Ecosyste.ms: Papers
An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.
Projects: pypi: coloc
https://packages.ecosyste.ms/registries/pypi.org/packages/coloc
the COLOC method by Giambartolomei et al.
19 versions
Latest release: about 2 years ago
56 downloads last month
Papers Mentioning coloc 49
10.1016/j.xpro.2021.100768
A computational approach for identification of core modules from a co-expression network and GWAS dataCited by: 0
Author(s): Olivia L. Sabik, Cheryl Ackert‐Bicknell, Charles R. Farber
Software Mentions: 16
Published: about 3 years ago
10.7554/eLife.58705
Co-expression analysis reveals interpretable gene modules controlled by trans-acting genetic variantsCited by: 23
Author(s): Liis Kolberg, Nurlan Kerimov, Hedi Peterson, Kaur Alasoo
Software Mentions: 11
Published: about 4 years ago
10.1371/journal.pgen.1008530
Genetic variation in GC and CYP2R1 affects 25-hydroxyvitamin D concentration and skeletal parameters: A genome-wide association study in 24-month-old Finnish childrenCited by: 12
Author(s): Anders Kämpe, Maria Enlund-Cerullo, Saara Valkama, Elisa Holmlund-Suila, Jenni Rosendahl, Helena Hauta-alus, Minna Pekkinen, Sture Andersson, Outi Mäkitie
Software Mentions: 10
Published: almost 5 years ago
10.7554/eLife.41673
Genetic effects on promoter usage are highly context-specific and contribute to complex traitsCited by: 48
Author(s): Kaur Alasoo, Julia Rodrigues, John Danesh, Daniel F. Freitag, Dirk S. Paul, Daniel J Gaffney
Software Mentions: 8
Published: almost 6 years ago
10.1186/s13073-020-00806-6
Whole blood co-expression modules associate with metabolic traits and type 2 diabetes: an IMI-DIRECT studyCited by: 8
Author(s): Valborg Guðmundsdóttir, Helle Pedersen, Gianluca Mazzoni, Kristine H. Allin, Anna Artati, Joline W.J. Beulens, Karina Banasik, Caroline Brorsson, Henna Cederberg, Elizaveta Chabanova, Federico De Masi, Petra Elders, Ian Forgie, G Giordano, Harald Grallert, Ramneek Gupta, Mark Haid, Torben Hansen, Tue H. Hansen, Andrew T. Hattersley, Alison Heggie, Mun‐Gwan Hong, Angus G. Jones, Robert W. Koivula, Tarja Kokkola, Markku Laakso, Peter Løngreen, Anubha Mahajan, Andrea Mari, Colin N.A. Palmer, Donna McEvoy, Petra B. Musholt, Imre Pávó, Cornelia Prehn, Hartmut Ruetten, Martin Ridderstråle, Femke Rutters, Sapna Sharma, Roderick C. Slieker, Ali Syed, Juan Fernández Tajes, Cecilia Engel Thomas, Henrik S. Thomsen, Jagadish Vangipurapu, Henrik Vestergaard, Ana Viñuela, Agata Wesolowska-Andersen, Mark Walker, Jerzy Adamski, Jochen M. Schwenk, Mark McCarthy, Ewan R. Pearson, Emmanouil T. Dermitzakis, Paul W. Franks, Oluf Pedersen, Søren Brunak
Software Mentions: 7
Published: almost 4 years ago
10.1038/s41398-020-0710-4
Large epigenome-wide association study of childhood ADHD identifies peripheral DNA methylation associated with disease and polygenic risk burdenCited by: 49
Author(s): Michael A. Mooney, Peter Ryabinin, Beth Wilmot, Priya Bhatt, Jonathan Mill, Joel T. Nigg
Software Mentions: 6
Published: almost 5 years ago
10.1371/journal.pgen.1005908
Insight into Genotype-Phenotype Associations through eQTL Mapping in Multiple Cell Types in Health and Immune-Mediated DiseaseCited by: 83
Author(s): James E. Peters, Paul Lyons, James C. Lee, Alison F. Richard, Mary D Fortune, Paul Newcombe, Sylvia Richardson, Kenneth G. C. Smith
