Screening ethnically diverse human embryonic stem cells identifies a chromosome 20 minimal amplicon conferring growth advantage
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AMPS, Katherine; Peter W. ANDREWS; George ANYFANTIS; Lyle ARMSTRONG; Stuart AVERY; Hossein BAHARVAND; Julie BAKER; Duncan BAKER; Maria B. MUNOZ; Stephen BEIL; Nissim BENVENISTY; Dalit BEN-YOSEF; Juan-Carlos BIANCOTTI; Alexis BOSMAN; Romulo Martin BRENA; Daniel BRISON; Gunilla CAISANDER; Maria V. CAMARASA; Jieming CHEN; Eric CHIAO; Young Min CHOI; Andre B. H. CHOO; Daniel COLLINS; Alan COLMAN; Jeremy M. CROOK; George Q. DALEY; Anne DALTON; Paul A. DE SOUSA; Chris DENNING; Janet DOWNIE; Petr DVOŘÁK; Karen D. MONTGOMERY; Anis FEKI; Angela FORD; Victoria FOX; Ana M. FRAGA; Tzvia FRUMKIN; Lin GE; Paul J. GOKHALE; Tamar GOLAN-LEV; Hamid GOURABI; Michal GROPP; Guangxiu LU; Aleš HAMPL; Katie HARRON; Lyn HEALY; Wishva HERATH; Frida HOLM; Outi HOVATTA; Johan HYLLNER; Maneesha S. INAMDAR; Astrid Kresentia IRWANTO; Tetsuya ISHII; Marisa JACONI; Ying JIN; Susan KIMBER; Sergey KISELEV; Barbara B. KNOWLES; Oded KOPPER; Valeri KUKHARENKO; Anver KULIEV; Maria A. LAGARKOVA; Peter W. LAIRD; Majlinda LAKO; Andrew L. LASLETT; Neta LAVON; Dong Ryul LEE; Jeoung Eun LEE; Chunliang LI; Linda S. LIM; Tenneille E. LUDWIG; Yu MA; Edna MALTBY; Ileana MATEIZEL; Yoav MAYSHAR; Maria MILEIKOVSKY; Stephen L. MINGER; Takamichi MIYAZAKI; Shin Yong MOON; Harry MOORE; Christine MUMMERY; Andras NAGY; Norio NAKATSUJI; Kavita NARWANI; Steve K. W. OH; Sun Kyung OH; Cia OLSON; Timo OTONKOSKI; Fei PAN; In-Hyun PARK; Steve PELLS; Martin F. PERA; Lygia V. PEREIRA; Ouyang QI; Grace Selva RAJ; Benjamin REUBINOFF; Alan ROBINS; Paul ROBSON; Janet ROSSANT; Ghasem H. SALEKDEH; Claudia SPITS; Thomas C. SCHULZ; Karen SERMON; Jameelah Sheik MOHAMED; Hui SHEN; Eric SHERRER; Kuldip SIDHU; Shirani SIVARAJAH; Heli SKOTTMAN; G. STACEY; R. STREHL; N. STRELCHENKO; H. SUEMORI; B. SUN; R. SUURONEN; K. TAKAHASHI; T. TUURI; P. VENU; Y. VERLINSKY; D. WARD-VAN OOSTWAARD; D. WEISENBERGER; Y. WU; S. YAMANAKA; L. YOUNG a Q. ZHOU
The International Stem Cell Initiative analyzed 125 human embryonic stem (ES) cell lines and 11 induced pluripotent stem (iPS) cell lines, from 38 laboratories worldwide, for genetic changes occurring during culture. Most lines were analyzed at an early and late passage. Single-nucleotide polymorphism (SNP) analysis revealed that they included representatives of most major ethnic groups. Most lines remained karyotypically normal, but there was a progressive tendency to acquire changes on prolonged culture, commonly affecting chromosomes 1, 12, 17 and 20. DNA methylation patterns changed haphazardly with no link to time in culture. Structural variants, determined from the SNP arrays, also appeared sporadically. No common variants related to culture were observed on chromosomes 1, 12 and 17, but a minimal amplicon in chromosome 20q11.21, including three genes expressed in human ES cells, ID1, BCL2L1 and HM13, occurred in >20% of the lines. Of these genes, BCL2L1 is a strong candidate for driving culture adaptation of ES cells.
