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1.

A developmental constraint model of cancer cell states and tumor heterogeneity.

Patel, Ayushi S; Yanai, Itai.

Cell ; 187(12): 2907-2918, 2024 Jun 06.

Artigo em Inglês | MEDLINE | ID: mdl-38848676

2.

Widespread Transcriptional Scanning in the Testis Modulates Gene Evolution Rates.

Xia, Bo; Yan, Yun; Baron, Maayan; Wagner, Florian; Barkley, Dalia; Chiodin, Marta; Kim, Sang Y; Keefe, David L; Alukal, Joseph P; Boeke, Jef D; Yanai, Itai.

Cell ; 180(2): 248-262.e21, 2020 01 23.

Artigo em Inglês | MEDLINE | ID: mdl-31978344

3.

A Distinct Gene Module for Dysfunction Uncoupled from Activation in Tumor-Infiltrating T Cells.

Singer, Meromit; Wang, Chao; Cong, Le; Marjanovic, Nemanja D; Kowalczyk, Monika S; Zhang, Huiyuan; Nyman, Jackson; Sakuishi, Kaori; Kurtulus, Sema; Gennert, David; Xia, Junrong; Kwon, John Y H; Nevin, James; Herbst, Rebecca H; Yanai, Itai; Rozenblatt-Rosen, Orit; Kuchroo, Vijay K; Regev, Aviv; Anderson, Ana C.

Cell ; 166(6): 1500-1511.e9, 2016 Sep 08.

Artigo em Inglês | MEDLINE | ID: mdl-27610572

4.

Transcription-replication interactions reveal bacterial genome regulation.

Pountain, Andrew W; Jiang, Peien; Yao, Tianyou; Homaee, Ehsan; Guan, Yichao; McDonald, Kevin J C; Podkowik, Magdalena; Shopsin, Bo; Torres, Victor J; Golding, Ido; Yanai, Itai.

Nature ; 626(7999): 661-669, 2024 Feb.

Artigo em Inglês | MEDLINE | ID: mdl-38267581

5.

On the genetic basis of tail-loss evolution in humans and apes.

Xia, Bo; Zhang, Weimin; Zhao, Guisheng; Zhang, Xinru; Bai, Jiangshan; Brosh, Ran; Wudzinska, Aleksandra; Huang, Emily; Ashe, Hannah; Ellis, Gwen; Pour, Maayan; Zhao, Yu; Coelho, Camila; Zhu, Yinan; Miller, Alexander; Dasen, Jeremy S; Maurano, Matthew T; Kim, Sang Y; Boeke, Jef D; Yanai, Itai.

Nature ; 626(8001): 1042-1048, 2024 Feb.

Artigo em Inglês | MEDLINE | ID: mdl-38418917

6.

A Distinct Gene Module for Dysfunction Uncoupled from Activation in Tumor-Infiltrating T Cells.

Singer, Meromit; Wang, Chao; Cong, Le; Marjanovic, Nemanja D; Kowalczyk, Monika S; Zhang, Huiyuan; Nyman, Jackson; Sakuishi, Kaori; Kurtulus, Sema; Gennert, David; Xia, Junrong; Kwon, John Y H; Nevin, James; Herbst, Rebecca H; Yanai, Itai; Rozenblatt-Rosen, Orit; Kuchroo, Vijay K; Regev, Aviv; Anderson, Ana C.

Cell ; 171(5): 1221-1223, 2017 11 16.

Artigo em Inglês | MEDLINE | ID: mdl-29149608

7.

Exploring tissue architecture using spatial transcriptomics.

Rao, Anjali; Barkley, Dalia; França, Gustavo S; Yanai, Itai.

Nature ; 596(7871): 211-220, 2021 08.

Artigo em Inglês | MEDLINE | ID: mdl-34381231

8.

Author Correction: The mid-developmental transition and the evolution of animal body plans.

Levin, Michal; Anavy, Leon; Cole, Alison G; Winter, Eitan; Mostov, Natalia; Khair, Sally; Senderovich, Naftalie; Kovalev, Ekaterina; Silver, David H; Feder, Martin; Fernandez-Valverde, Selene L; Nakanishi, Nagayasu; Simmons, David; Simakov, Oleg; Larsson, Tomas; Liu, Shang-Yun; Jerafi-Vider, Ayelet; Yaniv, Karina; Ryan, Joseph F; Martindale, Mark Q; Rink, Jochen C; Arendt, Detlev; Degnan, Sandie M; Degnan, Bernard M; Hashimshony, Tamar; Yanai, Itai.

Nature ; 575(7782): E3, 2019 Nov.

Artigo em Inglês | MEDLINE | ID: mdl-31673121

9.

Cancer cell states and emergent properties of the dynamic tumor system.

Barkley, Dalia; Rao, Anjali; Pour, Maayan; França, Gustavo S; Yanai, Itai.

Genome Res ; 31(10): 1719-1727, 2021 10.

Artigo em Inglês | MEDLINE | ID: mdl-34599005

10.

Host inflammatory dynamics reveal placental immune modulation by Group B Streptococcus during pregnancy.

Kuperwaser, Felicia; Avital, Gal; Vaz, Michelle J; Noble, Kristen N; Dammann, Allison N; Randis, Tara M; Aronoff, David M; Ratner, Adam J; Yanai, Itai.

Mol Syst Biol ; 19(3): e11021, 2023 03 09.

