Ramneek Gupta

Ramneek Gupta

Associate Professor

DTU BIOINFORMATICS
Department of Bio and Health Informatics

Disease Intelligence and Molecular Evolution
DTU Bioinformatics Employees

Technical University of Denmark

Kemitorvet

Building 208, room 021

2800 Kgs. Lyngby

Ph.
Ph.
Mobile
Fax +45 45 93 15 85
E-mail rg@bioinformatics.dtu.dk
Home page

Request a vCard via e-mail.

Publications
Projects
DTU news
Loading

Publications rss feed

2018
  PDF

Transcriptome analysis of root-knot nematode (Meloidogyne incognita)-infected tomato (Solanum lycopersicum) roots reveals complex gene expression profiles and metabolic networks of both host and nematode during susceptible and resistance responses

Shukla, Neha ; Yadav, Rachita ; Kaur, Pritam ; Rasmussen, Simon ; Goel, Shailendra ; Agarwal, Manu ; Jagannath, Arun ; Gupta, Ramneek ; Kumar, Amar
in: Molecular Plant Pathology (ISSN: 1464-6722), vol: 19, issue: 3, pages: 615-633, 2018

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: http://dx.doi.org/10.1111/mpp.12547

 

Metabolite ratios as potential biomarkers for type 2 diabetes: a DIRECT study

Molnos, Sophie ; Wahl, Simone ; Haid, Mark ; Eekhoff, E. Marelise W. ; Pool, René ; Floegel, Anna ; Deelen, Joris ; Much, Daniela ; Prehn, Cornelia ; Breier, Michaela ; Draisma, Harmen H. ; van Leeuwen, Nienke ; Simonis-Bik, Annemarie M.C. ; Jonsson, Anna Elisabet ; Willemsen, Gonneke ; Bernigau, Wolfgang ; Wang-Sattler, Rui ; Suhre, Karsten ; Peters, Annette ; Thorand, Barbara ; Herder, Christian ; Rathmann, Wolfgang ; Roden, Michael ; Gieger, Christian ; Kramer, Mark H.H. ; van Heemst, Diana ; Pedersen, Helle Krogh ; Gudmundsdottir, Valborg ; Schulze, Matthias B. ; Pischon, Tobias ; de Geus, Eco J.C. ; Boeing, Heiner ; Boomsma, Dorret I. ; Ziegler, Anette G. ; Slagboom, P. Eline ; Hummel, Sandra ; Beekman, Marian ; Grallert, Harald ; Brunak, Søren ; McCarthy, Mark I. ; Gupta, Ramneek ; Pearson, Ewan R. ; Adamski, Jerzy ; 'T Hart, Leen M.
in: Diabetologia (ISSN: 0012-186X), vol: 61, pages: 117-129, 2018

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: http://dx.doi.org/10.1007/s00125-017-4436-7

  PDF

Integrative network analysis highlights biological processes underlying GLP-1 stimulated insulin secretion: A DIRECT study

Gudmundsdottir, Valborg ; Pedersen, Helle Krogh ; Allebrandt, Karla Viviani ; Brorsson, Caroline Anna ; van Leeuwen, Nienke ; Banasik, Karina ; Mahajan, Anubha ; Groves, Christopher J ; van de Bunt, Martijn ; Dawed, Adem Y ; Fritsche, Andreas ; Staiger, Harald ; Simonis-Bik, Annemarie M C ; Deelen, Joris ; Kramer, Mark H H ; Dietrich, Axel ; Hübschle, Thomas ; Willemsen, Gonneke ; Häring, Hans-Ulrich ; de Geus, Eco J C ; Boomsma, Dorret I ; Eekhoff, Elisabeth M W ; Ferrer, Jorge ; McCarthy, Mark I ; Pearson, Ewan R ; Gupta, Ramneek ; Brunak, Søren ; 't Hart, Leen M
in: P L o S One (ISSN: 1932-6203), vol: 13, issue: 1, 2018

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: http://dx.doi.org/10.1371/journal.pone.0189886

 