AMPS, Katherine; Peter W. ANDREWS; George ANYFANTIS; Lyle ARMSTRONG; Stuart AVERY; Hossein BAHARVAND; Julie BAKER; Duncan BAKER; Maria B. MUNOZ; Stephen BEIL; Nissim BENVENISTY; Dalit BEN-YOSEF; Juan-Carlos BIANCOTTI; Alexis BOSMAN; Romulo Martin BRENA; Daniel BRISON; Gunilla CAISANDER; Maria V. CAMARASA; Jieming CHEN; Eric CHIAO; Young Min CHOI; Andre B. H. CHOO; Daniel COLLINS; Alan COLMAN; Jeremy M. CROOK; George Q. DALEY; Anne DALTON; Paul A. DE SOUSA; Chris DENNING; Janet DOWNIE; Petr DVOŘÁK; Karen D. MONTGOMERY; Anis FEKI; Angela FORD; Victoria FOX; Ana M. FRAGA; Tzvia FRUMKIN; Lin GE; Paul J. GOKHALE; Tamar GOLAN-LEV; Hamid GOURABI; Michal GROPP; Guangxiu LU; Aleš HAMPL; Katie HARRON; Lyn HEALY; Wishva HERATH; Frida HOLM; Outi HOVATTA; Johan HYLLNER; Maneesha S. INAMDAR; Astrid Kresentia IRWANTO; Tetsuya ISHII; Marisa JACONI; Ying JIN; Susan KIMBER; Sergey KISELEV; Barbara B. KNOWLES; Oded KOPPER; Valeri KUKHARENKO; Anver KULIEV; Maria A. LAGARKOVA; Peter W. LAIRD; Majlinda LAKO; Andrew L. LASLETT; Neta LAVON; Dong Ryul LEE; Jeoung Eun LEE; Chunliang LI; Linda S. LIM; Tenneille E. LUDWIG; Yu MA; Edna MALTBY; Ileana MATEIZEL; Yoav MAYSHAR; Maria MILEIKOVSKY; Stephen L. MINGER; Takamichi MIYAZAKI; Shin Yong MOON; Harry MOORE; Christine MUMMERY; Andras NAGY; Norio NAKATSUJI; Kavita NARWANI; Steve K. W. OH; Sun Kyung OH; Cia OLSON; Timo OTONKOSKI; Fei PAN; In-Hyun PARK; Steve PELLS; Martin F. PERA; Lygia V. PEREIRA; Ouyang QI; Grace Selva RAJ; Benjamin REUBINOFF; Alan ROBINS; Paul ROBSON; Janet ROSSANT; Ghasem H. SALEKDEH; Claudia SPITS; Thomas C. SCHULZ; Karen SERMON; Jameelah Sheik MOHAMED; Hui SHEN; Eric SHERRER; Kuldip SIDHU; Shirani SIVARAJAH; Heli SKOTTMAN; G. STACEY; R. STREHL; N. STRELCHENKO; H. SUEMORI; B. SUN; R. SUURONEN; K. TAKAHASHI; T. TUURI; P. VENU; Y. VERLINSKY; D. WARD-VAN OOSTWAARD; D. WEISENBERGER; Y. WU; S. YAMANAKA; L. YOUNG a Q. ZHOU. Screening ethnically diverse human embryonic stem cells identifies a chromosome 20 minimal amplicon conferring growth advantage. Nature Biotechnology. 2011, roč. 29, č. 12, s. 1132-1144. ISSN 1087-0156. Dostupné z: https://doi.org/10.1038/nbt.2051.