Software Mentions: 6
Published: over 8 years ago
10.1016/j.ajhg.2019.05.010
Genetic and Epigenetic Fine Mapping of Complex Trait Associated Loci in the Human LiverCited by: 33
Author(s): Minal Çalışkan, Elisabetta Manduchi, Harish Rao, Julian A. Segert, Márcia Holsbach Beltrame, Marco Trizzino, YoSon Park, Samuel White Baker, Alessandra Chesi, Matthew E. Johnson, Kenyaita M. Hodge, Michelle E. Leonard, Bao‐Li Loza, Xin Dong, Andrea M. Berrido, Nicholas J. Hand, Robert C. Bauer, Andrew D. Wells, Kim M. Olthoff, Abraham Shaked, Daniel J. Rader, Struan F.A. Grant, Christopher D. Brown
Software Mentions: 6
Published: over 5 years ago
10.7554/eLife.57492
Alternative polyadenylation mediates genetic regulation of gene expressionCited by: 33
Author(s): Briana E Mittleman, Sebastian Pott, Shane Warland, Teng Zeng, Zepeng Mu, Mayher Kaur, Yoav Gilad, Yang Li
Software Mentions: 5
Published: over 4 years ago
10.7554/eLife.48476
Systematic genetic analysis of the MHC region reveals mechanistic underpinnings of HLA type associations with diseaseCited by: 29
Author(s): Matteo D’Antonio, Joaquin Reyna, David Jakubosky, Maureen D. Donovan, Marc Jan Bonder, Hiroko Matsui, Oliver Stegle, Naoki Nariai, Agnieszka D’Antonio‐Chronowska, Kelly A. Frazer
Software Mentions: 5
Published: about 5 years ago
10.7554/eLife.33480
Determining the genetic basis of anthracycline-cardiotoxicity by molecular response QTL mapping in induced cardiomyocytesCited by: 86
Author(s): David A. Knowles, Courtney K Burrows, John Blischak, Kristen Patterson, Daniel J. Serie, Nadine Norton, Carole Ober, Jonathan K. Pritchard, Yoav Gilad
Software Mentions: 5
Published: over 6 years ago
10.1038/s41598-021-88827-y
A web-based survey on various symptoms of computer vision syndrome and the genetic understanding based on a multi-trait genome-wide association studyCited by: 4
Author(s): Keito Yoshimura, Yuji Morita, Kenji Konomi, Sachiko Ishida, Daisuke Fujiwara, Keisuke Kobayashi, Masami Tanaka
Software Mentions: 5
Published: over 3 years ago
10.1186/s13148-021-01041-5
Epigenome-wide association study of whole blood gene expression in Framingham Heart Study participants provides molecular insight into the potential role of CHRNA5 in cigarette smoking-related lung diseasesCited by: 11
Author(s): Chen Yao, Roby Joehanes, Rory Wilson, Toshiko Tanaka, Luigi Ferrucci, Anja Kretschmer, Holger Prokisch, Katharina Schramm, Christian Gieger, Annette Peters, Mélanie Waldenberger, Carola Marzi, Christian Herder, Daniel Levy
Software Mentions: 4
Published: over 3 years ago
10.1002/gepi.22374
Multi‐tissue transcriptome‐wide association studiesCited by: 8
Author(s): Nastasiya F. Grinberg, Chris Wallace
Software Mentions: 4
Published: almost 4 years ago
10.1186/s13059-020-01997-2
Characterisation of genetic regulatory effects for osteoporosis risk variants in human osteoclastsCited by: 29
Author(s): Benjamin H. Mullin, Jennifer Tickner, Kun Zhu, Jacob Kenny, Shelby Mullin, Suzanne J. Brown, Frank Dudbridge, Nathan J. Pavlos, Edward S. Mocarski, John P. Walsh, Jiake Xu, Scott G. Wilson
Software Mentions: 4
Published: over 4 years ago
10.1186/s13073-020-00754-1
Multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adultsCited by: 20
