<br/>Many people wonder if Alzheimer’s diseas...
Genomic analysis and related molecular analysis technologies undergo rapid advancements, in principle enabling the identification of any genetic alteration potentially implicated in the pathogenesis of diseases and conditions - for germline analyses ...
Study finds that the release of captive bred animals carefully selected for their genes can make a significant contribution to the recovery of the dwindling wild population and avert the prospect of extinction.
The authors of a major study on the Critically Endangered Arabian leopard say that the release of captive bred animals carefully selected for their genes can make a significant contribution to the successful recovery of the dwindling wild population and avert the prospect of extinction.
An international collaboration led by scientists from the Durrell Institute of Conservation and Ecology (DICE) at the University of Kent, University of East Anglia (UEA), University College London (UCL), Nottingham-Trent University (NTU) and the Diwan of Royal Court in Oman, surveyed the remote Dhofar mountain range of southern Oman to determine how many of Arabia's last big cat survive.
By deploying camera traps to identify individual leopards and performing DNA analyses from wild leopard scat alongside samples from the captive population, the team estimates there could be only 51 wild leopards remaining in Oman, distributed between three isolated, genetically impoverished but distinct subpopulations.
Despite revealing extremely low levels of genetic diversity in the wild leopard population in Oman, the team discovered higher levels of genetic diversity in captive leopards across the region, in particular among several individuals originating from neighbouring Yemen that helped found today's captive-breeding population. This important genetic resource has the potential for a major role in successful recovery of the Arabian leopard.
The team's research showed that the dwindling regional wild population, could most effectively be recovered thorough 'genetic rescue', namely, the introduction of offspring from captive-bred leopards -- which harbour the greatest amount of genetic diversity -- into the wild population. However, their predictions indicate that for genetic rescue to establish the most viable populations through leopard reintroductions, the benefit that new genes can bring needs to be carefully assessed, in particular because captive leopards may already be in-bred.
The study, published in Evolutionary Applications , used conservation genetic analysis at DICE, cutting-edge computer simulations developed at UEA, and extensive fieldwork in Oman, to closely examine Arabian leopard DNA and assess the risk of future extinction, as well as forecasting how genetic rescue can secure the leopard's viability. The authors say their findings could help other threatened species.
Professor Jim Groombridge, who led the research at Kent's DICE, explained how the genetic analysis was carried out: 'In collaboration with the Diwan of Royal Court in Oman, we surveyed and collected leopard scats from across the Dhofar mountain range, and extracted DNA from them which we analysed using microsatellite DNA markers to quantify genetic diversity.
'Using the genetic information, we were able to determine the number of leopard individuals that remain in the wild. We could then compare levels of genetic diversity between the wild leopard population and those in captivity.'
Dr Hadi Al Hikmani, Arabian leopard Conservation Lead at the Royal Commission for AlUla in Saudi Arabia, described the motivation for this study: 'The Arabian leopard is one of the world's rarest carnivores and is extraordinarily elusive. The only way to monitor these leopards in the wild is to deploy camera traps high up across the mountain ranges where the leopards live, and to collect the scats they leave behind on the mountain passes, for DNA analysis.'
Thomas Birley, a PhD researcher at UEA who performed the computer simulations for genetic rescue, said: 'By using the genetic information from the wild and captive populations, we were able to forecast the best plan for genetic rescue to ensure long-term viability for this Critically Endangered big cat.'
Professor Cock van Oosterhout, of the School of Environmental Sciences at UEA, added: 'The problem is that all individuals are somehow related to each other. They are the descendants of the few ancestors that managed to survive a major population crash. Hence, it becomes virtually impossible to stop inbreeding, and this exposes 'bad' mutations, what we call genetic load. In turn, this can increase the mortality rate, causing further population collapse.'
'The genetic load poses a severe threat, but it can be alleviated by genetic rescue, and our study has projected the best way to do this. The wild population needs 'genetic rescue' from more genetically diverse leopards bred in captivity. These leopards are genetically more diverse, and they can help to reduce the level of inbreeding and genetic load. However, there is a risk that we could introduce other bad mutations from the captive population into the wild, so we will need a careful balance.'
Story Source:
Materials provided by University of Kent . Original written by Olivia Miller. Note: Content may be edited for style and length.
Related Multimedia :
Journal Reference :
Cite This Page :
Strange & offbeat.
A .gov website belongs to an official government organization in the United States.
A lock ( ) or https:// means you've safely connected to the .gov website. Share sensitive information only on official, secure websites.
This page provides information about basic genetic concepts such as DNA, genes, chromosomes, and gene expression.
Your genes affect many things about you, including how you look (for example, your eye color or height) and how your body works (for example, your blood type). In some cases, your genes are linked to diseases that run in your family. In other cases, your genes influence how your body reacts to health conditions, such as infections; to medicines or other treatments for health conditions; or to certain behaviors, such as smoking or alcohol use.
Better understanding of how genes affect health can improve health in many ways. Knowing if someone has a genetic difference that makes them more likely to get a disease can help them take steps to prevent the disease or find it earlier, when it is easier to treat. If someone already has symptoms of a disease or condition, finding out the genetic difference that causes that disease or condition can help the healthcare provider understand what health outcomes the person might have in the future. Improved understanding of how genes are linked to disease can lead to better treatments for those diseases.
