Monday, July 28, 2014

日経バイオテクからのコピペ

上記サイトを一部コピペ。
良い評判をコピペするのはフェアじゃないかもしれないけど、コピペ。先人たちのご努力はたいへんなものであったと聴く。

(以下コピペ)さて、リスク管理といえばバイオテクノロジーにおいても重要です。医薬品医療機器
総合機構(PMDA)は患者のリスクとベネフィットのバランスを検証する新薬開発や新医療
機器開発のゲートキーパーであります。皆さんの頭の中には、PMDAの官僚的な審査によっ
てわが国の医療イノベーションの足を引っ張る、ドラッグラグの元凶というイメージが
まだ残存しているかも知れませんが、PMDAは急速に変貌しました。何と2013年度は審査
機関の中央値で米国食品医薬品局(FDA)に追いつき、審査ラグ0年、企業が申請する期間
の差(開発ラグ)も0.3年(中央値は0年)を記録しました。医療機器の審査はなお努力が
必要ですが、今や欧州医薬庁(EMA)を追い越し、FDAに迫る世界水準の審査機構にPMDAは
変わりました。そして、今年から始まる5カ年計画では世界最高の審査基盤形成に着手
しました。キャッチアップから、攻めの審査体制へと変わったのです。厚労省も日本で
POCを取った画期的新薬の新たな加速審査制度「先駆けパッケージ」を来年度から始動
いたします。今や日本は画期的な新薬や再生医療用品の開発に最も適した国になったので
す。これでも新薬開発が進まないのなら、製薬企業やアカデミアの責任以外何者でもあり
ません。PMDAの本気は信じるに価します。


Saturday, July 19, 2014

Open Teratoma Investigation: OpenTein

Nakai and Park assenbled a database.

Yes, this is "Image database of human pluripotent cell-derived teratoma" by Nakai and Park.

http://opentein.hgc.jp/credits.php

Detailed information of the data
http://blogs.yahoo.co.jp/akihiroumezawa/35017898.html

About Us

OpenTein Collaborators
Human Genome Center, The Institute of Medical Science, The University of Tokyo
  Sung-Joon Park
  Yusuke Komiyama
  Mihoko Adachi
  Emi Ikeda
  Kenta Nakai
Department of Reproductive Biology, National Center for Child Health and Development
  Natsumi Homma
  Akihiro Umezawa
Laboratory of embryonic stem cell resarch, Institute for Frontier Medical Sciences, Kyoto Univ
  Hirofumi Suemori
Supporters
  HGC Supercompuer
Funding
Research on Regenerative Medicine for Clinical Application, Health and Labour Sciences Research Grants, Japan


Monday, June 30, 2014

9-15c long database MSC データベース 発現 ncbi

http://www.ncbi.nlm.nih.gov/UniGene/library.cgi?ORG=Mm&LID=14560

NIA Mouse Mesenchymal Stem Cell cDNA Library (Long 1)

Library Description

Organism:Mus musculus
Strain:C3H/He mice
Developmental stage:9-15C cells
Vector:pCMV-SPORT6 (Invitrogen)
Vector type:plasmid (ampicillin resistant)
Cloning site 1:SalI
Cloning site 2:NotI
Lab host:DH10B
Mouse cDNA project by the Laboratory of Genetics, National Institute on Aging (NIA), Intramural Research Program, NIH (http://lgsun.grc.nia.nih.gov/cDNA). This is a long-transcript enriched cDNA library (Ref. Genome Res. 11: 1553-1558 (2001). [PMID: 11544199]). Total RNAs were obtained from Dr. Akihiro Umezawa (Keio University School of Medicine, Japan). Double-stranded cDNAs were synthesized with an Oligo(dT) primer [Invitrogen: 5'-pGACTAGTTCTAGATCGCGAGCGGCCGCCCTTTTTTTTTTTTTTT-3'] from 2.2 ug of total RNA, treated with T4 DNA polymerase, and purified by ethanol-precipitation. The cDNAs were ligated to Lone-linker LL-Sal4, purified by phenol/chloroform, and separated from free linkers by Centricon 100. Then, the cDNAs were amplified by long-range high fidelity PCR using Ex Taq polymerase (Takara) with a primer Sal4-S. The products were purified by phenol/chloroform and Centricon 100. The cDNAs were digested with SalI and NotI enzymes and cloned into SalI/NotI site of pCMV-SPORT6 plasmid vector. The DH10B E. coli host was transformed with the ligation mixture by the standard chemical method. The average insert size is about 2.5 kb. The library was constructed by Yulan Piao.
Source: Dawood B. Dudekula, National Institute on Aging/National Institutes of Health