Author(s): Robert F. Hillary, Daniel Trejo Baños, Athanasios Kousathanas, Daniel L. McCartney, Sarah E. Harris, Anna J. Stevenson, Marion Patxot, Sven Erik Ojavee, Qian Zhang, David C. Liewald, Craig W. Ritchie, Kathryn Evans, Elliot M. Tucker‐Drob, Naomi R. Wray, Allan F. McRae, Peter M. Visscher, Ian J. Deary, Matthew R. Robinson, Riccardo E. Marioni
Software Mentions: 4
Published: over 4 years ago
10.1016/j.ajhg.2018.04.011
Landscape of Conditional eQTL in Dorsolateral Prefrontal Cortex and Co-localization with Schizophrenia GWASCited by: 118
Author(s): Amanda Dobbyn, Laura Huckins, James Boocock, Laura Sloofman, Benjamin S. Glicksberg, Claudia Giambartolomei, Gabriel E. Hoffman, Thanneer M. Perumal, Kiran Girdhar, Yan Jiang, Towfique Raj, Douglas M. Ruderfer, Robin Kramer, Dalila Pinto, Schahram Akbarian, Panos Roussos, Enrico Domenici, Bernie Devlin, Pamela Sklar, Eli A. Stahl, Solveig K. Sieberts
Software Mentions: 4
Published: over 6 years ago
10.1371/journal.pgen.1008104
A meta-analysis of genome-wide association studies of epigenetic age accelerationCited by: 77
Author(s): Jude Gibson, Tom C. Russ, Toni‐Kim Clarke, David M. Howard, Robert F. Hillary, Kathryn Evans, Richard M Martin, Mairead Lesley Bermingham, Stewart W. Morris, Archie Campbell, Caroline Hayward, Alison Murray, David J. Porteous, Steve Horvath, Ake T. Lu, Andrew M. McIntosh, Heather C. Whalley, Riccardo E. Marioni
Software Mentions: 4
Published: about 5 years ago
10.1371/journal.pgen.1009440
A more accurate method for colocalisation analysis allowing for multiple causal variantsCited by: 87
Author(s): Chris Wallace
Software Mentions: 4
Published: about 3 years ago
10.1186/s12859-021-04170-z
Estimating colocalization probability from limited summary statisticsCited by: 3
Author(s): Emily King, Fengjiao Dunbar, J. Wade Davis, Jacob F. Degner
Software Mentions: 4
Published: over 3 years ago
10.3390/cells9102257
Pleiotropic Locus 15q24.1 Reveals a Gender-Specific Association with Neovascular but Not Atrophic Age-Related Macular Degeneration (AMD)Cited by: 5
Author(s): Christina Kiel, Tobias Strunz, Felix Graßmann, Bernhard H. F. Weber
Software Mentions: 4
Published: about 4 years ago
10.1126/sciadv.aaw3095
GWAS on longitudinal growth traits reveals different genetic factors influencing infant, child, and adult BMICited by: 76
Author(s): Alexessander Couto Alves, N. Maneka G. De Silva, Ville Karhunen, Ulla Sovio, Shikta Das, H. Rob Taal, Nicole M. Warrington, Arie Y. Lewin, Marika Kaakinen, Diana L. Cousminer, Elisabeth Thiering, Nicholas J. Timpson, Tom A Bond, Estelle Lowry, Christopher D. Brown, Xavier Estivill, Virpi Lindi, Jonathan P. Bradfield, Frank Geller, Doug Speed, Lachlan Coin, Marie Loh, Sheila J. Barton, Lawrence J. Beilin, Hans Bisgaard, Klaus Bønnelykke, Rohia Alili, Ida J. Hatoum, Katharina Schramm, Rufus Cartwright, Charles Munier, Vincenzo Salerno, Karine Clément, Annique Claringbould, Cornelia M. van Duijn, Elena Moltchanova, Johan G. Eriksson, Cathy E. Elks, Bjarke Feenstra, Claudia Flexeder, Stephen Franks, Timothy M. Frayling, Rachel M. Freathy, Paul Elliott, Elisabeth Widén, Hákon Hákonarson, Andrew T. Hattersley, Alina Rodriguez, Marco Banterle, Joachim Heinrich, Barbara Heude, John W. Holloway, Albert Hofman, Elina Hyppönen, Hazel Inskip, Lee M. Kaplan, Åsa K. Hedman, Esa Läärä, Holger