Artigo em Inglês | MEDLINE | ID: mdl-36744393

11.

Quantifying gene duplication.

Yanai, Itai.

Nat Rev Genet ; 23(4): 196-197, 2022 04.

Artigo em Inglês | MEDLINE | ID: mdl-35132201

12.

Gene expression levels modulate germline mutation rates through the compound effects of transcription-coupled repair and damage.

Xia, Bo; Yanai, Itai.

Hum Genet ; 141(6): 1211-1222, 2022 Jun.

Artigo em Inglês | MEDLINE | ID: mdl-34482438

13.

A periodic table of cell types.

Xia, Bo; Yanai, Itai.

Development ; 146(12)2019 06 27.

Artigo em Inglês | MEDLINE | ID: mdl-31249003

14.

A molecular handbook for human development.

Kuperwaser, Felicia; Yanai, Itai.

Nature ; 590(7844): 43-44, 2021 02.

Artigo em Inglês | MEDLINE | ID: mdl-33500582

15.

The mid-developmental transition and the evolution of animal body plans.

Levin, Michal; Anavy, Leon; Cole, Alison G; Winter, Eitan; Mostov, Natalia; Khair, Sally; Senderovich, Naftalie; Kovalev, Ekaterina; Silver, David H; Feder, Martin; Fernandez-Valverde, Selene L; Nakanishi, Nagayasu; Simmons, David; Simakov, Oleg; Larsson, Tomas; Liu, Shang-Yun; Jerafi-Vider, Ayelet; Yaniv, Karina; Ryan, Joseph F; Martindale, Mark Q; Rink, Jochen C; Arendt, Detlev; Degnan, Sandie M; Degnan, Bernard M; Hashimshony, Tamar; Yanai, Itai.

Nature ; 531(7596): 637-641, 2016 Mar 31.

Artigo em Inglês | MEDLINE | ID: mdl-26886793

16.

Gene expression dynamics are a proxy for selective pressures on alternatively polyadenylated isoforms.

Levin, Michal; Zalts, Harel; Mostov, Natalia; Hashimshony, Tamar; Yanai, Itai.

Nucleic Acids Res ; 48(11): 5926-5938, 2020 06 19.

Artigo em Inglês | MEDLINE | ID: mdl-32421815

17.

Phylogenetic debugging of a complete human biosynthetic pathway transplanted into yeast.

Agmon, Neta; Temple, Jasmine; Tang, Zuojian; Schraink, Tobias; Baron, Maayan; Chen, Jun; Mita, Paolo; Martin, James A; Tu, Benjamin P; Yanai, Itai; Fenyö, David; Boeke, Jef D.

Nucleic Acids Res ; 48(1): 486-499, 2020 01 10.

Artigo em Inglês | MEDLINE | ID: mdl-31745563

18.

Development and Evolution through the Lens of Global Gene Regulation.

Yanai, Itai.

Trends Genet ; 34(1): 11-20, 2018 01.

Artigo em Inglês | MEDLINE | ID: mdl-29061469

19.

Spatiotemporal transcriptomics reveals the evolutionary history of the endoderm germ layer.

Hashimshony, Tamar; Feder, Martin; Levin, Michal; Hall, Brian K; Yanai, Itai.

Nature ; 519(7542): 219-22, 2015 Mar 12.

Artigo em Inglês | MEDLINE | ID: mdl-25487147

20.

The gene regulatory program of Acrobeloides nanus reveals conservation of phylum-specific expression.

Schiffer, Philipp H; Polsky, Avital L; Cole, Alison G; Camps, Julia I R; Kroiher, Michael; Silver, David H; Grishkevich, Vladislav; Anavy, Leon; Koutsovoulos, Georgios; Hashimshony, Tamar; Yanai, Itai.

Proc Natl Acad Sci U S A ; 115(17): 4459-4464, 2018 04 24.

Artigo em Inglês | MEDLINE | ID: mdl-29626130

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A developmental constraint model of cancer cell states and tumor heterogeneity.

Widespread Transcriptional Scanning in the Testis Modulates Gene Evolution Rates.

A Distinct Gene Module for Dysfunction Uncoupled from Activation in Tumor-Infiltrating T Cells.

Transcription-replication interactions reveal bacterial genome regulation.

On the genetic basis of tail-loss evolution in humans and apes.

A Distinct Gene Module for Dysfunction Uncoupled from Activation in Tumor-Infiltrating T Cells.

Exploring tissue architecture using spatial transcriptomics.

Author Correction: The mid-developmental transition and the evolution of animal body plans.

Cancer cell states and emergent properties of the dynamic tumor system.

Host inflammatory dynamics reveal placental immune modulation by Group B Streptococcus during pregnancy.

Quantifying gene duplication.

Gene expression levels modulate germline mutation rates through the compound effects of transcription-coupled repair and damage.

A periodic table of cell types.

A molecular handbook for human development.

The mid-developmental transition and the evolution of animal body plans.

Gene expression dynamics are a proxy for selective pressures on alternatively polyadenylated isoforms.

Phylogenetic debugging of a complete human biosynthetic pathway transplanted into yeast.

Development and Evolution through the Lens of Global Gene Regulation.

Spatiotemporal transcriptomics reveals the evolutionary history of the endoderm germ layer.

The gene regulatory program of Acrobeloides nanus reveals conservation of phylum-specific expression.