Vicente Pelechano Garcia

Publikationer
Forskningsbidrag
CV
Populärvetenskap och samverkan

Artiklar

Article: NUCLEIC ACIDS RESEARCH (NAR). 2024;52(19):12005-12020
The ABCF ATPase New1 resolves translation termination defects associated with specific tRNA^Arg and tRNA^Lys isoacceptors in the P site
Turnbull K; Paternoga H; von der Weth E; Egorov AA; Pochopien AA; Zhang Y; Nersisyan L; Margus T; Johansson MJO; Pelechano V; Wilson DN; Hauryliuk V
Article: YEAST. 2024;41(7):458-472
Comparison of Xrn1 and Rat1 5′ → 3′ exoribonucleases in budding yeast supports the specific role of Xrn1 in cotranslational mRNA decay
Perez-Ortin JE; Jordan-Pla A; Zhang Y; Moreno-Garcia J; Bassot C; Barba-Aliaga M; de Campos-Mata L; Choder M; Diez J; Piazza I; Pelechano V; Garcia-Martinez J
Article: MOLECULAR SYSTEMS BIOLOGY. 2024;20(5):506-520
Cellular energy regulates mRNA degradation in a codon-specific manner
da Silva PT; Zhang Y; Theodorakis E; Martens LD; Yepez VA; Pelechano V; Gagneur J
Article: NATURE COMMUNICATIONS. 2024;15(1):2744
Gene-expression memory-based prediction of cell lineages from scRNA-seq datasets
Eisele AS; Tarbier M; Dormann AA; Pelechano V; Suter DM
Article: BIOCHIMICA ET BIOPHYSICA ACTA - GENE REGULATORY MECHANISMS. 2024;1867(1):194995
The association of the RSC remodeler complex with chromatin is influenced by the prefoldin-like Bud27 and determines nucleosome positioning and polyadenylation sites usage in Saccharomyces cerevisiae
Cuevas-Bermudez A; Martinez-Fernandez V; Garrido-Godino AI; Jordan-Pla A; Penate X; Martin-Exposito M; Gutierrez G; Govind CK; Chavez S; Pelechano V; Navarro F
Article: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2024;121(7):e2310479121
Targeting MYC induces lipid droplet accumulation by upregulation of HILPDA in clear cell renal cell carcinoma
Sainero-Alcolado L; Garde-Lapido E; Snaebjornsson MT; Schoch S; Stevens I; Ruiz-Perez MV; Dyrager C; Pelechano V; Axelson H; Schulze A; Arsenian-Henriksson M
Article: INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES. 2023;25(1):507
RNA Pol II Assembly Affects ncRNA Expression
Garrido-Godino AI; Gupta I; Pelechano V; Navarro F
Article: SCIENCE ADVANCES. 2023;9(36):eadi4997
Digital assay for rapid electronic quantification of clinical pathogens using DNA nanoballs
Tayyab M; Barrett D; van Riel G; Liu S; Reinius B; Scharfe C; Griffin P; Steinmetz LM; Javanmard M; Pelechano V
Journal article: HEMASPHERE. 2023;7(Suppl):e08711d7
S154: IDENTIFICATION OF NOVEL FACTORS CONTROLLING NON GENETIC CELL PLASTICITY IN CHRONIC MYELOID LEUKEMIA
Baselli G; Alekseenko A; Brinkman E; Pareja‐Sanchez Y; Sinanis L; Pelechano V
Article: NATURE MICROBIOLOGY. 2023;8(6):1123-1136
Atlas of mRNA translation and decay for bacteria
Huch S; Nersisyan L; Ropat M; Barrett D; Wu M; Wang J; Valeriano VD; Vardazaryan N; Huerta-Cepas J; Wei W; Du J; Steinmetz LM; Engstrand L; Pelechano V
Article: NATURE CANCER. 2023;4(3):344-364
A palmitate-rich metastatic niche enables metastasis growth via p65 acetylation resulting in pro-metastatic NF-κB signaling
Altea-Manzano P; Doglioni G; Liu Y; Cuadros AM; Nolan E; Fernandez-Garcia J; Wu Q; Planque M; Laue KJ; Cidre-Aranaz F; Liu X-Z; Marin-Bejar O; Van Elsen J; Vermeire I; Broekaert D; Demeyer S; Spotbeen X; Idkowiak J; Montagne A; Demicco M; Alkan HF; Rabas N; Riera-Domingo C; Richard F; Geukens T; De Schepper M; Leduc S; Hatse S; Lambrechts Y; Kay EJ; Lilla S; Alekseenko A; Geldhof V; Boeckx B; de la Calle Arregui C; Floris G; Swinnen JV; Marine J-C; Lambrechts D; Pelechano V; Mazzone M; Zanivan S; Cools J; Wildiers H; Baud V; Gruenewald TGP; Ben-David U; Desmedt C; Malanchi I; Fendt S-M
Article: GENOME BIOLOGY. 2023;24(1):30
Not1 and Not4 inversely determine mRNA solubility that sets the dynamics of co-translational events