Prokisch, Harald Grallert, Timo A. Lakka, Debbie A. Lawlor, Mads Melbye, Tarunveer S. Ahluwalia, M. Marinelli, Iona Y. Millwood, Lyle J. Palmer, Craig E. Pennell, John Perry, Susan M. Ring, Markku J. Savolainen, Fernando Rivadeneira, Marie Standl, Jordi Sunyer, Carla M. T. Tiesler, André G. Uitterlinden, William Schierding, Justin M. O’Sullivan, Inga Prokopenko, Karl‐Heinz Herzig, George Davey Smith, Paul O’Reilly, Janine F. Felix, Jessica L. Buxton, Alexandra I. F. Blakemore, Ken K. Ong, Vincent W. V. Jaddoe, Struan F.A. Grant, Sylvain Sebért, Mark McCarthy, Marjo‐Riitta Järvelin
Software Mentions: 4
Published: about 5 years ago
10.1371/journal.pgen.1008934
A mega-analysis of expression quantitative trait loci in retinal tissueCited by: 20
Author(s): Tobias Strunz, Christina Kiel, Felix Graßmann, Rinki Ratnapriya, Madeline Kwicklis, Marcus Karlstetter, Sascha Fauser, Nicole Arend, Anand Swaroop, Thomas Langmann, Armin Wolf, Bernhard H. F. Weber
Software Mentions: 3
Published: about 4 years ago
10.1371/journal.pcbi.1007778
A powerful and versatile colocalization testCited by: 10
Author(s): Yangqing Deng, Wei Pan
Software Mentions: 3
Published: over 4 years ago
10.1371/journal.pcbi.1008336
LocusFocus: Web-based colocalization for the annotation and functional follow-up of GWASCited by: 25
Author(s): Naim Panjwani, Fan Wang, Scott Mastromatteo, Allen Bao, Cheng Wang, Gengming He, Jiafen Gong, Johanna M. Rommens, Lei Sun, Lisa J. Strug
Software Mentions: 3
Published: about 4 years ago
10.1371/journal.pgen.1008720
Eliciting priors and relaxing the single causal variant assumption in colocalisation analysesCited by: 144
Author(s): Chris Wallace
Software Mentions: 3
Published: over 4 years ago
10.1371/journal.pgen.1004383
Bayesian Test for Colocalisation between Pairs of Genetic Association Studies Using Summary StatisticsCited by: 1,738
Author(s): Claudia Giambartolomei, Damjan Vukcevic, Eric E. Schadt, Lude Franke, Aroon D. Hingorani, Chris Wallace, Vincent Plagnol
Software Mentions: 3
Published: over 10 years ago
10.3390/cells10092395
Assigning Co-Regulated Human Genes and Regulatory Gene ClustersCited by: 4
Author(s): Tobias Strunz, Martin Kellner, Christina Kiel, Bernhard H. F. Weber
Software Mentions: 3
Published: about 3 years ago
10.1186/s13059-021-02287-1
Genetic variation and microRNA targeting of A-to-I RNA editing fine tune human tissue transcriptomesCited by: 19
Author(s): Eddie Park, Yan Jiang, Lili Hao, Jingyi Hui, Yi Xing
Software Mentions: 3
Published: over 3 years ago
10.1038/s41598-021-82169-5
Transcriptome-wide Mendelian randomization study prioritising novel tissue-dependent genes for glioma susceptibilityCited by: 6
Author(s): Jamie Robinson, Richard M. Martin, Spiridon Tsavachidis, Amy Howell, Caroline L Relton, Georgina Armstrong, Melissa L. Bondy, Jie Zheng, Kathreena M. Kurian
Software Mentions: 3
Published: almost 4 years ago
10.1101/2021.08.13.21261910
Gene-environment interaction analysis incorporating sex, cardiometabolic diseases, and multiple deprivation index reveals novel genetic associations with COVID-19 severityCited by: 0
Author(s): Kenneth Westerman, Joanna Lin, Magda Sevilla-Gonzalez, Beza Tadess, Alisa K. Manning, Casey Marchek
Software Mentions: 3
Published: about 3 years ago
10.1186/s13073-021-00971-2