DNA (which is short for deoxyribonucleic acid) contains the instructions for making your body work. DNA is made up of two strands that wind around each other and looks like a twisting ladder (a shape called a double helix). Each DNA strand includes chemicals called nitrogen bases, which make up the DNA code. There are four different bases, T (thymine), A (adenine), C (cytosine), and G (guanine). Each base on one strand of DNA is paired with a base on the other strand. The paired bases form the "rungs of the DNA ladder".
The bases are in different orders on different parts of the DNA strand. DNA is "read" by the order of the bases, that is by the order of the Ts, Cs, Gs, and As. The order of these bases is what is known as the DNA sequence. The DNA in almost all living things is made up of the same parts. What's different is the DNA sequence.
Genetic inheritance is the process of passing down DNA from parents to children.
Your genome is all of the DNA in your body.
DNA is packaged into small units called chromosomes. A chromosome contains a single, long piece of DNA with many different genes. You inherit your chromosomes from your parents. Chromosomes come in pairs. Humans have 46 chromosomes, in 23 pairs. Children randomly get one of each pair of chromosomes from their mother and one of each pair from their father. There are 22 pairs of numbered chromosomes, called autosomes, and the chromosomes that form the 23rd pair are called the sex chromosomes. They determine if a person is born a male or female. A female has two X chromosomes, and a male has one X and one Y chromosome. Each daughter gets an X from her mother and an X from her father. Each son gets an X from his mother and a Y from his father.
Each chromosome has many genes. Genes are specific sections of DNA that have instructions for making proteins. Proteins make up most of the parts of your body and make your body work the right way.
You have two copies of every gene. You inherit one copy from your father and one copy from your mother. The genes people inherit from their parents can determine many things. For example, genes affect what a person will look like and whether the person might have certain diseases.
Alleles are forms of the same gene that may have small differences in their sequence of DNA bases. These differences contribute to each person's unique features. Each person has two alleles for each gene, one from each parent. If the alleles of a gene are the same, the person is considered homozygous for the gene. If the alleles are different, the person is considered heterozygous for the gene.
Most of the time, differences between alleles do not have much of an effect on the protein that is made. However, sometimes different alleles can result in differences in traits, such as blood type. Some alleles are associated with health problems or genetic disorders. In these alleles, the differences in the sequence of DNA bases affects the body's ability to make a certain protein.
Because your genes were passed down from your parents, you and your family members share many gene alleles. The more closely related you are, the more gene alleles you have in common.
Cells are the basic units of life. The human body contains trillions of cells. There are many different types of cells that make up the many different tissues and organs in the body. For example, skin cells, blood cells, heart cells, brain cells, and kidney cells are just a few of the cell types that perform different vital functions in the body.
The basic structure of a cell is a jelly-like substance known as cytoplasm, which is surrounded by a membrane to hold it together. Within the cytoplasm are various specialized structures that are important to the work of the cell. One of these structures is the cell nucleus, which contains the DNA packaged in chromosomes.
Gene expression refers to the process of making proteins using the instructions from genes. A person's DNA includes many genes that have instructions for making proteins. Additionally, certain sections of DNA are not part of a gene but are important in making sure the genes are working properly. These DNA sections provide directions about where in the body each protein should be made, when it should be made, and how much should be made.
For the most part, every cell in a person's body contains exactly the same DNA and genes, but inside individual cells some genes are active ("turned on") while others are not. Differences in how genes are used (expressed) to make proteins are why the different parts of your body look and work differently. For example, gene expression in the muscles is different from gene expression in the nerves.
Gene expression can change as you age. Also, your behaviors, such as smoking or exercise, or exposures in your environment can affect gene expression.
DNA methylation works by adding a chemical (known as a methyl group) to DNA. This chemical can also be removed from the DNA through a process called demethylation. Typically, methylation turns genes "off" and demethylation turns genes "on."
DNA methylation is one of the ways the body controls gene expression. Methylation and demethylation do not change the DNA code (the sequence of the DNA bases), but they help determine how much protein is made.
A genetic change (sometimes called a mutation, gene variant, or genetic variant) is a change in a DNA base sequence. While not all genetic changes will cause problems, sometimes, changes in genes can lead to changes in proteins and then the proteins don't work the way they are supposed to. This can lead to disease.
Some genetic changes can be passed on from parent to child (inherited). These genetic changes occur in the germ cells, which are the cells that create sperm or eggs. Genetic changes that occur in the other cells in the body (known as somatic cells) do not get passed on to a person's children.
Genetic changes happen when new cells are being made and the DNA is copied. Also, exposures, such as high levels of radiation, can damage the DNA and cause genetic changes. However, most exposures will not result in genetic changes because each cell in the body has a system in place to check for DNA damage and repair the damage once it's found.
Copy number variation (CNV) refers to a feature of the genome, in which various sections of a person's DNA are repeated. While this happens in all people, the number of repeats (or copies) varies from one person to the next. CNVs play an important role in creating genetic diversity in humans. However, some CNVs are linked to diseases.
Environmental factors include exposures related to where we live, such as air pollution; behaviors, such as smoking and exercise; and other health-related factors, such as the foods that we eat.
Epigenetics refers to the ways a person's behaviors and the environment can cause changes that affect the way the genes work. Epigenetics turns genes "on" and "off" and thus is related to gene expression.