Allen G; Weiss B; Panasenko OOO; Huch S; Villanyi Z; Albert B; Dilg D; Zagatti M; Schaughency P; Liao SEE; Corden J; Polte C; Shore D; Ignatova Z; Pelechano V; Collart MAA
Article: NATURE COMMUNICATIONS. 2023;14(1):910
Differential regulation of mRNA stability modulates transcriptional memory and facilitates environmental adaptation
Li B; Zeis P; Zhang Y; Alekseenko A; Fuerst E; Sanchez YP; Lin G; Tekkedil MM; Piazza I; Steinmetz LM; Pelechano V
Article: NATURE COMMUNICATIONS. 2022;13(1):1860
Structural basis for PoxtA-mediated resistance to phenicol and oxazolidinone antibiotics
Crowe-McAuliffe C; Murina V; Kasari M; Takada H; Turnbull KJ; Polikanov YS; Sundsfjord A; Hegstad K; Atkinson GC; Wilson DN; Hauryliuk V; Huch S; Nersisyan L; Pelechano V
Article: NAR GENOMICS AND BIOINFORMATICS. 2022;4(2):lqac048
OPUSeq simplifies detection of low-frequency DNA variants and uncovers fragmentase-associated artifacts
Alekseenko A; Wang J; Barrett D; Pelechano V
Article: CELL REPORTS. 2021;36(9):109633
Not4 and Not5 modulate translation elongation by Rps7A ubiquitination, Rli1 moonlighting, and condensates that exclude eIF5A
Allen GE; Panasenko OO; Villanyi Z; Zagatti M; Weiss B; Pagliazzo L; Huch S; Polte C; Zahoran S; Hughes CS; Pelechano V; Ignatova Z; Collart MA
Article: LAB ON A CHIP. 2021;21(15):2932-2944
Sample-to-answer COVID-19 nucleic acid testing using a low-cost centrifugal microfluidic platform with bead-based signal enhancement and smartphone read-out
Soares RRG; Akhtar AS; Pinto IF; Lapins N; Barrett D; Sandh G; Yin X; Pelechano V; Russom A
Article: RNA BIOLOGY. 2021;18(8):1206-1220
Rpb4 and Puf3 imprint and post-transcriptionally control the stability of a common set of mRNAs in yeast
Garrido-Godino AI; Gupta I; Gutierrez-Santiago F; Martinez-Padilla AB; Alekseenko A; Steinmetz LM; Perez-Ortin JE; Pelechano V; Navarro F
Article: HELIYON. 2021;7(7):e07584
Simultaneous detection of SARS-CoV-2 and pandemic (H1N1) 2009 virus with real-time isothermal platform
Yu L; Wang J; Li X; Mao L; Sui Y; Chen W; Pelechano V; Guo X; Yin X
Article: CLINICAL MICROBIOLOGY AND INFECTION (CMI). 2021;27(7):1036.e1-1036.e8
Recommendations for accurate genotyping of SARS-CoV-2 using amplicon-based sequencing of clinical samples
Kubik S; Marques AC; Xing X; Silvery J; Bertelli C; De Maio F; Pournaras S; Burr T; Duffourd Y; Siemens H; Alloui C; Song L; Wenger Y; Saitta A; Macheret M; Smith EW; Menu P; Brayer M; Steinmetz LM; Si-Mohammed A; Chuisseu J; Stevens R; Constantoulakis P; Sali M; Greub G; Tiemann C; Pelechano V; Willig A; Xu Z
Article: STAR PROTOCOLS. 2021;2(2):100447
Application of high-throughput 5'P sequencing for the study of co-translational mRNA decay
Zhang Y; Pelechano V
Article: CELL REPORTS: METHODS. 2021;1(1):100001
High-throughput 5'P sequencing enables the study of degradation-associated ribosome stalls
Zhang Y; Pelechano V
Article: SCIENTIFIC REPORTS. 2021;11(1):1820
Direct detection of SARS-CoV-2 using non-commercial RT-LAMP reagents on heat-inactivated samples
Alekseenko A; Barrett D; Pareja-Sanchez Y; Howard RJ; Strandback E; Ampah-Korsah H; Rovsnik U; Zuniga-Veliz S; Klenov A; Malloo J; Ye S; Liu X; Reinius B; Elsasser SJ; Nyman T; Sandh G; Yin X; Pelechano V
Article: GENOME BIOLOGY. 2021;22(1):34
High-resolution analysis of cell-state transitions in yeast suggests widespread transcriptional tuning by alternative starts
Chia M; Li C; Marques S; Pelechano V; Luscombe NM; van Werven FJ
Article: NUCLEIC ACIDS RESEARCH (NAR). 2021;49(1):206-220
A functional connection between translation elongation and protein folding at the ribosome exit tunnel in Saccharomyces cerevisiae
Rodriguez-Galan O; Garcia-Gomez JJ; Rosado IV; Wei W; Mendez-Godoy A; Pillet B; Alekseenko A; Steinmetz LM; Pelechano V; Kressler D; de la Cruz J
Article: NAR GENOMICS AND BIOINFORMATICS. 2020;2(4):lqaa099