Gene Content Analysis

3,545 ESTs from this library were grouped into 1,741 UniGene entries (putative genes) [UniGene build #194, 25-Jan-2013]. EST counts for each entry may be used to calculate an approximate expression level in transcripts per million (TPM).
ESTsTPM UniGene Entry

318745
Mm.360075Eukaryotic translation elongation factor 1 alpha 1.
287898
Mm.277792Collagen, type I, alpha 2.
277616
Mm.326799Eukaryotic translation elongation factor 2.
226206
Mm.335315Eukaryotic translation elongation factor 1 alpha 1.
215924
Mm.379939Transcribed locus, strongly similar to NP_989488.2 EEF1A1 gene product [Gallus gallus].
205642
Mm.268000Vimentin.
195360
Mm.87773Heat shock protein 90, beta (Grp94), member 1.
164513
Mm.40828Sequestosome 1.
154231
Mm.289915Damage specific DNA binding protein 1.
143949
Mm.238973ATP synthase, H+ transporting mitochondrial F1 complex, beta subunit.
143949
Mm.185453Eukaryotic translation initiation factor 4, gamma 2.
133667
Mm.412745Transcribed locus, strongly similar to NP_990334.1 HSPA8 gene product [Gallus gallus].
123385
Mm.419997Ubiquitin C.
123385
Mm.290774Heat shock protein 8.
123385
Mm.282751Anillin, actin binding protein.
123385
Mm.2608Biglycan.
113103
Mm.290022Eukaryotic translation initiation factor 4B.
113103
Mm.10299Collagen, type V, alpha 2.
102821
Mm.70666Enolase 1, alpha non-neuron.
102821
Mm.330160Heat shock protein 5.
102821
Mm.326167Pyruvate kinase, muscle.
102821
Mm.243014Lamin A.
102821
Mm.182746Myotrophin.
92539
Mm.485384Nucleophosmin 1.
92539
Mm.34674Myoferlin.
92539
Mm.277735Collagen, type I, alpha 1.
92539
Mm.25610Ubiquitin associated protein 2-like.
92539
Mm.248360Annexin A1.
92539
Mm.243234Proteasome (prosome, macropain) 26S subunit, non-ATPase, 2.
82257
Mm.88212Tubulin, alpha 1C.
82257
Mm.379129Eukaryotic translation elongation factor 1 gamma.
82257
Mm.291442Secreted acidic cysteine rich glycoprotein.
82257
Mm.265610Polypyrimidine tract binding protein 1.
82257
Mm.255066Scaffold attachment factor B.
82257
Mm.247788Chaperonin containing Tcp1, subunit 2 (beta).
82257
Mm.2180Heat shock protein 90 alpha (cytosolic), class B member 1.
82257
Mm.123110Spectrin beta, non-erythrocytic 1.
71975
Mm.46754Solute carrier family 38, member 2.
71975
Mm.391967Actin, beta.
71975
Mm.371545Ribosomal protein, large, P0.
71975
Mm.329655Cofilin 1, non-muscle.
71975
Mm.30012High density lipoprotein (HDL) binding protein.
71975
Mm.289936Phosphoserine aminotransferase 1.
71975
Mm.28173Methionine-tRNA synthetase.
71975
Mm.27955Eukaryotic translation initiation factor 4H.
71975
Mm.273538Tubulin, beta 5 class I.
71975
Mm.250214Antizyme inhibitor 1.
71975
Mm.240830Disabled 2, mitogen-responsive phosphoprotein.
71975
Mm.212395Retinoic acid induced 14.
71975
Mm.168983-phosphoglycerate dehydrogenase.
61693
Mm.428652Septin 2.
61693
Mm.4237Topoisomerase (DNA) II alpha.
61693
Mm.392075Calumenin.
61693
Mm.378921Gap junction protein, alpha 1.
61693
Mm.371570Poly(A) binding protein, cytoplasmic 1.
61693
Mm.295533Filamin, alpha.
61693
Mm.289662DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3, X-linked.
61693
Mm.28777Plastin 3 (T-isoform).
61693
Mm.279923Neural precursor cell expressed, developmentally down-regulated 4.
61693
Mm.27578Melanoma antigen, family D, 1.
61693
Mm.27218Mortality factor 4 like 2.
61693
Mm.260760SH3-binding domain glutamic acid-rich protein like.
61693
Mm.255723Muscleblind-like 1 (Drosophi