Accurate genotyping across variant classes and lengths using variant graphs

Sibbesen, Jonas Andreas ; Maretty, Lasse ; Jensen, Jacob Malte ; Petersen, Bent ; Liu, Siyang ; Villesen, Palle ; Skov, Laurits ; Belling, Kirstine González-Izarzugaza ; Theil Have, Christian ; Gonzalez-Izarzugaza, Jose Maria ; Grosjean, Marie ; Bork-Jensen, Jette ; Grove, Jakob ; Dam-Als, Thomas ; Huang, Shujia ; Chang, Yuqi ; Xu, Ruiqi ; Ye, Weijian ; Rao, Junhua ; Guo, Xiaosen ; Sun, Jihua ; Cao, Hongzhi ; Ye, Chen ; van Beusekom, Johan ; Espeseth, Thomas ; Flindt, Esben ; Friborg, Rune M. ; Halager, Anders Egerup ; Le Hellard, Stephanie ; Hultman, Christina M. ; Lescai, Francesco ; Li, Shengting ; Lund, Ole ; Løngren, Peter ; Mailund, Thomas ; Matey-Hernandez, María Luisa ; Mors, Ole ; Pedersen, Christian N. S. ; Sicheritz-Pontén, Thomas ; Sullivan, Patrick ; Qaswar Ali Shah, Syed ; Westergaard, David ; Yadav, Rachita ; Li, Ning ; Xu, Xun ; Hansen, Torben ; Krogh, Anders ; Bolund, Lars ; Sørensen, Thorkild I. A. ; Pedersen, Oluf ; Gupta, Ramneek ; Rasmussen, Simon ; Besenbacher, Søren ; Børglum, Anders D. ; Wang, Jun ; Eiberg, Hans ; Kristiansen, Karsten ; Brunak, Søren ; Schierup, Mikkel Heide
in: Nature Genetics (ISSN: 1061-4036), 2018

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: http://dx.doi.org/10.1038/s41588-018-0145-5

  PDF

Benchmarking the HLA typing performance of Polysolver and Optitype in 50 Danish parental trios

Matey-Hernandez, María Luisa ; Maretty, Lasse ; Jensen, Jacob Malte ; Petersen, Bent ; Andreas Sibbesen, Jonas ; Liu, Siyang ; Villesen, Palle ; Skov, Laurits ; Belling, Kirstine González-Izarzugaza ; Theil Have, Christian ; Gonzalez-Izarzugaza, Jose Maria ; Grosjean, Marie ; Bork-Jensen, Jette ; Grove, Jakob ; Als, Thomas D. ; Huang, Shujia ; Chang, Yuqi ; Xu, Ruiqi ; Ye, Weijian ; Rao, Junhua ; Guo, Xiaosen ; Sun, Jihua ; Cao, Hongzhi ; Ye, Chen ; Beusekom, Johan v. ; Espeseth, Thomas ; Flindt, Esben N. ; Friborg, Rune M. ; Halager, Anders Egerup ; Le Hellard, Stephanie ; Hultman, Christina M. ; Lescai, Francesco ; Li, Shengting ; Lund, Ole ; Løngren, Peter ; Mailund, Thomas ; Mors, Ole ; Pedersen, Christian N. S. ; Sicheritz-Pontén, Thomas ; Sullivan, Patrick F. ; Qaswar Ali Shah, Syed ; Westergaard, David ; Yadav, Rachita ; Li, Ning ; Xu, Xun ; Hansen, Torben ; Krogh, Anders ; Bolund, Lars ; Sørensen, Thorkild I. A. ; Pedersen, Oluf ; Gupta, Ramneek ; Besenbacher, Søren ; Børglum, Anders D. ; Wang, Jun ; Eiberg, Hans ; Kristiansen, Karsten ; Brunak, Søren ; Schierup, Mikkel Heide
in: B M C Bioinformatics (ISSN: 1471-2105), vol: 19, 2018

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: http://dx.doi.org/10.1186/s12859-018-2239-6

2017
  PDF

Obesity is associated with depot-specific alterations in adipocyte DNA methylation and gene expression

Sonne, Si Brask ; Yadav, Rachita ; Yin, Guangliang ; Dalgaard, Marlene Danner ; Myrmel, Lene Secher ; Gupta, Ramneek ; Wang, Jun ; Madsen, Lise ; Kajimura, Shingo ; Kristiansen, Karsten
in: Adipocyte (Philadelphia) (ISSN: 2162-3945), vol: 6, issue: 2, pages: 124-133, 2017

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1080/21623945.2017.1320002

 

Meta-analysis of five genome-wide association studies identifies multiple new loci associated with testicular germ cell tumor

Wang, Zhaoming ; McGlynn, Katherine A. ; Rajpert-De Meyts, Ewa ; Bishop, D. Timothy ; Chung, Charles C. ; Dalgaard, Marlene Danner ; Greene, Mark H. ; Gupta, Ramneek ; Grotmol, Tom ; Haugen, Trine B. ; Karlsson, Robert ; Litchfield, Kevin ; Mitra, Nandita ; Nielsen, Kasper ; Pyle, Louise C. ; Schwartz, Stephen M. ; Thorsson, Vésteinn ; Vardhanabhuti, Saran ; Wiklund, Fredrik ; Turnbull, Clare ; Chanock, Stephen J. ; Kanetsky, Peter A. ; Nathanson, Katherine L.
in: Nature Genetics (ISSN: 1061-4036), vol: 49, issue: 7, pages: 1141-1147, 2017