@article{967076, author = {Amps, Katherine and Andrews, Peter W. and Anyfantis, George and Armstrong, Lyle and Avery, Stuart and Baharvand, Hossein and Baker, Julie and Baker, Duncan and Munoz, Maria B. and Beil, Stephen and Benvenisty, Nissim and BenandYosef, Dalit and Biancotti, JuanandCarlos and Bosman, Alexis and Brena, Romulo Martin and Brison, Daniel and Caisander, Gunilla and Camarasa, Maria V. and Chen, Jieming and Chiao, Eric and Choi, Young Min and Choo, Andre B. H. and Collins, Daniel and Colman, Alan and Crook, Jeremy M. and Daley, George Q. and Dalton, Anne and De Sousa, Paul A. and Denning, Chris and Downie, Janet and Dvořák, Petr and Montgomery, Karen D. and Feki, Anis and Ford, Angela and Fox, Victoria and Fraga, Ana M. and Frumkin, Tzvia and Ge, Lin and Gokhale, Paul J. and GolanandLev, Tamar and Gourabi, Hamid and Gropp, Michal and Lu, Guangxiu and Hampl, Aleš and Harron, Katie and Healy, Lyn and Herath, Wishva and Holm, Frida and Hovatta, Outi and Hyllner, Johan and Inamdar, Maneesha S. and Irwanto, Astrid Kresentia and Ishii, Tetsuya and Jaconi, Marisa and Jin, Ying and Kimber, Susan and Kiselev, Sergey and Knowles, Barbara B. and Kopper, Oded and Kukharenko, Valeri and Kuliev, Anver and Lagarkova, Maria A. and Laird, Peter W. and Lako, Majlinda and Laslett, Andrew L. and Lavon, Neta and Lee, Dong Ryul and Lee, Jeoung Eun and Li, Chunliang and Lim, Linda S. and Ludwig, Tenneille E. and Ma, Yu and Maltby, Edna and Mateizel, Ileana and Mayshar, Yoav and Mileikovsky, Maria and Minger, Stephen L. and Miyazaki, Takamichi and Moon, Shin Yong and Moore, Harry and Mummery, Christine and Nagy, Andras and Nakatsuji, Norio and Narwani, Kavita and Oh, Steve K. W. and Oh, Sun Kyung and Olson, Cia and Otonkoski, Timo and Pan, Fei and Park, InandHyun and Pells, Steve and Pera, Martin F. and Pereira, Lygia V. and Qi, Ouyang and Raj, Grace Selva and Reubinoff, Benjamin and Robins, Alan and Robson, Paul and Rossant, Janet and Salekdeh, Ghasem H. and Spits, Claudia and Schulz, Thomas C. and Sermon, Karen and Mohamed, Jameelah Sheik and Shen, Hui and Sherrer, Eric and Sidhu, Kuldip and Sivarajah, Shirani and Skottman, Heli and Stacey, G. and Strehl, R. and Strelchenko, N. and Suemori, H. and Sun, B. and Suuronen, R. and Takahashi, K. and Tuuri, T. and Venu, P. and Verlinsky, Y. and Wardandvan Oostwaard, D. and Weisenberger, D. and Wu, Y. and Yamanaka, S. and Young, L. and Zhou, Q.}, article_number = {12}, doi = {https://doi.org/10.1038/nbt.2051}, keywords = {COMPARATIVE GENOMIC HYBRIDIZATION; COPY NUMBER VARIATION; HUMAN ES CELLS; DNA-SEQUENCE; IN-VIVO; CULTURE; LINES; TUMORS; PLURIPOTENCY; GENES}, language = {eng}, issn = {1087-0156}, journal = {Nature Biotechnology}, title = {Screening ethnically diverse human embryonic stem cells identifies a chromosome 20 minimal amplicon conferring growth advantage}, volume = {29}, year = {2011} }