Genome-wide analyses of multiple obesity-related cytokines and hormones informs biology of cardiometabolic traitsCited by: 5
Author(s): Karlijn Meeks, Amy R. Bentley, Mateus H. Gouveia, Guanjie Chen, Jie Zhou, Lijing Lin, Adebowale Adeyemo, Ayo P. Doumatey, Charles Rotimi
Software Mentions: 2
Published: about 3 years ago
10.1172/jci.insight.144392
Proteomic profiling reveals biomarkers and pathways in type 2 diabetes riskCited by: 23
Author(s): Debby Ngo, Mark D. Benson, Jonathan Z. Long, Zsu-Zsu Chen, Ruiqi Wang, Anjali K. Nath, Michelle J. Keyes, Dongxiao Shen, Sumita Sinha, Eric Kuhn, Jordan Morningstar, Xu Shi, Bennet Peterson, Christopher T. Chan, Daniel H. Katz, Usman A. Tahir, Laurie Farrell, Olle Melander, Jonathan D. Mosley, Steven A. Carr, Ramachandran S. Vasan, Martin G. Larson, J. Gustav Smith, Thomas J. Wang, Qiong Yang, Robert E. Gerszten
Software Mentions: 2
Published: over 3 years ago
10.1002/jbmr.3605
Identification of Novel Loci Associated With Hip Shape: A Meta‐Analysis of Genomewide Association StudiesCited by: 44
Author(s): Denis Baird, Daniel S. Evans, Frederick Kamanu, Jennifer S. Gregory, Fiona Saunders, Claudiu V. Giuraniuc, Rebecca Barr, Richard M. Aspden, Deborah A. Jenkins, Douglas P. Kiel, Eric S. Orwoll, Steven R. Cummings, Nancy E Lane, Benjamin H. Mullin, Frances Williams, J. Brent Richards, Scott G. Wilson, Tim D. Spector, Benjamin G Faber, Debbie A. Lawlor, Elin Grundberg, Claes Ohlsson, Ulrika Pettersson-Kymmer, Terence D. Capellini, Daniel Richard, Thomas Beck, David M. Evans, Lavinia Paternoster, David Karasik, Jonathan H Tobias
Software Mentions: 2
Published: almost 6 years ago
10.1371/journal.ppat.1007372
Apolipoprotein E is an HIV-1-inducible inhibitor of viral production and infectivity in macrophagesCited by: 16
Author(s): Rokeya Siddiqui, Shinya Suzu, Munetaka Ueno, Hesham Nasser, Ryota Koba, Farzana Bhuyan, Osamu Noyori, Sofiane Hamidi, Guojun Sheng, Mariko Yasuda-Inoue, Takayuki Hishiki, Sayaka Sukegawa, Eri Miyagi, Klaus Strebel, Shuzo Matsushita, Kunitada Shimotohno, Yasuo Ariumi
Software Mentions: 2
Published: almost 6 years ago
10.1039/c8ra00265g
Pyridazine-bridged cationic diiridium complexes as potential dual-mode bioimaging probesCited by: 13
Author(s): Ruth Daniels, Luke K. McKenzie, Jonathan R. Shewring, Julia A. Weinstein, Valery N. Kozhevnikov, Helen E. Bryant
Software Mentions: 2
Published: almost 7 years ago
10.3389/fpls.2013.00238
ARP2/3 localization in Arabidopsis leaf pavement cells: a diversity of intracellular pools and cytoskeletal interactionsCited by: 33
Author(s): Chunhua Zhang, Eileen L. Mallery, Daniel B. Szymanski
Software Mentions: 2
Published: almost 12 years ago
10.1007/s00125-021-05428-0
Analysis of overlapping genetic association in type 1 and type 2 diabetesCited by: 19
Author(s): Jamie Inshaw, Carlo Sidore, Francesco Cucca, M. Irina Stefana, Crouch Djm., Mark McCarthy, Anubha Mahajan, John A. Todd
Software Mentions: 2
Published: over 3 years ago
10.1038/s41598-019-45747-2
Interleukin-18 as a drug repositioning opportunity for inflammatory bowel disease: A Mendelian randomization studyCited by: 22
Author(s): Lauren Mokry, Sirui Zhou, Cong Guo, Robert A. Scott, Luke Devey, Claudia Langenberg, Nick Wareham, Dawn Waterworth, Lon R. Cardon, Philippe Sanséau, George Davey Smith, J. Brent Richards
