequencing of small RNA populations allows the locations of the double-stranded RNA precursors to be inferred. We have developed methods to analyse small RNA sequencing data from mutliple biological sources, taking into account replicate information, to identify robust sets of siRNA precursors. Our methods show good performance on both a set of small RNA sequencing data in Arabidopsis thaliana and simulated data sets.
□ Open Access for the other 85%
>> http://cameronneylon.net/blog/open-access-for-the-other-85/
アフリカ・ケープタウンにみるオープンアクセス事業の教訓: 著作料金の合理的な支払い、インフラ整備におけるチャリティとビジネスモデル、伝統的な奨学金制度との併合。
The creation of a “special OA” for the developing world runs the risk of perpetuating a view in which 85% of the world will always be catching up. Yes we need to try and build systems that ensure access to all scholarship, primary and derived.
How to do that is an important debate, and one I hope will be at the centre of the Berlin10 conference to be held in Stellenbosch in South Africa next year. To not use that meeting to address the issues and challenges of business models and safeguards that help preserve access and optimise impact for the developing world would be a terrible loss.
□ gilbertjacka:
“@jcammm: Bacterial species may exist, metagenomics reveal onlinelibrary.wiley.com/doi/10.1111/j.…” love it! Actually interesting paper.
Bacterial species may exist, metagenomics reveal
メタゲノム調査が明らかにした、自然界における細菌種生態圏の存在の可能性。サンプリングされたシーケンス離散集団から、WGSによってヌクレオチド同一性を確認。
Whether or not bacterial species exist remains an unresolved issue of paramount theoretical as well as practical consequences. Here we review and synthesize the findings emerging from metagenomic surveys of natural microbial populations and argue that microbial communities are predominantly organized in genetically and ecologically discernible populations, which possess the attributes expected for species.
These sequence-discrete populations represent a major foundation for beginning high-resolution investigations on how populations are organized, interact, and evolve within communities. We also attempt to reconcile these findings with those of previous studies that reported indiscrete species and a genetic continuum within bacterial taxa and discuss the implications for the current bacterial species definition.
□ RAREproject:
RARE DISEASE RESEARCH ? Center for Applied Genomics dlvr.it/1020xX
□ CellCellPress:
New ChIP-Seq approach reveals genome-wide binding sites of transcription factors at single-nucleotide resolution bit.ly/rHe4Vp
□ ayrrisbio:
MedSeq project planning Whole genome data to be used in clinical reports for physicians bit.ly/rKxjUk /via @Thinkgenome
MedSeq(医療シーケシング) ゲノム解析と臨床レポートをインフォマティクスで繋ぐ 。
NHGRIから4年間で960万ドルの助成金。
Brigham and Women's Hospital awarded $9.6 million to study whole genome sequencing
"One of the most controversial issues the study team will face is whether to look for and whether to report 'incidental' genetic findings or mutations that suggest previously unsuspected genetic predisposition to cancer, heart disease or other conditions that are found in otherwise healthy individuals," Green said. "Reporting too many incidental results could generate unnecessary and costly medical tests, while reporting too few could deprive patients and doctors of valuable risk information."
昨日のGWASの多重検定の話にも通じるけど、臨床とのパイプにおいて、疾患の素因となる遺伝学的所見や変異の偶発性をソートする技術論の確立も急務。
□ BiologyMag:
Whole Genome Sequencing For Quantifying Germline Mutation Frequency In Humans And Model Species: Cautious Optimism dlvr.it/102Mrh
□ genome_gov:
Check out African scientists' recommendations for the ethical conduct of genomic research in Africa. qoo.ly/pwa
ナイジェリアで開催されたアフリカ大陸におけるゲノム研究の倫理会議:
サンプル輸出によるバイオレポジトリ開発等
African researchers weigh in on ethics of genomic research on African continent
Nov. 28-29, 2011, in Abuja, Nigeria
The landmark meeting was sponsored by Ethics and Genomics Research in Africa (EAGER-Africa) (http://eager-africa.com), part of the Human Heredity and Health in Africa (H3Africa) program. NIH and the Wellcome Trust, a global charity based in London, formed H3Africa in 2010 with input from the African Society of Human Genetics.