TY - JOUR ID - 967076 AU - Amps, Katherine - Andrews, Peter W. - Anyfantis, George - Armstrong, Lyle - Avery, Stuart - Baharvand, Hossein - Baker, Julie - Baker, Duncan - Munoz, Maria B. - Beil, Stephen - Benvenisty, Nissim - Ben-Yosef, Dalit - Biancotti, Juan-Carlos - Bosman, Alexis - Brena, Romulo Martin - Brison, Daniel - Caisander, Gunilla - Camarasa, Maria V. - Chen, Jieming - Chiao, Eric - Choi, Young Min - Choo, Andre B. H. - Collins, Daniel - Colman, Alan - Crook, Jeremy M. - Daley, George Q. - Dalton, Anne - De Sousa, Paul A. - Denning, Chris - Downie, Janet - Dvořák, Petr - Montgomery, Karen D. - Feki, Anis - Ford, Angela - Fox, Victoria - Fraga, Ana M. - Frumkin, Tzvia - Ge, Lin - Gokhale, Paul J. - Golan-Lev, Tamar - Gourabi, Hamid - Gropp, Michal - Lu, Guangxiu - Hampl, Aleš - Harron, Katie - Healy, Lyn - Herath, Wishva - Holm, Frida - Hovatta, Outi - Hyllner, Johan - Inamdar, Maneesha S. - Irwanto, Astrid Kresentia - Ishii, Tetsuya - Jaconi, Marisa - Jin, Ying - Kimber, Susan - Kiselev, Sergey - Knowles, Barbara B. - Kopper, Oded - Kukharenko, Valeri - Kuliev, Anver - Lagarkova, Maria A. - Laird, Peter W. - Lako, Majlinda - Laslett, Andrew L. - Lavon, Neta - Lee, Dong Ryul - Lee, Jeoung Eun - Li, Chunliang - Lim, Linda S. - Ludwig, Tenneille E. - Ma, Yu - Maltby, Edna - Mateizel, Ileana - Mayshar, Yoav - Mileikovsky, Maria - Minger, Stephen L. - Miyazaki, Takamichi - Moon, Shin Yong - Moore, Harry - Mummery, Christine - Nagy, Andras - Nakatsuji, Norio - Narwani, Kavita - Oh, Steve K. W. - Oh, Sun Kyung - Olson, Cia - Otonkoski, Timo - Pan, Fei - Park, In-Hyun - Pells, Steve - Pera, Martin F. - Pereira, Lygia V. - Qi, Ouyang - Raj, Grace Selva - Reubinoff, Benjamin - Robins, Alan - Robson, Paul - Rossant, Janet - Salekdeh, Ghasem H. - Spits, Claudia - Schulz, Thomas C. - Sermon, Karen - Mohamed, Jameelah Sheik - Shen, Hui - Sherrer, Eric - Sidhu, Kuldip - Sivarajah, Shirani - Skottman, Heli - Stacey, G. - Strehl, R. - Strelchenko, N. - Suemori, H. - Sun, B. - Suuronen, R. - Takahashi, K. - Tuuri, T. - Venu, P. - Verlinsky, Y. - Ward-van Oostwaard, D. - Weisenberger, D. - Wu, Y. - Yamanaka, S. - Young, L. - Zhou, Q. PY - 2011 TI - Screening ethnically diverse human embryonic stem cells identifies a chromosome 20 minimal amplicon conferring growth advantage JF - Nature Biotechnology VL - 29 IS - 12 SP - 1132-1144 EP - 1132-1144 SN - 10870156 KW - COMPARATIVE GENOMIC HYBRIDIZATION KW - COPY NUMBER VARIATION KW - HUMAN ES CELLS KW - DNA-SEQUENCE KW - IN-VIVO KW - CULTURE KW - LINES KW - TUMORS KW - PLURIPOTENCY KW - GENES N2 - The International Stem Cell Initiative analyzed 125 human embryonic stem (ES) cell lines and 11 induced pluripotent stem (iPS) cell lines, from 38 laboratories worldwide, for genetic changes occurring during culture. Most lines were analyzed at an early and late passage. Single-nucleotide polymorphism (SNP) analysis revealed that they included representatives of most major ethnic groups. Most lines remained karyotypically normal, but there was a progressive tendency to acquire changes on prolonged culture, commonly affecting chromosomes 1, 12, 17 and 20. DNA methylation patterns changed haphazardly with no link to time in culture. Structural variants, determined from the SNP arrays, also appeared sporadically. No common variants related to culture were observed on chromosomes 1, 12 and 17, but a minimal amplicon in chromosome 20q11.21, including three genes expressed in human ES cells, ID1, BCL2L1 and HM13, occurred in >20% of the lines. Of these genes, BCL2L1 is a strong candidate for driving culture adaptation of ES cells. ER -
AMPS, Katherine; Peter W. ANDREWS; George ANYFANTIS; Lyle ARMSTRONG; Stuart AVERY; Hossein BAHARVAND; Julie BAKER; Duncan BAKER; Maria B. MUNOZ; Stephen BEIL; Nissim BENVENISTY; Dalit BEN-YOSEF; Juan-Carlos BIANCOTTI; Alexis BOSMAN; Romulo Martin BRENA; Daniel BRISON; Gunilla CAISANDER; Maria V. CAMARASA; Jieming CHEN; Eric CHIAO; Young Min CHOI; Andre B. H. CHOO; Daniel COLLINS; Alan COLMAN; Jeremy M. CROOK; George Q. DALEY; Anne DALTON; Paul A. DE SOUSA; Chris DENNING; Janet DOWNIE; Petr DVOŘÁK; Karen D. MONTGOMERY; Anis FEKI; Angela FORD; Victoria FOX; Ana M. FRAGA; Tzvia FRUMKIN; Lin GE; Paul J. GOKHALE; Tamar GOLAN-LEV; Hamid GOURABI; Michal GROPP; Guangxiu LU; Aleš HAMPL; Katie HARRON; Lyn HEALY; Wishva HERATH; Frida HOLM; Outi HOVATTA; Johan HYLLNER; Maneesha S. INAMDAR; Astrid Kresentia IRWANTO; Tetsuya ISHII; Marisa JACONI; Ying JIN; Susan KIMBER; Sergey KISELEV; Barbara B. KNOWLES; Oded KOPPER; Valeri KUKHARENKO; Anver KULIEV; Maria A. LAGARKOVA; Peter W. LAIRD; Majlinda LAKO; Andrew L. LASLETT; Neta LAVON; Dong Ryul LEE; Jeoung Eun LEE; Chunliang LI; Linda S. LIM; Tenneille E. LUDWIG; Yu MA; Edna MALTBY; Ileana MATEIZEL; Yoav MAYSHAR; Maria MILEIKOVSKY; Stephen L. MINGER; Takamichi MIYAZAKI; Shin Yong MOON; Harry MOORE; Christine MUMMERY; Andras NAGY; Norio NAKATSUJI; Kavita NARWANI; Steve K. W. OH; Sun Kyung OH; Cia OLSON; Timo OTONKOSKI; Fei PAN; In-Hyun PARK; Steve PELLS; Martin F. PERA; Lygia V. PEREIRA; Ouyang QI; Grace Selva RAJ; Benjamin REUBINOFF; Alan ROBINS; Paul ROBSON; Janet ROSSANT; Ghasem H. SALEKDEH; Claudia SPITS; Thomas C. SCHULZ; Karen SERMON; Jameelah Sheik MOHAMED; Hui SHEN; Eric SHERRER; Kuldip SIDHU; Shirani SIVARAJAH; Heli SKOTTMAN; G. STACEY; R. STREHL; N. STRELCHENKO; H. SUEMORI; B. SUN; R. SUURONEN; K. TAKAHASHI; T. TUURI; P. VENU; Y. VERLINSKY; D. WARD-VAN OOSTWAARD; D. WEISENBERGER; Y. WU; S. YAMANAKA; L. YOUNG a Q. ZHOU. Screening ethnically diverse human embryonic stem cells identifies a chromosome 20 minimal amplicon conferring growth advantage. \textit{Nature Biotechnology}. 2011, roč.~29, č.~12, s.~1132-1144. ISSN~1087-0156. Dostupné z: https://doi.org/10.1038/nbt.2051.