Improved computational analysis of ribosome dynamics from 5′P degradome data using fivepseq
Nersisyan L; Ropat M; Pelechano V
Article: NUCLEIC ACIDS RESEARCH (NAR). 2020;48(18):e104
TIF-Seq2 disentangles overlapping isoforms in complex human transcriptomes
Wang J; Li B; Marques S; Steinmetz LM; Wei W; Pelechano V
Article: NUCLEIC ACIDS RESEARCH (NAR). 2020;48(15):8509-8528
The RNA exosome shapes the expression of key protein-coding genes
Wu M; Karadoulama E; Lloret-Llinares M; Rouviere JO; Vaagenso CS; Moravec M; Li B; Wang J; Wu G; Gockert M; Pelechano V; Jensen TH; Sandelin A
Article: SCIENTIFIC REPORTS. 2020;10(1):13513
Transcriptional mutagenesis dramatically alters genome-wide p53 transactivation landscape
Liang S; Ezerskyte M; Wang J; Pelechano V; Dreij K
Article: NATURE COMMUNICATIONS. 2020;11(1):2589
Transcript isoform sequencing reveals widespread promoter-proximal transcriptional termination in Arabidopsis
Thomas QA; Ard R; Liu J; Li B; Wang J; Pelechano V; Marquardt S
Article: GENOME RESEARCH. 2019;29(12):1974-1984
Chromatin-sensitive cryptic promoters putatively drive expression of alternative protein isoforms in yeast
Wei W; Hennig BP; Wang J; Zhang Y; Piazza I; Sanchez YP; Chabbert CD; Adjalley SH; Steinmetz LM; Pelechano V
Article: MOLECULAR CELL. 2019;74(1):196-211.e11
System-wide Profiling of RNA-Binding Proteins Uncovers Key Regulators of Virus Infection
Garcia-Moreno M; Noerenberg M; Ni S; Jarvelin AI; Gonzalez-Almela E; Lenz CE; Bach-Pages M; Cox V; Avolio R; Davis T; Hester S; Sohier TJM; Li B; Heikel G; Michlewski G; Sanz MA; Carrasco L; Ricci EP; Pelechano V; Davis I; Fischer B; Mohammed S; Castello A
Article: PLOS GENETICS. 2019;15(2):e1007969
Transcription-driven chromatin repression of Intragenic transcription start sites
Nielsen M; Ard R; Leng X; Ivanov M; Kindgren P; Pelechano V; Marquardt S
Article: EMBO JOURNAL. 2018;37(23):e99179
Tumor suppressor PNRC1 blocks rRNA maturation by recruiting the decapping complex to the nucleolus
Gaviraghi M; Vivori C; Sanchez YP; Invernizzi F; Cattaneo A; Santoliquido BM; Frenquelli M; Segalla S; Bachi A; Doglioni C; Pelechano V; Cittaro D; Tonon G
Article: PLOS GENETICS. 2018;14(7):e1007563
The Lsm1-7/Pat1 complex binds to stress-activated mRNAs and modulates the response to hyperosmotic shock
Garre E; Pelechano V; Sanchez del Pino M; Alepuz P; Sunnerhagen P
Article: NATURE COMMUNICATIONS. 2018;9(1):1107
A DHODH inhibitor increases p53 synthesis and enhances tumor cell killing by p53 degradation blockage
Ladds MJGW; van Leeuwen IMM; Drummond CJ; Chu S; Healy AR; Popova G; Fernandez AP; Mollick T; Darekar S; Sedimbi SK; Nekulova M; Sachweh MCC; Campbell J; Higgins M; Tuck C; Popa M; Safont MM; Gelebart P; Fandalyuk Z; Thompson AM; Svensson R; Gustavsson A-L; Johansson L; Farnegardh K; Yngve U; Saleh A; Haraldsson M; D'Hollander ACA; Franco M; Zhao Y; Hakansson M; Walse B; Larsson K; Peat EM; Pelechano V; Lunec J; Vojtesek B; Carmena M; Earnshaw WC; McCarthy AR; Westwood NJ; Arsenian-Henriksson M; Lane DP; Bhatia R; McCormack E; Lain S
Article: METHODS IN MOLECULAR BIOLOGY. 2018;1689:177-194
Multiplexed ChIP-Seq Using Direct Nucleosome Barcoding: A Tool for High-Throughput Chromatin Analysis.
Chabbert CD; Adjalley SH; Steinmetz LM; Pelechano V
Article: NUCLEIC ACIDS RESEARCH (NAR). 2017;45(16):9302-9318
The ribosome assembly gene network is controlled by the feedback regulation of transcription elongation
Gomez-Herreros F; Margaritis T; Rodriguez-Galan O; Pelechano V; Begley V; Millan-Zambrano G; Morillo-Huesca M; Cruz Munoz-Centeno M; Perez-Ortin JE; de la Cruz J; Holstege FCP; Chavez S
Article: NUCLEIC ACIDS RESEARCH (NAR). 2017;45(12):7326-7338
eIF5A facilitates translation termination globally and promotes the elongation of many non polyproline-specific tripeptide sequences.
