Publications:

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HaploCoV: unsupervised classification and rapid detection of novel emerging variants of SARS-CoV-2.

Communications Biology

Chiara, Matteo M; Horner, David S DS; Ferrandi, Erika E; Gissi, Carmela C; Pesole, Graziano G

Publication Date: 2023-04-22

Variant appearance in text: GC: 47C>A

PubMed Link: 37087497

Variant Present in the following documents:

• 42003_2023_4784_MOESM4_ESM.xlsx, sheet 1

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Kras oncogene ablation prevents resistance in advanced lung adenocarcinoma.

The Journal Of Clinical Investigation

Salmón, Marina M; Álvarez-Díaz, Ruth R; Fustero-Torre, Coral C; Brehey, Oksana O; Lechuga, Carmen G CG; Sanclemente, Manuel M; Fernández-García, Fernando F; López-García, Alejandra A; Martín-Guijarro, María Carmen MC; Rodríguez-Perales, Sandra S; Bousquet-Mur, Emily E; Morales-Cacho, Lucía L; Mulero, Francisca F; Al-Shahrour, Fátima F; Martínez, Lola L; Domínguez, Orlando O; Caleiras, Eduardo E; Ortega, Sagrario S; Guerra, Carmen C; Musteanu, Monica M; Drosten, Matthias M; Barbacid, Mariano M

Publication Date: 2023-03-16

Variant appearance in text: GC: 47C>A

PubMed Link: 36928090

Variant Present in the following documents:

• jci-133-164413-s193.xlsx, sheet 1

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Recapitulating thyroid cancer histotypes through engineering embryonic stem cells.

Nature Communications

Veschi, Veronica V; Turdo, Alice A; Modica, Chiara C; Verona, Francesco F; Di Franco, Simone S; Gaggianesi, Miriam M; Tirrò, Elena E; Di Bella, Sebastiano S; Iacono, Melania Lo ML; Pantina, Vincenzo Davide VD; Porcelli, Gaetana G; Mangiapane, Laura Rosa LR; Bianca, Paola P; Rizzo, Aroldo A; Sciacca, Elisabetta E; Pillitteri, Irene I; Vella, Veronica V; Belfiore, Antonino A; Bongiorno, Maria Rita MR; Pistone, Giuseppe G; Memeo, Lorenzo L; Colarossi, Lorenzo L; Giuffrida, Dario D; Colarossi, Cristina C; Vigneri, Paolo P; Todaro, Matilde M; Stassi, Giorgio G

Publication Date: 2023-03-11

Variant appearance in text: GC: 47C>A; a16e

PubMed Link: 36906579

Variant Present in the following documents:

• 41467_2023_36922_MOESM4_ESM.xls, sheet 2

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Rickettsia felis DNA recovered from a child who lived in southern Africa 2000 years ago.

Communications Biology

Rifkin, Riaan F RF; Vikram, Surendra S; Alcorta, Jaime J; Ramond, Jean-Baptiste JB; Cowan, Don A DA; Jakobsson, Mattias M; Schlebusch, Carina M CM; Lombard, Marlize M

Publication Date: 2023-03-03

Variant appearance in text: GC: 47C>A

PubMed Link: 36869137

Variant Present in the following documents:

• 42003_2023_4582_MOESM4_ESM.xlsx, sheet 10
• 42003_2023_4582_MOESM4_ESM.xlsx, sheet 8

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Characterization of Pyroptosis-Related Subtypes via RNA-Seq and ScRNA-Seq to Predict Chemo-Immunotherapy Response in Triple-Negative Breast Cancer.

Frontiers In Genetics

Li, Chenlu C; Pan, Jingjing J; Jiang, Yinyan Y; Wu, Yanzhi Y; Jin, Zhenlin Z; Chen, Xupeng X

Publication Date: 2022

Variant appearance in text: GC: a16d

PubMed Link: 35386285

Variant Present in the following documents:

• DataSheet3.xlsx, sheet 4

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KLF3 and PAX6 are candidate driver genes in late-stage, MSI-hypermutated endometrioid endometrial carcinomas.