Type: Letter (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1038/ng.3879

  PDF

Cerebellar mutism syndrome in children with brain tumours of the posterior fossa

Wibroe, Morten ; Cappelen, Johan ; Castor, Charlotte ; Clausen, Niels ; Grillner, Pernilla ; Gudrunardottir, Thora ; Gupta, Ramneek ; Gustavsson, Bengt ; Heyman, Mats ; Holm, Stefan ; Karppinen, Atte ; Klausen, Camilla ; Lonnqvist, Tuula ; Mathiasen, Rene ; Nilsson, Pelle ; Nysom, Karsten ; Persson-Waller, Karin ; Rask, Olof ; Schmiegelow, Kjeld ; Sehested, Astrid ; Thomassen, Harald ; Tonning-Olsson, Ingrid ; Zetterqvist, Barbara ; Juhler, Marianne
in: B M C Cancer (ISSN: 1471-2407), vol: 17, 2017

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1186/s12885-017-3416-0

  PDF

Sequencing and de novo assembly of 150 genomes from Denmark as a population reference

Maretty, Lasse ; Jensen, Jacob Malte ; Petersen, Bent ; Sibbesen, Jonas Andreas ; Liu, Siyang ; Villesen, Palle ; Skov, Laurits ; Belling, Kirstine González-Izarzugaza ; Theil Have, Christian ; Gonzalez-Izarzugaza, Jose Maria ; Grosjean, Marie ; Bork-Jensen, Jette ; Grove, Jakob ; Als, Thomas D. ; Huang, Shujia ; Chang, Yuqi ; Xu, Ruiqi ; Ye, Weijian ; Rao, Junhua ; Guo, Xiaosen ; Sun, Jihua ; Cao, Hongzhi ; Ye, Chen ; van Beusekom, Johan ; Espeseth, Thomas ; Flindt, Esben N. ; Friborg, Rune M. ; Halager, Anders E. ; Le Hellard, Stephanie ; Hultman, Christina M. ; Lescai, Francesco ; Li, Shengting ; Lund, Ole ; Løngreen, Peter ; Mailund, Thomas ; Matey-Hernandez, María Luisa ; Mors, Ole ; Pedersen, Christian N. S. ; Sicheritz-Pontén, Thomas ; Sullivan, Patrick F. ; Syed, Ali ; Westergaard, David ; Yadav, Rachita ; Li, Ning ; Xu, Xun ; Hansen, Torben ; Krogh, Anders ; Bolund, Lars ; Sørensen, Thorkild I. A. ; Pedersen, Oluf ; Gupta, Ramneek ; Rasmussen, Simon ; Besenbacher, Søren ; Börglum, Anders D. ; Wang, Jun ; Eiberg, Hans ; Kristiansen, Karsten ; Brunak, Søren ; Schierup, Mikkel Heide
in: Nature (ISSN: 0028-0836), vol: 548, pages: 87-91, 2017

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1038/nature23264

  PDF

Analysis of 62 hybrid assembled human Y chromosomes exposes rapid structural changes and high rates of gene conversion

Gonzalez-Izarzugaza, Jose Maria ; Skov, Laurits ; Maretty, Lasse ; Jensen, Jacob Malte ; Petersen, Bent ; Andreas Sibbesen, Jonas ; Liu, Siyang ; Villesen, Palle ; Belling, Kirstine González-Izarzugaza ; Theil Have, Christian ; Grosjean, Marie ; Bork-Jensen, Jette ; Grove, Jakob ; Als, Thomas D. ; Huang, Shujia ; Chang, Yuqi ; Xu, Ruiqi ; Ye, Weijian ; Rao, Junhua ; Guo, Xiaosen ; Sun, Jihua ; Cao, Hongzhi ; Ye, Chen ; van Beusekom, Johan ; Espeseth, Thomas ; Flindt, Esben ; Friborg, Rune M. ; Halager, Anders E. ; Le Hellard, Stephanie ; Hultman, Christina M. ; Lescai, Francesco ; Li, Shengting ; Lund, Ole ; Løngren, Peter ; Mailund, Thomas ; Matey-Hernandez, María Luisa ; Mors, Ole ; Pedersen, Christian N. S. ; Sicheritz-Pontén, Thomas ; Sullivan, Patrick F. ; Qaswar Ali Shah, Syed ; Westergaard, David ; Yadav, Rachita ; Li, Ning ; Xu, Xun ; Hansen, Torben ; Krogh, Anders ; Bolund, Lars ; Sørensen, Thorkild I. A. ; Pedersen, Oluf ; Gupta, Ramneek ; Rasmussen, Simon ; Besenbacher, Søren ; Børglum, Anders D. ; Wang, Jun ; Eiberg, Hans ; Kristiansen, Karsten ; Brunak, Søren ; Schierup, Mikkel Heide
in: P L o S Genetics (ISSN: 1553-7390), vol: 13, issue: 8, 2017

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1371/journal.pgen.1006834