153 entries « 1 of 8 »
153.

Rubio, Teresa; Chernigovskaya, Maria; Marquez, Susanna; Marti, Cristina; Izquierdo-Altarejos, Paula; Urios, Amparo; Montoliu, Carmina; Felipo, Vicente; Conesa, Ana; Greiff, Victor; Tarazona, Sonia

A Nextflow pipeline for T-cell receptor repertoire reconstruction and analysis from RNA sequencing data Journal Article

In: ImmunoInformatics, vol. 6, pp. 100012, 2022.

Abstract | Links | BibTeX

152.

Nanni, Adalena V; Morse, Alison M; Newman, Jeremy R B; Choquette, Nicole E; Wedow, Jessica M; Liu, Zihao; Leakey, Andrew D B; Conesa, Ana; Ainsworth, Elizabeth A; McIntyre, Lauren M

Variation in leaf transcriptome responses to elevated ozone corresponds with physiological sensitivity to ozone across maize inbred lines Journal Article

In: Genetics, 2022, ISSN: 1943-2631.

Abstract | Links | BibTeX

151.

Liu, Tianyuan; Salguero, Pedro; Petek, Marko; Martinez-Mira, Carlos; Balzano-Nogueira, Leandro; Ramšak, Živa; McIntyre, Lauren; Gruden, Kristina; Tarazona, Sonia; Conesa, Ana

PaintOmics 4: new tools for the integrative analysis of multi-omics datasets supported by multiple pathway databases Journal Article

In: Nucleic Acids Res, 2022, ISSN: 1362-4962.

Abstract | Links | BibTeX

150.

Ugidos, Manuel; Nueda, María José; Prats-Montalbán, José M; Ferrer, Alberto; Conesa, Ana; Tarazona, Sonia

MultiBaC: An R package to remove batch effects in multi-omic experiments Journal Article

In: Bioinformatics, 2022.

Abstract | Links | BibTeX

149.

Miller, Rachel M; Jordan, Ben T; Mehlferber, Madison M; Jeffery, Erin D; Chatzipantsiou, Christina; Kaur, Simi; Millikin, Robert J; Dai, Yunxiang; Tiberi, Simone; Castaldi, Peter J; Shortreed, Michael R; Luckey, Chance John; Conesa, Ana; Smith, Lloyd M; Mays, Anne Deslattes; Sheynkman, Gloria M

Enhanced protein isoform characterization through long-read proteogenomics Journal Article

In: Genome Biol., vol. 23, no. 1, pp. 69, 2022.

Abstract | Links | BibTeX

148.

McIntyre, Lauren M; Huertas, Francisco; Morse, Alison M; Kaletsky, Rachel; Murphy, Coleen T; Kalia, Vrinda; Miller, Gary W; Moskalenko, Olexander; Conesa, Ana; Mor, Danielle E

GAIT-GM integrative cross-omics analyses reveal cholinergic defects in a C. elegans model of Parkinson's disease Journal Article

In: Sci. Rep., vol. 12, no. 1, pp. 3268, 2022.

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147.

Beltrame, Anna; Salguero, Pedro; Rossi, Emanuela; Conesa, Ana; Moro, Lucia; Bettini, Laura Rachele; Rizzi, Eleonora; DÁngió, Mariella; Deiana, Michela; Piubelli, Chiara; Rebora, Paola; Duranti, Silvia; Bonfanti, Paolo; Capua, Ilaria; Tarazona, Sonia; Valsecchi, Maria Grazia

Association between sex hormone levels and clinical outcomes in patients with COVID-19 admitted to hospital: An observational, retrospective, cohort study Journal Article

In: Front. Immunol., vol. 13, pp. 834851, 2022.

Abstract | Links | BibTeX

146.

Zhang, Runxuan; Kuo, Richard; Coulter, Max; Calixto, Cristiane P G; Entizne, Juan Carlos; Guo, Wenbin; Marquez, Yamile; Milne, Linda; Riegler, Stefan; Matsui, Akihiro; Tanaka, Maho; Harvey, Sarah; Gao, Yubang; Wießner-Kroh, Theresa; Paniagua, Alejandro; Crespi, Martin; Denby, Katherine; Hur, Asa Ben; Huq, Enamul; Jantsch, Michael; Jarmolowski, Artur; Koester, Tino; Laubinger, Sascha; Li, Qingshun Quinn; Gu, Lianfeng; Seki, Motoaki; Staiger, Dorothee; Sunkar, Ramanjulu; Szweykowska-Kulinska, Zofia; Tu, Shih-Long; Wachter, Andreas; Waugh, Robbie; Xiong, Liming; Zhang, Xiao-Ning; Conesa, Ana; Reddy, Anireddy S N; Barta, Andrea; Kalyna, Maria; Brown, John W S

A high-resolution single-molecule sequencing-based Arabidopsis transcriptome using novel methods of Iso-seq analysis Journal Article

In: Genome Biol, vol. 23, no. 1, pp. 149, 2022, ISSN: 1474-760X.

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145.

Galvez-Fernandez, Marta; Sanchez-Saez, Francisco; Domingo-Relloso, Arce; Rodriguez-Hernandez, Zulema; Tarazona, Sonia; Gonzalez-Marrachelli, Vannina; Grau-Perez, Maria; Morales-Tatay, Jose M; Amigo, Nuria; Garcia-Barrera, Tamara; Gomez-Ariza, Jose L; Chaves, F Javier; Garcia-Garcia, Ana Barbara; Melero, Rebeca; Tellez-Plaza, Maria; Martin-Escudero, Juan C; Redon, Josep; Monleon, Daniel

Gene-environment interaction analysis of redox-related metals and genetic variants with plasma metabolic patterns in a general population from Spain: The Hortega Study Journal Article

In: Redox Biol, vol. 52, pp. 102314, 2022, ISSN: 2213-2317.