Plos One

Rudd, Meghan L ML; Hansen, Nancy F NF; Zhang, Xiaolu X; Urick, Mary Ellen ME; Zhang, Suiyuan S; Merino, Maria J MJ; , ; Mullikin, James C JC; Brody, Lawrence C LC; Bell, Daphne W DW

Publication Date: 2022

Variant appearance in text: GC: A16D

PubMed Link: 35081118

Variant Present in the following documents:

• pone.0251286.s005.xlsx, sheet 8

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KLF3 and PAX6 are candidate driver genes in late-stage, MSI-hypermutated endometrioid endometrial carcinomas.

Plos One

Rudd, Meghan L ML; Hansen, Nancy F NF; Zhang, Xiaolu X; Urick, Mary Ellen ME; Zhang, Suiyuan S; Merino, Maria J MJ; , ; Mullikin, James C JC; Brody, Lawrence C LC; Bell, Daphne W DW

Publication Date: 2022

Variant appearance in text: GC: A16D

PubMed Link: 35081118

Variant Present in the following documents:

• pone.0251286.s005.xlsx, sheet 8

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Identification of Immune-Related Gene Signatures in Lung Adenocarcinoma and Lung Squamous Cell Carcinoma.

Frontiers In Immunology

Li, Na N; Wang, Jiahong J; Zhan, Xianquan X

Publication Date: 2021

Variant appearance in text: GC: 47C>A

PubMed Link: 34887858

Variant Present in the following documents:

• Table_3.xlsx, sheet 1

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Unravelling the effects of tropical land use conversion on the soil microbiome.

Environmental Microbiome

Berkelmann, Dirk D; Schneider, Dominik D; Meryandini, Anja A; Daniel, Rolf R

Publication Date: 2020-02-03

Variant appearance in text: GC: A16D

PubMed Link: 33902736

Variant Present in the following documents:

• Main text

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Comprehensive Identification and Expression Profiling of Circular RNAs During Nodule Development in Phaseolus vulgaris.

Frontiers In Plant Science

Wu, Zhihua Z; Huang, Wen W; Qin, Erdai E; Liu, Shuo S; Liu, Huan H; Grennan, Aleel K AK; Liu, Hong H; Qin, Rui R

Publication Date: 2020

Variant appearance in text: GC: A16D

PubMed Link: 33193538

Variant Present in the following documents:

• Main text

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Pan-cancer analysis of somatic mutations in miRNA genes.

Ebiomedicine

Urbanek-Trzeciak, Martyna O MO; Galka-Marciniak, Paulina P; Nawrocka, Paulina M PM; Kowal, Ewelina E; Szwec, Sylwia S; Giefing, Maciej M; Kozlowski, Piotr P

Publication Date: 2020-11

Variant appearance in text: GC: A16D

PubMed Link: 33038763

Variant Present in the following documents:

• mmc4.xlsx, sheet 1

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Comparative Analysis of the Mitochondrial Genomes of Nicotiana tabacum: Hints Toward the Key Factors Closely Related to the Cytoplasmic Male Sterility Mechanism.

Frontiers In Genetics

Wang, Ruyi R; Cai, Xunhui X; Hu, Shengnan S; Li, Ying Y; Fan, Yanjun Y; Tan, Siqiao S; Liu, Qiyuan Q; Zhou, Wei W

Publication Date: 2020

Variant appearance in text: GC: A16D

PubMed Link: 32265988

Variant Present in the following documents:

• Main text

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The role of cis-elements in the evolution of crassulacean acid metabolism photosynthesis.

Horticulture Research

Chen, Li-Yu LY; Xin, Yinghui Y; Wai, Ching Man CM; Liu, Juan J; Ming, Ray R

Publication Date: 2020

Variant appearance in text: GC: A16D

PubMed Link: 31908808

Variant Present in the following documents:

• Main text

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Large-scale, dynamin-like motions of the human guanylate binding protein 1 revealed by multi-resolution simulations.

Plos Computational Biology

Barz, Bogdan B; Loschwitz, Jennifer J; Strodel, Birgit B

Publication Date: 2019-10

Variant appearance in text: GC: A16D

PubMed Link: 31589600

Variant Present in the following documents:

• Main text

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Genomic Evolution of Breast Cancer Metastasis and Relapse.