Epigenetics change as people age, both as part of normal development and aging and because of exposure to environmental factors that happen over the course of a person's life. There are several different ways an environmental factor can cause an epigenetic change to occur. One of the most common ways is by causing changes to DNA methylation. DNA methylation works by adding a chemical (known as a methyl group) to DNA. This chemical can also be removed from the DNA through a process called demethylation. Typically, methylation turns genes "off" and demethylation turns genes "on." Thus, environmental factors can impact the amount of protein a cell makes. Less protein might be made if an environmental factor causes an increase in DNA methylation, and more protein might be made if a factor causes an increase in demethylation.
Learn more about genomics and its importance for your health
Numbers, Facts and Trends Shaping Your World
Read our research on:
Full Topic List
Read Our Research On:
As economic outcomes for young adults with and without degrees have improved, americans hold mixed views on the value of college, table of contents.
Pew Research Center conducted this study to better understand public views on the importance of a four-year college degree. The study also explores key trends in the economic outcomes of young adults among those who have and have not completed a four-year college degree.
The analysis in this report is based on three data sources. The labor force, earnings, hours, household income and poverty characteristics come from the U.S. Census Bureau’s Annual Social and Economic Supplement of the Current Population Survey. The findings on net worth are based on the Federal Reserve’s Survey of Consumer Finances.
The data on public views on the value of a college degree was collected as part of a Center survey of 5,203 U.S. adults conducted Nov. 27 to Dec. 3, 2023. Everyone who took part in the survey is a member of Pew Research Center’s American Trends Panel (ATP), an online survey panel that is recruited through national, random sampling of residential addresses. Address-based sampling ensures that nearly all U.S. adults have a chance of selection. The survey is weighted to be representative of the U.S. adult population by gender, race, ethnicity, partisan affiliation, education and other categories. Read more about the ATP’s methodology .
Here are the questions used for this report , along with responses, and the survey’s methodology .
Young adults refers to Americans ages 25 to 34.
Noncollege adults include those who have some college education as well as those who graduated from high school but did not attend college. Adults who have not completed high school are not included in the analysis of noncollege adults. About 6% of young adults have not completed high school. Trends in some labor market outcomes for those who have not finished high school are impacted by changes in the foreign-born share of the U.S. population. The Census data used in this analysis did not collect information on nativity before 1994.
Some college includes those with an associate degree and those who attended college but did not obtain a degree.
The some college or less population refers to adults who have some college education, those with a high school diploma only and those who did not graduate high school.
A full-time, full-year worker works at least 50 weeks per year and usually 35 hours a week or more.
The labor force includes all who are employed and those who are unemployed but looking for work.
The labor force participation rate is the share of a population that is in the labor force.
Young adults living independently refers to those who are not living in the home of either of their parents.
Household income is the sum of incomes received by all members of the household ages 15 and older. Income is the sum of earnings from work, capital income such as interest and dividends, rental income, retirement income, and transfer income (such as government assistance) before payments for such things as personal income taxes, Social Security and Medicare taxes, union dues, etc. Non-cash transfers such as food stamps, health benefits, subsidized housing and energy assistance are not included. As household income is pretax, it does not include stimulus payments or tax credits for earned income and children/dependent care.
Net worth, or wealth, is the difference between the value of what a household owns (assets) and what it owes (debts).
All references to party affiliation include those who lean toward that party. Republicans include those who identify as Republicans and those who say they lean toward the Republican Party. Democrats include those who identify as Democrats and those who say they lean toward the Democratic Party.
At a time when many Americans are questioning the value of a four-year college degree, economic outcomes for young adults without a degree are improving.
After decades of falling wages, young U.S. workers (ages 25 to 34) without a bachelor’s degree have seen their earnings increase over the past 10 years. Their overall wealth has gone up too, and fewer are living in poverty today.
Things have also improved for young college graduates over this period. As a result, the gap in earnings between young adults with and without a college degree has not narrowed.
The public has mixed views on the importance of having a college degree, and many have doubts about whether the cost is worth it, according to a new Pew Research Center survey.
These findings come amid rising tuition costs and mounting student debt . Views on the cost of college differ by Americans’ level of education. But even among four-year college graduates, only about a third (32%) say college is worth the cost even if someone has to take out loans – though they are more likely than those without a degree to say this.
Four-year college graduates (58%) are much more likely than those without a college degree (26%) to say their education was extremely or very useful in giving them the skills and knowledge they needed to get a well-paying job. (This finding excludes the 9% of respondents who said this question did not apply to them.)
Views on the importance of college differ widely by partisanship. Republicans and Republican-leaning independents are more likely than Democrats and Democratic leaners to say:
At the same time that the public is expressing doubts about the value of college, a new Center analysis of government data finds young adults without a college degree are doing better on some key measures than they have in recent years.
A narrow majority of workers ages 25 to 34 do not have a four-year college degree (54% in 2023). Earnings for these young workers mostly trended downward from the mid-1970s until roughly a decade ago.
Outcomes have been especially poor for young men without a college degree. Other research has shown that this group saw falling labor force participation and sagging earnings starting in the early 1970s , but the last decade has marked a turning point.
This analysis looks at young men and young women separately because of their different experiences in the labor force.
Fresh data delivery Saturday mornings
Weekly updates on the world of news & information
From businesses and banks to colleges and churches: americans’ views of u.s. institutions, fewer young men are in college, especially at 4-year schools, key facts about u.s. latinos with graduate degrees, private, selective colleges are most likely to use race, ethnicity as a factor in admissions decisions, most popular, report materials.