Pelechano V; Alepuz P
Article: SCIENCE. 2016;353(6306):aaf1420
A global genetic interaction network maps a wiring diagram of cellular function
Costanzo M; VanderSluis B; Koch EN; Baryshnikova A; Pons C; Tan G; Wang W; Usaj M; Hanchard J; Lee SD; Pelechano V; Styles EB; Billmann M; van Leeuwen J; van Dyk N; Lin Z-Y; Kuzmin E; Nelson J; Piotrowski JS; Srikumar T; Bahr S; Chen Y; Deshpande R; Kurat CF; Li SC; Li Z; Usaj MM; Okada H; Pascoe N; San Luis B-J; Sharifpoor S; Shuteriqi E; Simpkins SW; Snider J; Suresh HG; Tan Y; Zhu H; Malod-Dognin N; Janjic V; Przulj N; Troyanskaya OG; Stagljar I; Xia T; Ohya Y; Gingras A-C; Raught B; Boutros M; Steinmetz LM; Moore CL; Rosebrock AP; Caudy AA; Myers CL; Andrews B; Boone C
Article: NATURE GENETICS. 2016;48(9):984-994
Principles for RNA metabolism and alternative transcription initiation within closely spaced promoters
Chen Y; Pai AA; Herudek J; Lubas M; Meola N; Jaervelin AI; Andersson R; Pelechano V; Steinmetz LM; Jensen TH; Sandelin A
Article: NATURE STRUCTURAL & MOLECULAR BIOLOGY. 2016;23(6):580-589
Functional interplay between MSL1 and CDK7 controls RNA polymerase II Ser5 phosphorylation
Chlamydas S; Holz H; Samata M; Chelmicki T; Georgiev P; Pelechano V; Dundar F; Dasmeh P; Mittler G; Cadete FT; Ramirez F; Conrad T; Wei W; Raja S; Manke T; Luscombe NM; Steinmetz LM; Akhtar A
Article: NUCLEIC ACIDS RESEARCH (NAR). 2016;44(8):3643-3658
The cellular growth rate controls overall mRNA turnover, and modulates either transcription or degradation rates of particular gene regulons
Garcia-Martinez J; Delgado-Ramos L; Ayala G; Pelechano V; Medina DA; Carrasco F; Gonzalez R; Andres-Leon E; Steinmetz L; Warringer J; Chavez S; Perez-Ortin JE
Article: BIOCHIMICA ET BIOPHYSICA ACTA: INTERNATIONAL JOURNAL OF BIOCHEMISTRY AND BIOPHYSICS. 2016;1859(5):731-743
Rpb1 foot mutations demonstrate a major role of Rpb4 in mRNA stability during stress situations in yeast
Garrido-Godino AI; Garcia-Lopez MC; Garcia-Martinez J; Pelechano V; Medina DA; Perez-Ortin JE; Navarro F
Article: CELL REPORTS. 2016;14(10):2463-2475
Landscape and Dynamics of Transcription Initiation in the Malaria Parasite Plasmodium falciparum
Adjalley SH; Chabbert CD; Klaus B; Pelechano V; Steinmetz LM
Article: NATURE PROTOCOLS. 2016;11(2):359-376
Genome-wide quantification of 5′-phosphorylated mRNA degradation intermediates for analysis of ribosome dynamics
Pelechano V; Wei W; Steinmetz LM
Article: METHODS IN MOLECULAR BIOLOGY. 2016;1361:125-139
Biotin-Genomic Run-On (Bio-GRO): A High-Resolution Method for the Analysis of Nascent Transcription in Yeast.
Jordán-Pla A; Miguel A; Serna E; Pelechano V; Pérez-Ortín JE
Article: METHODS IN MOLECULAR BIOLOGY. 2016;1358:295-302
Genome-Wide Identification of Alternative Polyadenylation Events Using 3'T-Fill.
