Primary Citation PubMed: 22373916
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Structural and functional characterization of interactions involving the Tfb1 subunit of TFIIH and the NER factor Rad2.
(2012) Nucleic Acids Res 40
PubMed: 22373916 | PubMedCentral: PMC3384317 | DOI: 10.1093/nar/gks194
( a–c ) Ribbon diagrams of the lowest energy structures of the Rad2 642–690 –Tfb1PH (a; PDB code 2LOX), the p53TAD2–Tfb1PH (b; PDB code 2GS0) and the TFIIEαCTD&... x02013;p62PH (c; PDB code 2RNR) complexes.
ACCESSION NUMBER 2LOX.
The structure of the Rad2 642–690 –Tfb1PH complex (PDB code 2LOX) is well defined by the NMR data ( Table 1 ).
( a ) Stereo view of the 20 lowest-energy structures of the complex between Tfb1PH (blue) and Rad2 642–690 (yellow; PDB code 2LOX).
Publication Year: 2012
Reprogramming resistant genes: in-depth comparison of gene expressions among iPS, ES, and somatic cells.
(2013) Front Physiol 4
PubMed: 23386832 | PubMedCentral: PMC3558704 | DOI: 10.3389/fphys.2013.00007
Materials and methods Transcriptome data processing In this study we compared transcriptional profiles from 13 iPS cell lines from 8 published reports hiPS1_8 (Masaki et al., 2008 ) hiPS2_4 (Masaki et... al., 2008 ), hiPS3_2 (Masaki et al., 2008 ), BJiPS12 (Maherali et al., 2008 ), p-iPS01 (Kim et al., 2009 ), rv-iPS01 (Kim et al., 2009 ), iPS-PDB-1lox (Soldner et al., 2009 ), iPS-PDB-2lox (Soldner et al., 2009 ), Hips7 (Lowry et al., 2008 ), hiPSC2 (Lowry et al., 2008 ), hiPS20B1 (Takahashi et al., 2007 ), hAFF-(4PU)-iPS9 (Zhao et al., 2008 ), KiPS4F2 (Aasen et al., 2008 ).
We have following cell lines: 2 virus-free cell lines, such as p-iPS01 (249 genes), iPS-PDB-lox1 (242 genes); 8 retrovirus cell lines, such as, hiPS3_2 (673 genes), hiPS2_4 (478genes), hiPS1_8 (440 genes), hiPS20B1 (112 genes), Hips7 (519 genes), hiPSC2 (469 genes), rv-iPS01 (185 genes), KiPS4F2 (506 genes), and 3 lentivirus cell lines, such as BJiPS12 (62 genes), hAFF-4PU-iPS9 (134 genes), and iPS-PDB-2lox (157 genes).
The lowest number of down-regulated RRGs was found in following iPSC lines: BJiPS12 (62 genes), hiPS20B1 (112 genes), hAFF-4PU-iPS9 (134 genes), and iPS-PDB-2lox (157 genes), where last three cell lines are derived through the lentiviral transduction.
Cre-recombinase excisable virus induced cell line iPS-PDB-lox1 (242 genes) and virus-free cell p-iPS01 (249 genes) had comparatively low number of down-regulated genes, but still higher than lentivirus induced cells BJiPS12 (62 genes), hAFF-4PU-iPS9 (134 genes), and iPS-PDB-2lox (157 genes) (Figure 3 ).
Publication Year: 2013
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