Genes and Addiction NIDA Center for GWAS in Outbred Rats

Datasets List
19 datasets

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Publication name and date	Genotypes	Phenotypes	Omics Data	Sample size	Dataset access	Phenotype IDS	Publication link	Authors
Chitre AS et al. Genome-Wide Association Study in 3,173 Outbred Rats Identifies Multiple Loci for Body Weight, Adiposity, and Fasting Glucose. Obesity (Silver Spring). 2020 Oct;28(10):1964-1973. doi: 10.1002/oby.22927. Epub 2020 AUG 29. PMID: 32860487; PMCID: PMC7511439. 2022	3,400,759 SNPs Version 2018	Body length with no tail body length with tail body weight +5	None	3173	UCSD library	parametrial-fat-weight-g_UBERON_UBERON:0010413 parametrial-fat-weight-g_MGI_MP:0005375 Body length with no tail CMO_0002804 (ontobee/PATO) Body length with tail CMO_0000078 (ontobee/PATO) Body weight CMO_0000079 (ontobee/PATO) Body Mass Index NoTail CMO_0002781 (ontobee/PATO) Retroperitoneal fat pad UBERON:0010411 Epididymal fat pad UBERON:0010412	https://pubmed.ncbi.nlm.nih.gov/32860487/	Apurva S Chitre Oksana Polesskaya Riyan Cheng Hannah Bimschleger Hao Chen Shelly B Flagel Paul Meyer Terry E Robinson Abraham A Palmer Leah C Solberg Woods Alexander F Gileta Keita Ishiwari Christopher P King Alexander Lamparelli Angel Garcia Martinez Tony George Katie Holl Jianjun Gao Cassandra L Versaggi Celine L St Pierre Jordan A Tripi Tengfei Wang Wenyan Han Jerry Richards Alesa Hughson
Genetic architecture for cecum metabolomics of heterogeneous stock rats undercover candidate genes for metabolome abundance and presence TBD	Version R8	Cocaine Contextual Conditioning Cocaine Conditioned cue Preference	Metabolomics	1000	More details			Joel D. Leal-Gutiérrez Apurva S. Chitre Oksana Polesskaya Riyan Cheng Alexander F. Gileta Keita Ishiwari Christopher P. King Alexander Lamparelli Tengfei Wang Hao Chen Shelly B. Flagel Paul Meyer Terry E. Robinson Leah C. Solberg Woods Abraham A. Palmer Denghui Chen Wenyan Han Michael Garrett Jerry Richards Cassandra L. Versaggi Connor Martin Celine L. St. Pierre, Jordan A. Tripi Aidan Horvath Alesa Hughson Milad Mortazavi Hannah Bimschleger, Angel Garcia Martinez Tony George Katie Holl Jianjun Gao Bonnie Lin Daniel Munro
Genetic basis for unilateral renal agenesis in heterogenous stock rats TBD	Version R8	Unilateral renal agenesis	None	5585	More details			Joel D. Leal-Gutiérrez Apurva S. Chitre Oksana Polesskaya Riyan Cheng Alexander F. Gileta Keita Ishiwari Christopher P. King Alexander Lamparelli Tengfei Wang Hao Chen Shelly B. Flagel Paul Meyer Terry E. Robinson Leah C. Solberg Woods Abraham A. Palmer Denghui Chen Michael Garrett Jerry Richards Cassandra L. Versaggi Connor Martin Celine L. St. Pierre, Jordan A. Tripi Wenyan Han Aidan Horvath Alesa Hughson Milad Mortazavi Hannah Bimschleger, Angel Garcia Martinez Tony George Katie Holl Jianjun Gao Bonnie Lin Daniel Munro
Gunturkun et al., Genome-Wide Association Study on Three Behaviors Tested in an Open Field in Heterogeneous Stock Rats Identifies Multiple Loci Implicated in Psychiatric Disorders. Front Psychiatry. 2022 Feb 14;13:790566. doi: 10.3389/fpsyt.2022.790566. PMID: 35237186; PMCID: PMC8882588. 2022	3,513,494 Version R8	Locomotion Novel Object Interaction +1	None	1246	More details	ontology for behavior phenotypes		Hakan Gunturkun, Mustafa Chen, Hao Wang, Tengfei Chitre, Apurva St. Pierre, Celine Bimschleger, Hannah Cheng, Riyan Polesskaya, Oksana Solberg-Woods, Leah Palmer, Abraham Garcia Martinez, Angel Holl, Katie Gao, Jianjun
P50 Project 1, P50: Genetic Studies of Incentive Salience 2014-2019	4,609,405, Version R9	Cocaine Contextual Conditioning Novelty seeking Pavlovian Conditioned Approach	None	1600	More details		https://ratgenes.org/research-projects/rp1/	Shelly Flagel Terry Robinson
P50 Project 1: Neurogenetic Substrates of Cocaine Addiction 2019-2024	4,609,405, version R9	Intermittent access to cocaine	RNA-Seq	Goal: 1600 Current: 1911	More details	None	https://ratgenes.org/research-projects/rp1new/	Paul Meyer Chris King