Wilkening S; Pelechano V; Steinmetz LM
Article: CELL REPORTS. 2015;12(1):128-139
The Nuclear PolyA-Binding Protein Nab2p Is Essential for mRNA Production
Schmid M; Olszewski P; Pelechano V; Gupta I; Steinmetz LM; Jensen TH
Article: CELL. 2015;161(6):1400-1412
Widespread Co-translational RNA Decay Reveals Ribosome Dynamics
Pelechano V; Wei W; Steinmetz LM
Article: MOLECULAR SYSTEMS BIOLOGY. 2015;11(6):812
Single-cell polyadenylation site mapping reveals 3′ isoform choice variability
Velten L; Anders S; Pekowska A; Jaervelin AI; Huber W; Pelechano V; Steinmetz LM
Article: NUCLEIC ACIDS RESEARCH (NAR). 2015;43(2):787-802
Chromatin-dependent regulation of RNA polymerases II and III activity throughout the transcription cycle
Jordan-Pla A; Gupta I; de Miguel-Jimenez L; Steinmetz LM; Chavez S; Pelechano V; Perez-Ortin JE
Article: MOLECULAR SYSTEMS BIOLOGY. 2015;11(1):777
A high-throughput ChIP-Seq for large-scale chromatin studies
Chabbert CD; Adjalley SH; Klaus B; Fritsch ES; Gupta I; Pelechano V; Steinmetz LM
Article: NATURE PROTOCOLS. 2014;9(7):1740-1759
Genome-wide identification of transcript start and end sites by transcript isoform sequencing
Pelechano V; Wei W; Jakob P; Steinmetz LM
Article: NATURE STRUCTURAL & MOLECULAR BIOLOGY. 2014;21(6):560-568
Association of condensin with chromosomes depends on DNA binding by its HEAT-repeat subunits
Piazza I; Rutkowska A; Ori A; Walczak M; Metz J; Pelechano V; Beck M; Haering CH
Article: BMC GENOMICS. 2014;15(1):247
Dynamic remodeling of histone modifications in response to osmotic stress in Saccharomyces cerevisiae
Magraner-Pardo L; Pelechano V; Dolores Coloma M; Tordera V
Article: MOLECULAR SYSTEMS BIOLOGY. 2014;10(2):719
Alternative polyadenylation diversifies post-transcriptional regulation by selective RNA-protein interactions
Gupta I; Clauder-Muenster S; Klaus B; Jaervelin AI; Aiyar RS; Benes V; Wilkening S; Huber W; Pelechano V; Steinmetz LM
Article: NATURE STRUCTURAL & MOLECULAR BIOLOGY. 2013;20(8):923-928
Polyadenylation site-induced decay of upstream transcripts enforces promoter directionality
Ntini E; Jaervelin AI; Bornholdt J; Chen Y; Boyd M; Jorgensen M; Andersson R; Hoof I; Schein A; Andersen PR; Andersen PK; Preker P; Valen E; Zhao X; Pelechano V; Steinmetz LM; Sandelin A; Jensen TH
Article: NATURE. 2013;497(7447):127-131
Extensive transcriptional heterogeneity revealed by isoform profiling
Pelechano V; Wei W; Steinmetz LM
Article: NUCLEIC ACIDS RESEARCH (NAR). 2013;41(5):e65
An efficient method for genome-wide polyadenylation site mapping and RNA quantification
Wilkening S; Pelechano V; Jaervelin AI; Tekkedil MM; Anders S; Benes V; Steinmetz LM
Article: MOLECULAR CELL. 2012;47(2):267-280
Rrp6p Controls mRNA Poly(A) Tail Length and Its Decoration with Poly(A) Binding Proteins
Schmid M; Poulsen MB; Olszewski P; Pelechano V; Saguez C; Gupta I; Steinmetz LM; Moore C; Jensen TH
Article: TRANSCRIPTION. 2012;3(1):39-44
The relative importance of transcription rate, cryptic transcription and mRNA stability on shaping stress responses in yeast.
García-Martínez J; Ayala G; Pelechano V; Chávez S; Herrero E; Pérez-Ortín JE
Article: GENETICS. 2011;189(4):1235-1248
The Conserved Foot Domain of RNA Pol II Associates with Proteins Involved in Transcriptional Initiation and/or Early Elongation
Carmen Garcia-Lopez M; Pelechano V; Carmen Miron-Garcia M; Garrido-Godino AI; Garcia A; Calvo O; Werner M; Perez-Ortin JE; Navarro F
Article: COMPTES RENDUS - BIOLOGIES. 2011;334(8-9):647-654
A genomic view of mRNA turnover in yeast
Perez-Ortin JE; Jordan-Pla A; Pelechano V
Article: METHODS IN MOLECULAR BIOLOGY. 2011;734:25-44
Genomic-wide methods to evaluate transcription rates in yeast.
García-Martínez J; Pelechano V; Pérez-Ortín JE
Article: PLOS ONE. 2010;5(11):e15442
A Complete Set of Nascent Transcription Rates for Yeast Genes
Pelechano V; Chavez S; Perez-Ortin JE
Article: NUCLEIC ACIDS RESEARCH (NAR). 2010;38(14):4651-4664
The distribution of active RNA polymerase II along the transcribed region is gene-specific and controlled by elongation factors
Rodriguez-Gil A; Garcia-Martinez J; Pelechano V; de la Cruz Munoz-Centeno M; Geli V; Perez-Ortin JE; Chavez S
Article: YEAST. 2010;27(7):413-422
There is a steady-state transcriptome in exponentially growing yeast cells
Pelechano V; Perez-Ortin JE
Journal article: NEW BIOTECHNOLOGY. 2010;27:s48
Studying the functions of yeast Sac3p using functional genomics
Palit P; Koehler A; Antúnez O; Pelechano V; Perez-Órtin JE; Hurt E
Article: PLOS GENETICS. 2009;5(8):e1000614
Regulon-Specific Control of Transcription Elongation across the Yeast Genome
Pelechano V; Jimeno-Gonzalez S; Rodriguez-Gil A; Garcia-Martinez J; Perez-Ortin JE; Chavez S
Article: YEAST. 2008;25(2):85-92
The transcriptional inhibitor thiolutin blocks mRNA degradation in yeast
Pelechano V; Perez-ortin JE
Article: YEAST. 2006;23(9):689-699
A genomic study of the inter-ORF distances in Saccharomyces cerevisiae
Pelechano V; Garcia-Martinez J; Perez-Ortin JE
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Alla övriga publikationer

Corrigendum: NATURE COMMUNICATIONS. 2024;15(1):4752
Gene-expression memory-based prediction of cell lineages from scRNA-seq datasets (vol 15, 2744, 2024)
Eisele AS; Tarbier M; Dormann AA; Pelechano V; Suter DM
Preprint: BIORXIV. 2024;BIORXIV
The ABCF ATPase New1 resolves translation termination defects associated with specific tRNAArg and tRNALys isoacceptors in the P site.