1615 L St. NW, Suite 800 Washington, DC 20036 USA (+1) 202-419-4300 | Main (+1) 202-857-8562 | Fax (+1) 202-419-4372 | Media Inquiries
ABOUT PEW RESEARCH CENTER Pew Research Center is a nonpartisan fact tank that informs the public about the issues, attitudes and trends shaping the world. It conducts public opinion polling, demographic research, media content analysis and other empirical social science research. Pew Research Center does not take policy positions. It is a subsidiary of The Pew Charitable Trusts .
Copyright 2024 Pew Research Center
Thank you for visiting nature.com. You are using a browser version with limited support for CSS. To obtain the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles and JavaScript.
Nature Genetics volume 56 , pages 758–766 ( 2024 ) Cite this article
13 Altmetric
Metrics details
Human pluripotent stem (hPS) cells can, in theory, be differentiated into any cell type, making them a powerful in vitro model for human biology. Recent technological advances have facilitated large-scale hPS cell studies that allow investigation of the genetic regulation of molecular phenotypes and their contribution to high-order phenotypes such as human disease. Integrating hPS cells with single-cell sequencing makes identifying context-dependent genetic effects during cell development or upon experimental manipulation possible. Here we discuss how the intersection of stem cell biology, population genetics and cellular genomics can help resolve the functional consequences of human genetic variation. We examine the critical challenges of integrating these fields and approaches to scaling them cost-effectively and practically. We highlight two areas of human biology that can particularly benefit from population-scale hPS cell studies, elucidating mechanisms underlying complex disease risk loci and evaluating relationships between common genetic variation and pharmacotherapeutic phenotypes.
This is a preview of subscription content, access via your institution
Access Nature and 54 other Nature Portfolio journals
Get Nature+, our best-value online-access subscription
24,99 € / 30 days
cancel any time
Subscribe to this journal
Receive 12 print issues and online access
195,33 € per year
only 16,28 € per issue
Buy this article
Prices may be subject to local taxes which are calculated during checkout
A deep catalogue of protein-coding variation in 983,578 individuals.
Thomson, J. A. Embryonic stem cell lines derived from human blastocysts. Science https://doi.org/10.1126/science.282.5391.1145 (1998).
Takahashi, K. & Yamanaka, S. Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors. Cell 126 , 663–676 (2006).
Article CAS PubMed Google Scholar
Takahashi, K. et al. Induction of pluripotent stem cells from adult human fibroblasts by defined factors. Cell 131 , 861–872 (2007).
Liu, G., David, B. T., Trawczynski, M. & Fessler, R. G. Advances in pluripotent stem cells: history, mechanisms, technologies, and applications. Stem Cell Rev. Rep. 16 , 3–32 (2020).
Article PubMed Google Scholar
Efrat, S. Epigenetic memory: lessons from iPS cells derived from human β cells. Front. Endocrinol. 11 , 614234 (2020).
Article Google Scholar
Anderson, R. H. & Francis, K. R. Modeling rare diseases with induced pluripotent stem cell technology. Mol. Cell. Probes 40 , 52–59 (2018).
Article CAS PubMed PubMed Central Google Scholar
Spitalieri, P., Talarico, V. R., Murdocca, M., Novelli, G. & Sangiuolo, F. Human induced pluripotent stem cells for monogenic disease modelling and therapy. World J. Stem Cells 8 , 118–135 (2016).
Article PubMed PubMed Central Google Scholar
Passier, R., Orlova, V. & Mummery, C. Complex tissue and disease modeling using hiPSCs. Cell Stem Cell 18 , 309–321 (2016).
Warren, C. R., Jaquish, C. E. & Cowan, C. A. The NextGen genetic association studies consortium: a foray into in vitro population genetics. Cell Stem Cell 20 , 431–433 (2017).
Visscher, P. M., Brown, M. A., McCarthy, M. I. & Yang, J. Five years of GWAS discovery. Am. J. Hum. Genet. 90 , 7–24 (2012).
Tak, Y. G. & Farnham, P. J. Making sense of GWAS: using epigenomics and genome engineering to understand the functional relevance of SNPs in non-coding regions of the human genome. Epigenetics Chromatin 8 , 57 (2015).
Umans, B. D., Battle, A. & Gilad, Y. Where are the disease-associated eQTLs? Trends Genet. 37 , 109–124 (2021).
Yazar, S. et al. Single-cell eQTL mapping identifies cell type–specific genetic control of autoimmune disease. Science 376 , eabf3041 (2022).
Jerber, J. et al. Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation. Nat. Genet. 53 , 304–312 (2021).
Neavin, D. et al. Single cell eQTL analysis identifies cell type-specific genetic control of gene expression in fibroblasts and reprogrammed induced pluripotent stem cells. Genome Biol. 22 , 76 (2021).
Cuomo, A. S. E. et al. Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression. Nat. Commun. 11 , 810 (2020).
Warren, C. R. et al. Induced pluripotent stem cell differentiation enables functional validation of GWAS variants in metabolic disease. Cell Stem Cell 20 , 547–557 (2017).
Kishore, S. et al. A non-coding disease modifier of pancreatic agenesis identified by genetic correction in a patient-derived iPSC line. Cell Stem Cell 27 , 137–146 (2020).
Magdy, T. et al. RARG variant predictive of doxorubicin-induced cardiotoxicity identifies a cardioprotective therapy. Cell Stem Cell 28 , 2076–2089 (2021).
Bourgeois, S. et al. Towards a functional cure for diabetes using stem cell-derived beta cells: are we there yet? Cells 10 , 191 (2021).