The goal is to improve African scientists' capacity to solve some of their country's health problems through research on the genomic and environmental causes of common diseases. The National Human Genome Research Institute (NHGRI) administers H3Africa on behalf of the NIH Common Fund.
□ Information Routing Driven by Background Chatter in a Signaling Network ploscompbiol.org/article/info%3…
生体システムの情報ネットワーク。細胞シグナルのノードダイナミクス制御と背景チャタリング
□ A "fractal-like pattern" found in nucleotide frequencies across genomes
Chargaff’s “Grammar of Biology”: New Fractal-like Rules
>> http://arxiv.org/pdf/1112.1528v1
DNAの『文法』に見るヌクレオチド頻度のフラクタル性
For instance, recently, the new high-throughput DNA sequencing technologies have produced a huge amount of short read data, and it is known (Hansen et al., 2010) that these data might be biased for unknown reasons. In some studies, it is necessary a reference-free validation of short read data, and novel methodologies have already been proposed (Schroder et al., 2011) to address this problem.
□ NewsInChemistry:
When will artificial molecular machines start working for us? ow.ly/1g6v8D
□ Symbiologica:
Host-Microbe Interactions on @scoopit bit.ly/slVcXJ
□ phylogenomics:
Information Sharing and Collaboration: Applications to Integrated Biosurveillance - Workshop Summary shar.es/o9RfU
□ Bioweapon-Convention-Report about last fridays meetings/pdf-Objekt) http://bit.ly/vZ8fD2
The Seventh Review Conference of the 1972 Biological and Toxin Weapons Convention (BWC/BTWC)
>> http://www.opbw.org/
Article VII deals with the provision of ‘assistance’ by States Parties if a State Party is ‘exposed to danger’ because of a breach of the Convention. It was noted that neither ‘assistance’ nor ‘exposed to danger’ had been clarified by any Review Conference.
Some states indicated that Article VII should be regarded as a sub-set of the Article X issues while others indicated they were a distinct set of issues ? no government is likely to have at its disposal the resources to respond to a severe biological attack and so the concept of receiving assistance applies to developed as well as developing countries.
生物・毒素兵器禁止条約に関する第七検討会議の模様：締約国の援助についての起草の課題：廃棄資源への対応：生物学的デュアルユース技術の国際取引監視の為の軍備管理の草稿盛込みも歩み遅し。
□ fungalgenomes:
Report on the One Fungus, One Name Symposium (1F=1N) in IMA Fungus imafungus.org/Issue/4/03.pdf
□ PacBio:
Read new content on our website re: PacBio Applications in De Novo Assembly, Targeted Sequencing, Base Modifications pacb.com/applications/d…
□ The 34th Annual Meeting of the MBSJ (第34回日本分子生物学会年会) → #mbsj2011
>> http://www.mbsj.jp/
□ ogishima:
GenoDiveの共同開発者の西村邦裕さんが分子生物学会のポスター発表を第1日目 1P-0896 でなされています
・genoDive
genoDive: DAS (Distributed Annotation System) client for viewing the eukaryotic genome
>> http://genodive.org/
□ Useful and useless databases
役に立つデータベース、役に立たないデータベース
In this workshop, we would like to discuss and manifest for new challenges on biological databases in terms of their effective developments and research applications from various viewpoints, which lead us to the ideal next generation databases.
□ Human Gene and Protein Database (HGPD) t.co/7XxmQL94
Human Gene and Protein Database (HGPD) presents SDS-PAGE patterns and other informations of human genes and proteins.