P50 Project 2: Socially-acquired nicotine self-administration	4,609,405, Version R9	Open Field Novel Object Interaction Test Nicotine self-administration +1	None	Goal: 4800 Current: 2600	More details	trait,InterLex ID novel_object_age,ILX:0793285 novel_object_arena,ILX:0793286 novel_object_batchnumber,ILX:0793287 novel_object_cntrdurat,ILX:0793288 novel_object_cntrfreq,ILX:0793289 novel_object_cntrlate,ILX:0793290 novel_object_color,ILX:0793291 novel_object_dist2ctrmean,ILX:0793292 novel_object_dist2ctrtotal,ILX:0793293 novel_object_sex,ILX:0793294 novel_object_totaldistance,ILX:0793295 open_field_age,ILX:0793296 open_field_arena,ILX:0793297 open_field_batchnumber,ILX:0793298 open_field_cntrdurat,ILX:0793299 open_field_cntrfreq,ILX:0793300 open_field_cntrlate,ILX:0793301 open_field_color,ILX:0793302 open_field_dist2ctrmean,ILX:0793303 open_field_dist2ctrtotal,ILX:0793304 open_field_sex,ILX:0793305 open_field_totaldistance,ILX:0793306 rfid,ILX:0793307 social_interaction_age,ILX:0793308 social_interaction_arena,ILX:0793309 social_interaction_batchnumber,ILX:0793310 social_interaction_color,ILX:0793311 social_interaction_dist2objzonemean,ILX:0793312 social_interaction_dist2objzonetotal,ILX:0793313 social_interaction_dist2socmean,ILX:0793314 social_interaction_dist2soctotal,ILX:0793315 social_interaction_inobjzonedura,ILX:0793316 social_interaction_inobjzonefreq,ILX:0793317 social_interaction_inobjzonelate,ILX:0793318 social_interaction_insoczonedura,ILX:0793319 social_interaction_insoczonefreq,ILX:0793320 social_interaction_insoczonelate,ILX:0793321 social_interaction_sex,ILX:0793322 social_interaction_totaldistance,ILX:0793323 bmi_wo_tail,ILX:0793324 bmi_w_tail,ILX:0793325 body_weight_g,ILX:0793326 epididymis_fat_weight_g,ILX:0793327 glucose_reading_mg_dl,ILX:0793328 length_wo_tail_cm,ILX:0793329 length_w_tail_cm,ILX:0793330 parametrial_fat_weight_g,ILX:0793331 retroperitoneal_fat_weight_g,ILX:0793332 tail_length,ILX:0793333		Hao Chen
P50 Project 3: Association between behavioral regulation and cocaine cue preference 2014-2024	4,609,405, version R9.1	Locomotor Response Delay Discounting Light Reinforcement +5	None	Goal: 1600 Current: 1066	More details		https://ratgenes.org/research-projects/rp3/	David Dietz Keita Ishiwari Paul Meyer Suzanne Mitchell Jerry Richards
P50 Project 4, P50: Network-based analysis 2019-2024	4,609,405, version R9	N/A	None	various	More details		https://ratgenes.org/research-projects-rp4-networks/	Trey Ideker
R01: Identification of Genes Regulating Bone Matrix Composition and Quality 9/15/2016	None	Bone density	None	Goal = 4800	More details			Douglas Adams

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Improving our understanding of genetic susceptibility

NIDA center for genetic studies of drug abuse in outbred rats (P50DA037844)

There are few effective therapies to treat drug abuse and dependence, despite the urgent need to develop more effective treatments. A major impediment to the development of such treatments is our extremely limited understanding of the biological basis of drug abuse.

While human genome-wide association studies (GWAS) have begun to elucidate genes that influence various traits relevant to drug abuse, they are still unable to attribute more than a small fraction of the heritable variance to specific genes. NIDA center for genetic studies of drug abuse in outbred rats (P50DA037844) was created in 2014 to perform GWAS on numerous behavioral traits that have well-established relevance to drug abuse using outbred rats. The Center was successfully renewed in 2019. We expect to discover new genes that can influence drug abuse-related behaviors in rats, therefore improving our understanding of genetic susceptibility to drug abuse in humans. Our results will help to identify new opportunities to treat psychiatric disorders, including addiction.