Sharma, A., Sances, S., Workman, M. J. & Svendsen, C. N. Multi-lineage human iPSC-derived platforms for disease modeling and drug discovery. Cell Stem Cell 26 , 309–329 (2020).
Volpato, V. & Webber, C. Addressing variability in iPSC-derived models of human disease: guidelines to promote reproducibility. Dis. Model. Mech. 13 , dmm042317 (2020).
Banovich, N. E. et al. Impact of regulatory variation across human iPSCs and differentiated cells. Genome Res. 28 , 122–131 (2018).
Kilpinen, H. et al. Common genetic variation drives molecular heterogeneity in human iPSCs. Nature 546 , 370–375 (2017).
Panopoulos, A. D. et al. iPSCORE: a resource of 222 iPSC lines enabling functional characterization of genetic variation across a variety of cell types. Stem Cell Rep. 8 , 1086–1100 (2017).
Article CAS Google Scholar
Chen, G., Ning, B. & Shi, T. Single-cell RNA-seq technologies and related computational data analysis. Front. Genet. 10 , 317 (2019).
Elorbany, R. et al. Single-cell sequencing reveals lineage-specific dynamic genetic regulation of gene expression during human cardiomyocyte differentiation. PLoS Genet. 18 , e1009666 (2022).
Ward, M. C., Banovich, N. E., Sarkar, A., Stephens, M. & Gilad, Y. Dynamic effects of genetic variation on gene expression revealed following hypoxic stress in cardiomyocytes. eLife 10 , e57345 (2021).
Shi, Z.-D. et al. Genome editing in hPSCs reveals GATA6 haploinsufficiency and a genetic interaction with GATA4 in human pancreatic development. Cell Stem Cell 20 , 675–688 (2017).
Strober, B. J. et al. Dynamic genetic regulation of gene expression during cellular differentiation. Science 364 , 1287–1290 (2019).
González, F. et al. An iCRISPR platform for rapid, multiplexable, and inducible genome editing in human pluripotent stem cells. Cell Stem Cell 15 , 215–226 (2014).
Barbeira, A. N. et al. Exploiting the GTEx resources to decipher the mechanisms at GWAS loci. Genome Biol. 22 , 49 (2021).
Hamazaki, T., El Rouby, N., Fredette, N. C., Santostefano, K. E. & Terada, N. Concise review: induced pluripotent stem cell research in the era of precision medicine. Stem Cells 35 , 545–550 (2017).
Cuomo, A. S. E. et al. CellRegMap: a statistical framework for mapping context-specific regulatory variants using scRNA-seq. Mol. Syst. Biol. 18 , e10663 (2022).
Cuomo, A. S. E., Nathan, A., Raychaudhuri, S., MacArthur, D. G. & Powell, J. E. Single-cell genomics meets human genetics. Nat. Rev. Genet. 24 , 535–549 (2023).
Mirauta, B. A. et al. Population-scale proteome variation in human induced pluripotent stem cells. eLife 9 , e57390 (2020).
Findley, A. S. et al. Functional dynamic genetic effects on gene regulation are specific to particular cell types and environmental conditions. eLife 10 , e67077 (2021).
Kimura, M. et al. En masse organoid phenotyping informs metabolic-associated genetic susceptibility to NASH. Cell https://doi.org/10.1016/j.cell.2022.09.031 (2022).
Llufrio, E. M., Wang, L., Naser, F. J. & Patti, G. J. Sorting cells alters their redox state and cellular metabolome. Redox Biol. 16 , 381–387 (2018).
Shen, S. et al. Integrating single-cell genomics pipelines to discover mechanisms of stem cell differentiation. Trends Mol. Med. https://doi.org/10.1016/j.molmed.2021.09.006 (2021).
van der Wijst, M. et al. The single-cell eQTLGen consortium. eLife 9 , e52155 (2020).
Soskic, B. et al. Immune disease risk variants regulate gene expression dynamics during CD4 + T cell activation. Nat. Genet. 54 , 817–826 (2022).
Daniszewski, M. et al. Retinal ganglion cell-specific genetic regulation in primary open-angle glaucoma. Cell Genomics 2 , 100142 (2022).
Senabouth, A. et al. Transcriptomic and proteomic retinal pigment epithelium signatures of age-related macular degeneration. Nat. Commun. 13 , 4233 (2022).
Benaglio, P. et al. Mapping genetic effects on cell type-specific chromatin accessibility and annotating complex immune trait variants using single nucleus ATAC-seq in peripheral blood. PLoS Genet. 19 , e1010759 (2023).
Baysoy, A., Bai, Z., Satija, R. & Fan, R. The technological landscape and applications of single-cell multi-omics. Nat. Rev. Mol. Cell Biol. 24 , 695–713 (2023).
Weinshilboum, R. M. & Wang, L. Pharmacogenomics: precision medicine and drug response. Mayo Clin. Proc. 92 , 1711–1722 (2017).
Pirmohamed, M. Personalized pharmacogenomics: predicting efficacy and adverse drug reactions. Annu. Rev. Genom. Hum. Genet. 15 , 349–370 (2014).
Nelson, M. R. et al. The support of human genetic evidence for approved drug indications. Nat. Genet. 47 , 856–860 (2015).
Hay, M., Thomas, D. W., Craighead, J. L., Economides, C. & Rosenthal, J. Clinical development success rates for investigational drugs. Nat. Biotechnol. 32 , 40–51 (2014).
Holmgren, G. et al. Long-term chronic toxicity testing using human pluripotent stem cell-derived hepatocytes. Drug Metab. Dispos. 42 , 1401–1406 (2014).