Turnbull K; Paternoga H; von der Weth E; Egorov AA; Pochopien AA; Zhang Y; Nersisyan L; Margus T; Johansson MJO; Pelechano V; Wilson DN; Hauryliuk V
Preprint: BIORXIV. 2024
Ribosomes modulate transcriptome abundance via generalized frameshift and out-of-frame mRNA decay
Zhang Y; Nersisyan L; Fürst E; Alexopoulos I; Huch S; Bassot C; Garre E; Sunnerhagen P; Piazza I; Pelechano V
Preprint: PREPRINTS.ORG. 2023
RNA Pol II Assembly Affects ncRNA Expression
Garrido-Godino AI; Gupta I; Pelechano V; Navarro F
Corrigendum: NATURE COMMUNICATIONS. 2023;14(1):5019
Publisher Correction: A DHODH inhibitor increases p53 synthesis and enhances tumor cell killing by p53 degradation blockage (vol 14, 5019, 2023)
Ladds MJGW; van Leeuwen IMM; Drummond CJ; Chu S; Healy AR; Popova G; Fernandez AP; Mollick T; Darekar S; Sedimbi SK; Nekulova M; Sachweh MCC; Campbell J; Higgins M; Tuck C; Popa M; Safont MM; Gelebart P; Fandalyuk Z; Thompson AM; Svensson R; Gustavsson A-L; Johansson L; Faernegardh K; Yngve U; Saleh A; Haraldsson M; D'Hollander ACA; Franco M; Zhao Y; Hakansson M; Walse B; Larsson K; Peat EM; Pelechano V; Lunec J; Vojtesek B; Carmena M; Earnshaw WC; McCarthy AR; Westwood NJ; Arsenian-Henriksson M; Lane DP; Bhatia R; McCormack E; Lain S
Preprint: AUTHOREA. 2023
Comparison of Xrn1 and Rat1 5′→3′ exoribonucleases in budding yeast supports the unique role of Xrn1 in co-translational mRNA decay
Perez-Ortin J; Jordán-Pla A; Zhang Y; Moreno-García J; Campos-Mata L; Diez J; Pelechano V; Garcia-Martinez J; Choder M
Preprint: BIORXIV. 2023
The exosome degrades chromatin-associated RNAs genome-wide and maintains chromatin homeostasis
Planells J; Jordán-Pla A; Jain S; Guadalupe JJ; Proux-Wera E; Euler AV; Pelechano V; Visa N
Preprint: BIORXIV. 2023
Cellular energy regulates mRNA translation and degradation in a codon-specific manner
da Silva PT; Zhang Y; Theodorakis E; Martens L; Yépez V; Pelechano V; Gagneur J
Preprint: BIORXIV. 2023
The association of the RSC remodeler complex with chromatin depends on prefoldin-like Bud27 and determines nucleosome positioning and polyadenylation sites usage inSaccharomyces cerevisiae
Cuevas-Bermúdez A; Martínez-Fernández V; Garrido-Godino AI; Jordán-Pla A; Peñate X; Martín-Expósito M; Gutiérrez G; Govind CK; Chávez S; Pelechano V; Navarro F
Preprint: BIORXIV. 2022
A palmitate-rich metastatic niche enables metastasis growth via p65 acetylation
Altea-Manzano P; Doglioni G; Cuadros A; Nolan E; Fernandez-Garcia J; Wu Q; Cidre-Aranaz F; Montagne A; Planque M; Marin-Bejar O; Van Elsen J; Vermeire I; Broekaert D; Riera-Domingo C; Richard F; Geukens T; De Schepper M; Leduc S; Hatse S; Lambrechts Y; Kay EJ; Lilla S; Demeyer S; Geldhof V; Boeckx B; Alekseenko A; de la Calle Arregui C; Floris G; Marine J-C; Lambrechts D; Pelechano V; Mazzone M; Zanivan S; Cools J; Wildiers H; Baud V; Grünewald TGP; Desmedt C; Malanchi I; Fendt S-M
Preprint: BIORXIV. 2022
Barcode-free prediction of cell lineages from scRNA-seq datasets
Eisele AS; Tarbier M; Dormann AA; Pelechano V; Suter DM
Preprint: BIORXIV. 2022
Differential regulation of mRNA stability modulates transcriptional memory and facilitates environmental adaptation
Li B; Zeis P; Alekseenko A; Lin G; Tekkedil M; Steinmetz L; Pelechano V
Preprint: BIORXIV. 2022
Not1 and Not4 inversely determine mRNA solubility that sets the dynamics of co-translational events
Allen G; Weiss B; Panasenko O; Huch S; Villanyi Z; Albert B; Dilg D; Zagatti M; Schaughency P; Liao S; Corden J; Polte C; Shore D; Ignatova Z; Pelechano V; Collart M
Preprint: BIORXIV. 2021
RNA degradation analysis reveals ribosome dynamics in complex microbiome samples