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144.

Arzalluz-Luque, Angeles; Salguero, Pedro; Tarazona, Sonia; Conesa, Ana

acorde unravels functionally interpretable networks of isoform co-usage from single cell data Journal Article

In: Nat Commun, vol. 13, no. 1, pp. 1828, 2022, ISSN: 2041-1723.

Abstract | Links | BibTeX

143.

Ugidos, Manuel; no-Cabanes, Carme Nu; Tarazona, Sonia; Ferrer, Alberto; Nielsen, Lars Keld; Rodr'iguez-Navarro, Susana; de Mas, Igor Mar'in; Conesa, Ana

MAMBA: a model-driven, constraint-based multiomic integration method Journal Article

In: bioRxiv, 2022.

Abstract | Links | BibTeX

142.

Turpín-Sevilla, María Del Carmen; Pérez-Sanz, Fernando; García-Solano, José; Sebastián-León, Patricia; Trujillo-Santos, Javier; Carbonell, Pablo; Estrada, Eduardo; Tuomisto, Anne; Herruzo, Irene; Fennell, Lochlan J; Mäkinen, Markus J; Rodríguez-Braun, Edith; Whitehall, Vicki L J; Conesa, Ana; Conesa-Zamora, Pablo

Global methylome scores correlate with histological subtypes of colorectal carcinoma and show different associations with common clinical and molecular features Journal Article

In: Cancers (Basel), vol. 13, no. 20, pp. 5165, 2021.

Abstract | Links | BibTeX

141.

Tarazona, Sonia; Arzalluz-Luque, Angeles; Conesa, Ana

Undisclosed, unmet and neglected challenges in multi-omics studies Journal Article

In: Nature Computational Science, vol. 1, no. 6, pp. 395-402, 2021, ISSN: 2662-8457.

Abstract | Links | BibTeX

140.

Planell, Nuria; Lagani, Vincenzo; Sebastian-Leon, Patricia; Kloet, Frans; Ewing, Ewoud; Karathanasis, Nestoras; Urdangarin, Arantxa; Arozarena, Imanol; Jagodic, Maja; Tsamardinos, Ioannis; Tarazona, Sonia; Conesa, Ana; Tegner, Jesper; Gomez-Cabrero, David

STATegra: Multi-omics data integration - A conceptual scheme with a bioinformatics pipeline Journal Article

In: Front. Genet., vol. 12, pp. 620453, 2021.

Abstract | Links | BibTeX

139.

Nanni, Adalena V; Morse, Alison M; Newman, Jeremy RB; Choquette, Nicole E; Wedow, Jessica M; Liu, Zihao; Leakey, Andrew DB; Conesa, Ana; Ainsworth, Elizabeth A; McIntyre, Lauren

Ozone sensitivity of diverse maize genotypes is associated with differences in gene regulation, not gene content Journal Article

In: bioRxiv, 2021.

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138.

Puig, Laura Sardón; Altintas, Ali; Casani, Salvador; Gabriel, Brendan M; Barres, Romain; Conesa, Ana; Chibalin, Alexander V; Naslund, Erik; Krook, Anna; Pillon, Nicolas J; others,

Circadian Transcriptomic and Epigenomic Remodeling in Response to Lipid Overload and Human Obesity Journal Article

In: bioRxiv, 2021.

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137.

Rubio, Teresa; Felipo, Vicente; Tarazona, Sonia; Pastorelli, Roberta; Escudero-Garc'ia, Desamparados; Tosca, Joan; Urios, Amparo; Conesa, Ana; Montoliu, Carmina

Multi-omic analysis unveils biological pathways in peripheral immune system associated to minimal hepatic encephalopathy appearance in cirrhotic patients Journal Article

In: Scientific reports, vol. 11, no. 1, pp. 1–14, 2021.

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136.

Balzano-Nogueira, Leandro; Ramirez, Ricardo; Zamkovaya, Tatyana; Dailey, Jordan; Ardissone, Alexandria N; Chamala, Srikar; Serrano-Qu'ilez, Joan; Rubio, Teresa; Haller, Michael J; Concannon, Patrick; others,

Integrative analyses of TEDDY Omics data reveal lipid metabolism abnormalities, increased intracellular ROS and heightened inflammation prior to autoimmunity for type 1 diabetes Journal Article

In: Genome biology, vol. 22, no. 1, pp. 1–27, 2021.

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135.

Tarazona, Sonia; Carmona, Héctor; Conesa, Ana; Llansola, Marta; Felipo, Vicente

A multi-omic study for uncovering molecular mechanisms associated with hyperammonemia-induced cerebellar function impairment in rats Journal Article

In: Cell Biology and Toxicology, vol. 37, no. 1, pp. 129–149, 2021.

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134.

Zamkovaya, Tatyana; Foster, Jamie S; de Crécy-Lagard, Valérie; Conesa, Ana

A network approach to elucidate and prioritize microbial dark matter in microbial communities Journal Article

In: The ISME Journal, vol. 15, no. 1, pp. 228–244, 2021.

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153 entries « 1 of 8 »