Kim, J.-H., Kang, M., Jung, J.-H., Lee, S.-J. & Hong, S.-H. Human pluripotent stem cell-derived alveolar epithelial cells as a tool to assess cytotoxicity of particulate matter and cigarette smoke extract. Dev. Reprod. 26 , 155–163 (2022).
Sharma, A. et al. High-throughput screening of tyrosine kinase inhibitor cardiotoxicity with human induced pluripotent stem cells. Sci. Transl. Med. 9 , eaaf2584 (2017).
Han, Y. et al. Identification of SARS-CoV-2 inhibitors using lung and colonic organoids. Nature 589 , 270–275 (2021).
Lam, C. K. & Wu, J. C. Clinical trial in a dish: using patient-derived induced pluripotent stem cells to identify risks of drug-induced cardiotoxicity. Arterioscler. Thromb. Vasc. Biol. 41 , 1019–1031 (2021).
Iwata, R. et al. Mitochondria metabolism sets the species-specific tempo of neuronal development. Science 379 , eabn4705 (2023).
Miller, J. D. et al. Human iPSC-based modeling of late-onset disease via progerin-induced aging. Cell Stem Cell 13 , 691–705 (2013).
Hergenreder, E. et al. Combined small-molecule treatment accelerates maturation of human pluripotent stem cell-derived neurons. Nat. Biotechnol. https://doi.org/10.1038/s41587-023-02031-z (2024).
Fowler, J. L., Ang, L. T. & Loh, K. M. A critical look: challenges in differentiating human pluripotent stem cells into desired cell types and organoids. Wiley Interdiscip. Rev. Dev. Biol. 9 , e368 (2020).
Jiang, S., Feng, W., Chang, C. & Li, G. Modeling human heart development and congenital defects using organoids: how close are we? J. Cardiovasc. Dev. Dis. 9 , 125 (2022).
CAS PubMed PubMed Central Google Scholar
Tremmel, D. M. et al. Validating expression of beta cell maturation-associated genes in human pancreas development. Front. Cell Dev. Biol. 11 , 1103719 (2023).
Washer, S. J. et al. Single-cell transcriptomics defines an improved, validated monoculture protocol for differentiation of human iPSC to microglia. Sci. Rep. 12 , 19454 (2022).
Wolf, F. A., Angerer, P. & Theis, F. J. SCANPY: large-scale single-cell gene expression data analysis. Genome Biol. 19 , 15 (2018).
Wilson, S. B. et al. DevKidCC allows for robust classification and direct comparisons of kidney organoid datasets. Genome Med. 14 , 19 (2022).
Subramanian, A. et al. Single cell census of human kidney organoids shows reproducibility and diminished off-target cells after transplantation. Nat. Commun. 10 , 5462 (2019).
Kammers, K. et al. Gene and protein expression in human megakaryocytes derived from induced pluripotent stem cells. J. Thromb. Haemost. 19 , 1783–1799 (2021).
De Sousa, P. A. et al. Rapid establishment of the European Bank for induced Pluripotent Stem Cells (EBiSC)—the Hot Start experience. Stem Cell Res. 20 , 105–114 (2017).
Morrison, M. et al. StemBANCC: governing access to material and data in a large stem cell research consortium. Stem Cell Rev. Rep. 11 , 681–687 (2015).
The GTEx Consortium The GTEx Consortium atlas of genetic regulatory effects across human tissues. Science 369 , 1318–1330 (2020).
Article PubMed Central Google Scholar
Mitchell, J. M., Nemesh, J., Ghosh, S. & Handsaker, R. E. Mapping genetic effects on cellular phenotypes with ‘cell villages’. Preprint at bioRxiv https://doi.org/10.1101/2020.06.29.174383 (2020).
Neavin, D. R. et al. A village in a dish model system for population-scale hiPSC studies. Nat. Commun. 14 , 3240 (2023).
Kang, H. M. et al. Multiplexed droplet single-cell RNA-sequencing using natural genetic variation. Nat. Biotechnol. 36 , 89–94 (2018).
Wells, M. F. et al. Natural variation in gene expression and viral susceptibility revealed by neural progenitor cell villages. Cell Stem Cell 30 , 312–332 (2023).
Neavin, D. et al. Demuxafy : improvement in droplet assignment by integrating multiple single-cell demultiplexing and doublet detection methods. Genome Biol. 25 , 94 (2024).
Xu, J. et al. Genotype-free demultiplexing of pooled single-cell RNA-seq. Genome Biol. 20 , 290 (2019).
Heaton, H. et al. Souporcell: robust clustering of single-cell RNA-seq data by genotype without reference genotypes. Nat. Methods 17 , 615–620 (2020).
Huang, Y., McCarthy, D. J. & Stegle, O. Vireo: Bayesian demultiplexing of pooled single-cell RNA-seq data without genotype reference. Genome Biol. 20 , 273 (2019).
Hindson, B. J. et al. High-throughput droplet digital PCR system for absolute quantitation of DNA copy number. Anal. Chem. 83 , 8604–8610 (2011).
Dong, X. et al. powerEQTL: an R package and shiny application for sample size and power calculation of bulk tissue and single-cell eQTL analysis. Bioinformatics https://doi.org/10.1093/bioinformatics/btab385 (2021).
Schmid, K. T. et al. scPower accelerates and optimizes the design of multi-sample single cell transcriptomic studies. Nat. Commun. 12 , 6625 (2021).