Huch S; Nersisyan L; Ropat M; Barret D; Wang J; Huerta-Cepas J; Wei W; Steinmetz L; Engstrand L; Pelechano V
Corrigendum: GENOME BIOLOGY. 2021;22(1):46
High-resolution analysis of cell-state transitions in yeast suggests widespread transcriptional tuning by alternative starts (vol 22, 34, 2021)
Chia M; Li C; Marques S; Pelechano V; Luscombe NM; van Werven FJ
Review: METHODS IN ENZYMOLOGY. 2021;655:85-118
Using TIF-Seq2 to investigate association between 5′ and 3′mRNA ends
Li B; Marques S; Wang J; Pelechano V
Preprint: BIORXIV. 2020
Guidelines for accurate genotyping of SARS-CoV-2 using amplicon-based sequencing of clinical samples
Kubik S; Marques AC; Xing X; Silvery J; Bertelli C; De Maio F; Pournaras S; Burr T; Duffourd Y; Siemens H; Alloui C; Song L; Wenger Y; Saitta A; Macheret M; Smith E; Menu P; Brayer M; Steinmetz L; Si-Mohammed A; Chuisseu J; Stevens R; Constantoulakis P; Sali M; Greub G; Tiemann C; Pelechano V; Willig A; Xu Z
Preprint: MEDRXIV. 2020
Point-of-care detection of SARS-CoV-2 in nasopharyngeal swab samples using an integrated smartphone-based centrifugal microfluidic platform
Soares R; Akhtar A; Pinto I; Lapins N; Barrett D; Sandh G; Yin X; Pelechano V; Russom A
Preprint: MEDRXIV. 2020
Detection of SARS-CoV-2 using non-commercial RT-LAMP reagents and raw samples
Alekseenko A; Barrett D; Pareja-Sanchez Y; J Howard R; Strandback E; Ampah-Korsah H; Rovšnik U; Zuniga-Veliz S; Klenov A; Malloo J; Ye S; Liu X; Reinius B; Elsässer S; Nyman T; Sandh G; Yin X; Pelechano V
Preprint: BIORXIV. 2020
Rpb4 and Puf3 imprint and post-transcriptionally control the stability of a common set of mRNAs in yeast
Garrido-Godino AI; Gupta I; Gutiérrez-Santiago F; Martínez-Padilla AB; Alekseenko A; Steinmetz LM; Pérez-Ortín JE; Pelechano V; Navarro F
Letter: CLINICAL CHEMISTRY. 2020;66(7):975-977
Rapid Detection of COVID-19 Coronavirus Using a Reverse Transcriptional Loop-Mediated Isothermal Amplification (RT-LAMP) Diagnostic Platform
Yu L; Wu S; Hao X; Dong X; Mao L; Pelechano V; Chen W-H; Yin X
Preprint: BIORXIV. 2020
High-throughput 5’P sequencing enables the study of degradation-associated ribosome stalls
Zhang Y; Pelechano V
Preprint: MEDRXIV. 2020
Rapid colorimetric detection of COVID-19 coronavirus using a reverse transcriptional loop-mediated isothermal amplification (RT-LAMP) diagnostic platform: iLACO
Yu L; Wu S; Hao X; Li X; Liu X; Ye S; Han H; Dong X; Li X; Li J; Liu N; Liu J; Zhang W; Pelechano V; Chen W-H; Yin X
Preprint: BIORXIV. 2020
Improved computational analysis of ribosome dynamics from 5’P degradome data using fivepeseq
Nersisyan L; Ropat M; Pelechano V
Preprint: BIORXIV. 2019
Dissecting chronic myeloid leukaemia overlapping transcriptome with TIF-Seq2
Wang J; Li B; Marques S; Steinmetz L; Wei W; Pelechano V
Preprint: BIORXIV. 2019
Transcript isoform sequencing reveals widespread promoter-proximal transcriptional termination
Ard R; Thomas Q; Li B; Wang J; Pelechano V; Marquardt S
Preprint: BIORXIV. 2018
Chromatin-sensitive cryptic promoters encode alternative protein isoforms in yeast
Wei W; Hennig B; Wang J; Zhang Y; Piazza I; Sanchez YP; Chabbert C; Adjalley S; Steinmetz L; Pelechano V
Preprint: BIORXIV. 2018
Understanding RNP remodelling uncovers RBPs functionally required for viral replication
Garcia-Moreno M; Noerenberg M; Ni S; Jarvelin A; Gonzalez-Almela E; Lenz C; Bach-Pages M; Cox V; Avolio R; Davis T; Hester S; Sohier TJM; Li B; Sanz MA; Carrasco L; Ricci E; Pelechano V; Fischer B; Mohammed S; Castello A
Corrigendum: NATURE COMMUNICATIONS. 2018;9(1):2071