Cancer Cell

Yates, Lucy R LR; Knappskog, Stian S; Wedge, David D; Farmery, James H R JHR; Gonzalez, Santiago S; Martincorena, Inigo I; Alexandrov, Ludmil B LB; Van Loo, Peter P; Haugland, Hans Kristian HK; Lilleng, Peer Kaare PK; Gundem, Gunes G; Gerstung, Moritz M; Pappaemmanuil, Elli E; Gazinska, Patrycja P; Bhosle, Shriram G SG; Jones, David D; Raine, Keiran K; Mudie, Laura L; Latimer, Calli C; Sawyer, Elinor E; Desmedt, Christine C; Sotiriou, Christos C; Stratton, Michael R MR; Sieuwerts, Anieta M AM; Lynch, Andy G AG; Martens, John W JW; Richardson, Andrea L AL; Tutt, Andrew A; Lønning, Per Eystein PE; Campbell, Peter J PJ

Publication Date: 2017-08-14

Variant appearance in text: GC: A16D

PubMed Link: 28810143

Variant Present in the following documents:

• mmc4.xlsx, sheet 4

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A Landscape of Pharmacogenomic Interactions in Cancer.

Cell

Iorio, Francesco F; Knijnenburg, Theo A TA; Vis, Daniel J DJ; Bignell, Graham R GR; Menden, Michael P MP; Schubert, Michael M; Aben, Nanne N; Gonçalves, Emanuel E; Barthorpe, Syd S; Lightfoot, Howard H; Cokelaer, Thomas T; Greninger, Patricia P; van Dyk, Ewald E; Chang, Han H; de Silva, Heshani H; Heyn, Holger H; Deng, Xianming X; Egan, Regina K RK; Liu, Qingsong Q; Mironenko, Tatiana T; Mitropoulos, Xeni X; Richardson, Laura L; Wang, Jinhua J; Zhang, Tinghu T; Moran, Sebastian S; Sayols, Sergi S; Soleimani, Maryam M; Tamborero, David D; Lopez-Bigas, Nuria N; Ross-Macdonald, Petra P; Esteller, Manel M; Gray, Nathanael S NS; Haber, Daniel A DA; Stratton, Michael R MR; Benes, Cyril H CH; Wessels, Lodewyk F A LFA; Saez-Rodriguez, Julio J; McDermott, Ultan U; Garnett, Mathew J MJ

Publication Date: 2016-07-28

Variant appearance in text: GC: A16D

PubMed Link: 27397505

Variant Present in the following documents:

• mmc3.xlsx, sheet 2

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Kinase-dead ATM protein is highly oncogenic and can be preferentially targeted by Topo-isomerase I inhibitors.

Elife

Yamamoto, Kenta K; Wang, Jiguang J; Sprinzen, Lisa L; Xu, Jun J; Haddock, Christopher J CJ; Li, Chen C; Lee, Brian J BJ; Loredan, Denis G DG; Jiang, Wenxia W; Vindigni, Alessandro A; Wang, Dong D; Rabadan, Raul R; Zha, Shan S

Publication Date: 2016-06-15

Variant appearance in text: GC: A16D

PubMed Link: 27304073

Variant Present in the following documents:

• elife-14709-supp1.xlsx, sheet 2

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Age-related mutations associated with clonal hematopoietic expansion and malignancies.

Nature Medicine

Xie, Mingchao M; Lu, Charles C; Wang, Jiayin J; McLellan, Michael D MD; Johnson, Kimberly J KJ; Wendl, Michael C MC; McMichael, Joshua F JF; Schmidt, Heather K HK; Yellapantula, Venkata V; Miller, Christopher A CA; Ozenberger, Bradley A BA; Welch, John S JS; Link, Daniel C DC; Walter, Matthew J MJ; Mardis, Elaine R ER; Dipersio, John F JF; Chen, Feng F; Wilson, Richard K RK; Ley, Timothy J TJ; Ding, Li L

Publication Date: 2014-12

Variant appearance in text: GC: A16D

PubMed Link: 25326804

Variant Present in the following documents:

• NIHMS630249-supplement-5.xlsx, sheet 1

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An efficient strategy to induce and maintain in vitro human T cells specific for autologous non-small cell lung carcinoma.

Plos One

Canderan, Glenda G; Gruarin, Paola P; Montagna, Daniela D; Fontana, Raffaella R; Campi, Gabriele G; Melloni, Giulio G; Traversari, Catia C; Dellabona, Paolo P; Casorati, Giulia G

Publication Date: 2010-08-09

Variant appearance in text: GC: a16d

PubMed Link: 20711505

Variant Present in the following documents:

• Main text

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