Camp, J. G., Platt, R. & Treutlein, B. Mapping human cell phenotypes to genotypes with single-cell genomics. Science 365 , 1401–1405 (2019).
Datlinger, P. et al. Pooled CRISPR screening with single-cell transcriptome readout. Nat. Methods 14 , 297–301 (2017).
Dixit, A. et al. Perturb-Seq: dissecting molecular circuits with scalable single-cell RNA profiling of pooled genetic screens. Cell 167 , 1853–1866 (2016).
Rubin, A. J. et al. Coupled single-cell CRISPR screening and epigenomic profiling reveals causal gene regulatory networks. Cell 176 , 361–376 (2019).
Schraivogel, D. et al. Targeted Perturb-seq enables genome-scale genetic screens in single cells. Nat. Methods 17 , 629–635 (2020).
Download references
Figures were generated with BioRender.com and further developed by A. Garcia, a scientific illustrator from Bio-Graphics. This research was supported by a National Health and Medical Research Council (NHMRC) Investigator grant (J.E.P., 1175781), research grants from the Australian Research Council (ARC) Special Research Initiative in Stem Cell Science, an ARC Discovery Project (190100825), an EMBO Postdoctoral Fellowship (A.S.E.C.) and an Aligning Science Across Parkinson’s Grant (J.E.P., N.F., D.R.N. and L.S.). J.E.P. is supported by a Fok Family Fellowship.
These authors contributed equally: Nona Farbehi, Drew R. Neavin.
Garvan Weizmann Center for Cellular Genomics, Garvan Institute of Medical Research, Sydney, New South Wales, Australia
Nona Farbehi, Drew R. Neavin, Anna S. E. Cuomo & Joseph E. Powell
Graduate School of Biomedical Engineering, University of New South Wales, Sydney, New South Wales, Australia
Nona Farbehi
Aligning Science Across Parkinson’s Collaborative Research Network, Chevy Chase, MD, USA
Nona Farbehi, Lorenz Studer & Joseph E. Powell
Centre for Population Genomics, Garvan Institute of Medical Research, University of New South Wales, Sydney, New South Wales, Australia
Anna S. E. Cuomo & Daniel G. MacArthur
The Center for Stem Cell Biology and Developmental Biology Program, Sloan-Kettering Institute for Cancer Research, New York, NY, USA
Lorenz Studer
Centre for Population Genomics, Murdoch Children’s Research Institute, Melbourne, Victoria, Australia
Daniel G. MacArthur
UNSW Cellular Genomics Futures Institute, University of New South Wales, Sydney, New South Wales, Australia
Joseph E. Powell
You can also search for this author in PubMed Google Scholar
All authors conceived the topic and wrote and revised the manuscript.
Correspondence to Joseph E. Powell .
Competing interests.
D.G.M. is a founder with equity in Goldfinch Bio, is a paid advisor to GSK, Insitro, Third Rock Ventures and Foresite Labs, and has received research support from AbbVie, Astellas, Biogen, BioMarin, Eisai, Merck, Pfizer and Sanofi-Genzyme; none of these activities is related to the work presented here. J.E.P. is a founder with equity in Celltellus Laboratory and has received research support from Illumina. The other authors declare no conflict of interest.
Peer review information.
Nature Genetics thanks Kelly Frazer, Gosia Trynka and the other, anonymous, reviewer(s) for their contribution to the peer review of this work.
Publisher’s note Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Supplementary information.
Supplementary Table 1.
Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.
Reprints and permissions
Cite this article.
Farbehi, N., Neavin, D.R., Cuomo, A.S.E. et al. Integrating population genetics, stem cell biology and cellular genomics to study complex human diseases. Nat Genet 56 , 758–766 (2024). https://doi.org/10.1038/s41588-024-01731-9
Download citation
Received : 24 January 2023
Accepted : 20 March 2024
Published : 13 May 2024
Issue Date : May 2024
DOI : https://doi.org/10.1038/s41588-024-01731-9
Anyone you share the following link with will be able to read this content:
Sorry, a shareable link is not currently available for this article.
Provided by the Springer Nature SharedIt content-sharing initiative
Sign up for the Nature Briefing newsletter — what matters in science, free to your inbox daily.
COMMENTS
Also, choosing interesting topics in genetics is a flex that can help you during the writing process. Identify Sources The next step after choosing genetics research paper topics is to identify relevant sources that will back your research. For Genetics, the sources you use become even more crucial, as the field is sensitive and detail-oriented.
Genetics is the branch of science concerned with genes, heredity, and variation in living organisms. It seeks to understand the process of trait inheritance from parents to offspring, including ...
Geneticist Krystal Tsosie advocates for Indigenous data sovereignty. A member of the Navajo Nation, she believes Indigenous geneticists have a big role to play in protecting and studying their own ...
Genetics research articles from across Nature Portfolio. Genetics research is the scientific discipline concerned with the study of the role of genes in traits such as the development of disease ...
Case 12-2024: A 58-Year-Old Woman with Confusion, Aphasia, and Abnormal Head Imaging. J.J. Linnoila and OthersN Engl J Med 2024;390:1421-1430. A 58-year-old woman was transferred to the hospital ...
The Journal of Human Genetics is proud to feature "Hot topics in human genetics" - a limited-time web focus bringing together research spanning three highly talked about topics, including ...