A DHODH inhibitor increases p53 synthesis and enhances tumor cell killing by p53 degradation blockage
Ladds MJGW; van Leeuwen IMM; Drummond CJ; Chu S; Healy AR; Popova G; Fernandez AP; Mollick T; Darekar S; Sedimbi SK; Nekulova M; Sachweh MCC; Campbell J; Higgins M; Tuck C; Popa M; Safont MM; Gelebart P; Fandalyuk Z; Thompson AM; Svensson R; Gustavsson A-L; Johansson L; Farnegardh K; Yngve U; Saleh A; Haraldsson M; D'Hollander ACA; Franco M; Zhao Y; Hakansson M; Walse B; Larsson K; Peat EM; Pelechano V; Lunec J; Vojtesek B; Carmena M; Earnshaw WC; McCarthy AR; Westwood NJ; Arsenian-Henriksson M; Lane DP; Bhatia R; McCormack E; Lain S
Preprint: BIORXIV. 2018
Transcription-driven Chromatin Repression of Intragenic Promoters
Nielsen M; Ard R; Leng X; Ivanov M; Kindgren P; Pelechano V; Marquardt S
Review: YEAST. 2017;34(12):475-482
From transcriptional complexity to cellular phenotypes: Lessons from yeast.
Pelechano V
Editorial comment: ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY. 2017;1008:V-VI
Long Non Coding RNA Biology Foreword
Steinmetz LM; Pelechano V
Preprint: BIORXIV. 2016
Principles for RNA metabolism and alternative transcription initiation within closely spaced promoters
Chen Y; Pai A; Herudek J; Lubas M; Meola N; Järvelin A; Andersson R; Pelechano V; Steinmetz L; Heick Jensen T; Sandelin A
Preprint: BIORXIV. 2015
Landscape and dynamics of transcription initiation in the malaria parasitePlasmodium falciparum
Adjalley S; Chabbert C; Klaus B; Pelechano V; Steinmetz L
Conference publication: THE FEBS JOURNAL. 2015;282:210
RPB1 foot mutations demonstrate that post-transcriptional regulation depending on Rpb4 plays a major role controlling the environmental stress response in Saccharomyces cerevisiae
Navarro F; Garrido-Godino AI; Martinez-Fernandez V; Cuevas-Bermudez A; Pelechano V; Garcia-Martinez J; Medina DA; Perez-Ortin JE
Corrigendum: PLOS ONE. 2014;9(12):e115560
A Complete Set of Nascent Transcription Rates for Yeast Genes (vol 5, e15442, 2010)
Pelechano V; Chavez S; Perez-Ortin JE
Review: NATURE REVIEWS GENETICS. 2013;14(12):880-893
NON-CODING RNA Gene regulation by antisense transcription
Pelechano V; Steinmetz LM
Corrigendum: NUCLEIC ACIDS RESEARCH (NAR). 2013;41(12):6370
An efficient method for genome-wide polyadenylation site mapping and RNA quantification (vol 41, pg e65, 2013)
Wilkening S; Pelechano V; Jaervelin AI; Tekkedil MM; Anders S; Benes V; Steinmetz LM
Review: METHODS IN ENZYMOLOGY. 2012;513:271-296
Genome-Wide Polyadenylation Site Mapping
Pelechano V; Wilkening S; Jaervelin AI; Tekkedil MM; Steinmetz LM
Review: TRENDS IN GENETICS. 2011;27(7):267-276
Functional consequences of bidirectional promoters
Wei W; Pelechano V; Jaervelin AI; Steinmetz LM
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Forskningsbidrag

Regulation of translation elongation dynamics and mRNA solubility by Not proteins in the yeast S.cerevisiae
Swiss National Science Foundation
1 April 2022 - 31 March 2026
Development of AI based prognostic platform for an early detection of infections in immunocompromised patients
VINNOVA
1 January 2021 - 30 September 2024
Genetic and biochemical analysis of the regulation of gene expression by the Ccr4-Not complex in the yeast S.cerevisiae
Swiss National Science Foundation
1 April 2017 - 31 March 2021

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Senior Forskare, Institutionen för mikrobiologi, tumör- och cellbiologi, Karolinska Institutet, 2022-

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Docent, Cell- och molekylärbiologi, Karolinska Institutet, 2023

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