Software Mentions: 2
Published: over 5 years ago
10.1016/j.ajhg.2021.03.009
A catalog of GWAS fine-mapping efforts in autoimmune diseaseCited by: 20
Author(s): Minal Çalışkan, Christopher D. Brown, Joseph C. Maranville
Software Mentions: 2
Published: over 3 years ago
10.1371/journal.pone.0074687
The Rab11 Effector Protein FIP1 Regulates Adiponectin Trafficking and SecretionCited by: 22
Author(s): Brian P. Carson, Josep Maria del Bas, José María Moreno-Navarrete, José Manuel Fernández‐Real, Sílvia Mora
Software Mentions: 2
Published: about 11 years ago
10.1371/journal.pgen.1006646
Integrating molecular QTL data into genome-wide genetic association analysis: Probabilistic assessment of enrichment and colocalizationCited by: 186
Author(s): Xiaoquan Wen, Roger Piqué-Regi, Francesca Luca
Software Mentions: 2
Published: over 7 years ago
10.1016/j.ajhg.2020.04.007
Characterizing the Causal Pathway for Genetic Variants Associated with Neurological Phenotypes Using Human Brain-Derived Proteome DataCited by: 50
Author(s): Nelson Kibinge, Caroline L Relton, Tom R. Gaunt, Tom G Richardson
Software Mentions: 2
Published: over 4 years ago
10.1002/ijc.32947
Mendelian randomisation analysis of circulating adipokines and C‐reactive protein on breast cancer riskCited by: 19
Author(s): Tim Robinson, Richard M. Martin, James Yarmolinsky
Software Mentions: 2
Published: over 4 years ago
10.1186/s13024-021-00449-0
Beyond association: successes and challenges in linking non-coding genetic variation to functional consequences that modulate Alzheimer’s disease riskCited by: 18
Author(s): Gloriia Novikova, Shea J. Andrews, Alan E. Renton, Edoardo Marcora
Software Mentions: 2
Published: over 3 years ago
10.3390/molecules21101382
Towards Water Soluble Mitochondria-Targeting Theranostic Osmium(II) Triazole-Based ComplexesCited by: 16
Author(s): Salem A. E. Omar, Paul A. Scattergood, Luke K. McKenzie, Helen E. Bryant, Julia A. Weinstein, Paul I. P. Elliott
Software Mentions: 2
Published: about 8 years ago
10.1186/s12863-021-00975-2
Mapping methylation quantitative trait loci in cardiac tissues nominates risk loci and biological pathways in congenital heart diseaseCited by: 6
Author(s): Ming Li, Chao Lyu, Manyan Huang, Catherine Do, Benjamin Tycko, Philip J. Lupo, Stewart L. MacLeod, Christopher E. Randolph, Nianjun Liu, John S. Witte, Charlotte A. Hobbs
Software Mentions: 2
Published: over 3 years ago
10.1186/s13059-020-02252-4
Exploiting the GTEx resources to decipher the mechanisms at GWAS lociCited by: 117
Author(s): Alvaro N. Barbeira, Rodrigo Bonazzola, Eric R. Gamazon, Yanyu Liang, YoSon Park, Sarah Kim-Hellmuth, Gao Wang, Zhuoxun Jiang, Dan Zhou, Farhad Hormozdiari, Boxiang Liu, Abhiram Rao, Andrew R Hamel, Milton Pividori, François Aguet, Lisa Bastarache, Daniel M. Jordan, Marie Verbanck, Ron Do, Matthew Stephens, Kristin Ardlie, Mark McCarthy, S Montgomery, Ayellet V. Segrè, Christopher D. Brown, Tuuli Lappalainen, Xiaoquan Wen, Hae Kyung Im
Software Mentions: 2
Published: almost 4 years ago
10.1534/g3.118.200469
Evidence of<i>Zip1</i>Promoting Sister Kinetochore Mono-orientation During Meiosis in Budding YeastCited by: 10
Author(s): Hemant Kumar Prajapati, Meenakshi Agarwal, Santanu Ghosh
Software Mentions: 2
Published: about 6 years ago