□ synobu:
五條堀先生 / 問: 今後のデータベース設計のビジョンは？ 答: 置かれている対象物の環境や時系列が大切になる. #2w4ii #mbsj2011
Data quality and relational (multi-) information. データの質とリンク情報が重要. 核酸と臨床情報のリンクがコンパニオン診断の開発には重要になる. / 的場先生（(株) DNAチップ研）#2w4ii #MBSJ2011
Databases for metagenomics of unexplored fields
メタゲノム解析にとって, NCBIのメタゲノムデータ生物種情報がカオスなのが問題. Uncultured Bacterium, Uncultured organismなど, 生物種の情報として意味をなさないエントリが多い / 中村先生（阪大
解析にはキュレーションされたデータベースを使うことが重要である. silva (http://www.arb-silva.de/) curatedな16S rRNAデータベース
□ YusukeKomiyama:
今週の「人工知能学会25周年合同研究会・シンポジウム」は研究会ごとにハッシュタグがあり一覧表示できるサイトがある. 大規模学会の年会は全部こうなればいいのに bit.ly/tpTuEn
□ 第26回セマンティックウェブとオントロジー研究会 → #sig_swo
（人工知能学会 創立25周年記念 合同研究会・シンポジウム）
>> http://sigswo.org/A1103_program.htm
□ wintermelon:
BioLODにはBroadly INtegrated Ontological Linked Open Data と Biological Linked Open Data)の2つの意味があるらしい。初めて知った。 #sig_swo
多種多様な生命科学系DB群を上位オントロジーを用いて生物種横断的に統合。理研哺乳類ゲノム総合DB，理研植物フェノーム統合DB，理研タンパク質実験・構造統合DB，生物医学関連および上位オントロジーなど。
スキーマ定義はどうするのか？OWL意味論に従って矛盾をゼロにするのは難しい。WordNetは構造はRDFだけどオントロジーは定義しない。クラス定義はなくてすべてインスタンス。(WordNet日本語化へのLODアプローチ)
□ A Proposal of Multi-Level-Expansion Search for Advanced Use of Ontology:
オントロジー高度利用のための 多段階展開型検索手法の提案
>> http://sigswo.org/papers/SIG-SWO-A1103/SIG-SWO-A1103-07.pdf
こうして複数学会にまたがったタイムラインを並列参照していると、やはりiPadはモニタリングデバイスとしてコンパクトで優秀過ぎると再認識する。tags I'm following - #sig_swo, #sig_docmas, #MBSJ2011.
□ n0rr:
中国人と日本人はGWASできれいにわかれる（緑中青日） twitpic.com/7s7za7 源 bit.ly/oGKWUI 欧米人はもっと遠くに分かれる。日本人のゲノムに基づいた研究が欧米人に強い興味をもって評価されるんだろうか
□
n0rr:
ロシア全土に反政府デモ拡大、ソ連崩壊後で最大規模 | Reuters jp.reuters.com/article/topNew…
□ yag_ays:
rubyやばい http://speakerdeck.com/u/tomstuart/p/programming-with-nothing
Now browsing: "Programming With Nothing" experthuman.com/programming-wi…
□ elsevierjp:
脂質代謝のアプリLipid Structures (beta) 、LIPID MAPS開発。SciVerse ScienceDirectの論文から脂質名や同義語をひろい、構造式や分子、InChIKeyなどの情報を表示する ow.ly/7W3DE
□ elsevierjp: Why animals respond to the full moon: Magnetic hypothesis
RT @isobehiroaki
「なぜ動物は満月に反応するか？磁気的仮説」 sciencedirect.com/science/articl… 月齢に伴う地磁気変動と、ある種の動物の磁気センサーの感度は光量に依存するため、満月の光によって磁気に対する感度が上がることの2つの効果が合わさって生じる..
□ EurekAlertAAAS:
Alcohol can lead to unsafe sex : It's official : eurekalert.org/e/4Jph
□ ki2mi2:
野鳥の鳴き声版であれば、ございます(^^; 『ききみみずきん for iPhone』http://t.co/xrjc3meDRT @razoralign: Leafsnapの鳥版はやく
xenocanto等の既存DBでなく、独自のオープンデータ構想も魅力。
□ 『Open Data Platform』の語句の意味が、業界によって全く異なる雰囲気が面白い。海外では社会インフラの為のLinked Data、Open Governmentの動向を示すものとして用いられ、日本じゃマーケティング技術としてしか知られてない空気。