Our Favorite Genetics Stories of 2022. This year's stories highlight the expanding versatility of genetic techniques and the increasing utility of such research in all life science fields. Christie Wilcox, PhD. Christie Wilcox, PhD. Christie is a seasoned science journalist and cell and molecular biology PhD; her debut book Venomous: How ...
Genetics coverage from Scientific American, featuring news and articles about advances in the field. ... New research examines the molecular machinery behind a beetle's strange biological cycle ...
Herein we review what is known about the genetic architecture underlying each of these subtypes, considering both shared and subtype-specific risks. While there are more known genetic similarities between CL and CLP than CP, recent research supports both shared and subtype-specific genetic risk factors within and between phenotypic ...
Omic Technologies, Integrative Methods and Translational Approaches in Brain Health and Disease. Paolo Abondio. Francesco Bruno. Shaoyu Wang. 139 views. The most cited genetics and heredity journal, which advances our understanding of genes from humans to plants and other model organisms. It highlights developments in the function and ...
122 The Best Genetics Research Topics For Projects. The study of genetics takes place across different levels of the education system in academic facilities all around the world. It is an academic discipline that seeks to explain the mechanism of heredity and genes in living organisms. First discovered back in the 1850s, the study of genetics ...
This sensory hypersensitivity, affecting about 90% of individuals with autism, leads to abnormal responses to stimuli like sound and light, complicating daily activities and social interactions. Genetics articles from Neuroscience News cover research from science labs, university research departments and science sources around the world.
Recombination and genetic linkage: Gene expression: Genetic code: Gene regulation: Genetic change: Mutations: Natural selection and evolution: Medicine: Research methods: DNA sequencing and genomics: Genetic testing: Cell-free fetal DNA: Newborn screening: Diagnostic testing: Carrier testing: Preimplantation genetic diagnosis: Prenatal diagnosis
Get Help With Genetics Research. The magic to writing well-constructed essays is thorough research, good expression skills, going through examples online, following the required format, and, most importantly, choosing the best topic. We've made that easy with 150 genetics topics you can choose to create exceptional essays in return.
Biotech & GE Research Topic Ideas (Continued) The use of genetic engineering in enhancing the efficiency of photosynthesis in plants. Biotechnological innovations in creating sustainable aquaculture practices. The role of biotechnology in developing non-invasive prenatal genetic testing methods.
Caption: Alnylam Pharmaceuticals is translating the promise of RNA interference (RNAi) research into a new class of powerful, gene-based therapies. In this rendering, the green strand is the targeted mRNA, and the white object is the RNA-induced silencing complex (RISC) that can prevent the expression of the target mRNA's proteins.
A study suggests that pre-zygotic aneuploidy followed by post-zygotic partial reversion leads to a recurrent form of brain mosaicism-related epilepsy. Changuk Chung. Xiaoxu Yang. Joseph G. Gleeson ...
Managed and made available on the open access platform of Genetics and Molecular Research, these article collections stimulate reader interest and citations for your research. All Research Topic articles are available in the Research Topics section ( LINK) and in the normal online journal issues. The number of article views for each publication ...
Research Topics. The Center for Genetic Medicine's faculty members represent 33 departments or programs across three Northwestern University schools and three Feinberg-affiliated healthcare institutions. Faculty use genetics and molecular genetic approaches to understand biological processes for a diverse range of practical and clinical ...
Genetic Diseases: Sickle Cell Anemia. This genetic disorder research paper aims to elucidate the underlying molecular causes of SCA as well as its symptoms, inheritance, treatment, diagnosis, and prevalence in certain populations. Genetically Identical Twins and Different Disease Risk.
Previous research has established a strong link between a person's genetics and their likelihood of developing neuropsychiatric disease, says Mark Gerstein, the Albert L. Williams Professor of ...
This page lists various research-topics about genetics to help researchers find relevant research articles. ... This research topic aims to provide an overview of the most recent advancements in understanding molecular mechanisms to develop biomarkers that can be selectively addressed to enhance the diagnosis, prognosis, and therapeutic ...
The research published in Current Biology is a culmination of that collaboration. The study details how scientists discovered the deep connection between the larynx and the syrinx tissues by ...
In one example, the model predicted an individual with a particular genetic variant might have bipolar disorder, and the researchers could see that prediction was based on two genes in three cell ...
The team's research showed that the dwindling regional wild population, could most effectively be recovered thorough 'genetic rescue', namely, the introduction of offspring from captive-bred ...
In celebration of the 20th anniversary of Nature Reviews Genetics, we asked 12 leading researchers to reflect on the key challenges and opportunities faced by the field of genetics and genomics.
Medline Plus: Genetics This website has consumer-friendly information about the effects of genetic variation on human health. National Human Genome Research Institute: About Genomics This website offers a talking glossary of genetic terms, fact sheets, and other genetics-related resources. Genetic Science Learning Center: Learn.
The study was supported by the National Institute of Mental Health (R01MH127046, R01MH128814 and R01MH103284), the National Institute of Child Health and Development (P50 HD093079) and the MIND Institute Intellectual and Developmental Disabilities Research Center (P50 HD103526).
ABOUT PEW RESEARCH CENTER Pew Research Center is a nonpartisan fact tank that informs the public about the issues, attitudes and trends shaping the world. It conducts public opinion polling, demographic research, media content analysis and other empirical social science research. Pew Research Center does not take policy positions.
Human pluripotent stem (hPS) cells can, in theory, be differentiated into any cell type, making them a powerful in vitro model for human biology. Recent technological advances have facilitated ...