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Trick or treat: The effect of placebo on the power of pharmacogenetic association studies.
Published in:
Human Genomics, 2005, v. 2, n. 1, p. 28, doi. 10.1186/1479-7364-2-1-28
By:
- Singer, Clara;
- Grossman, Iris;
- Avidan, Nili;
- Beckmann, Jacques S.;
- Pe'er, Itsik
Publication type:
Article
Diving into CDC pregnancy data in the United States: longitudinal study and interactive application.
Published in:
JAMIA Open, 2024, v. 7, n. 1, p. 1, doi. 10.1093/jamiaopen/ooae024
By:
- Clark-Sevilla, Andrea O;
- Lin, Yun C;
- Saxena, Arnav;
- Yan, Qi;
- Wapner, Ronald;
- Raja, Anita;
- Pe'er, Itsik;
- Salleb-Aouissi, Ansaf
Publication type:
Article
The Variance of Identity-by-Descent Sharing in the Wright-Fisher Model.
Published in:
Genetics, 2013, v. 193, n. 3, p. 911, doi. 10.1534/genetics.112.147215
By:
- Carmi, Shai;
- Palamara, Pier Francesco;
- Vacic, Vladimir;
- Lencz, Todd;
- Darvasi, Ariel;
- Pe'er, Itsik
Publication type:
Article
Recovering Frequencies of Known Haplotype Blocks From Single-Nucleotide Polymorphism Allele Frequencies.
Published in:
Genetics, 2004, v. 166, n. 4, p. 2001
By:
- Itsik Pe'er;
- Beckmann, Jacques S.
Publication type:
Article
Inference of modules associated to eQTLs.
Published in:
Nucleic Acids Research, 2012, v. 40, n. 13, p. e98, doi. 10.1093/nar/gks269
By:
- Kreimer, Anat;
- Litvin, Oren;
- Hao, Ke;
- Molony, Cliona;
- Pe’er, Dana;
- Pe'er, Itsik
Publication type:
Article
Independent evidence for an association between general cognitive ability and a genetic locus for educational attainment.
Published in:
American Journal of Medical Genetics. Part B: Neuropsychiatric Genetics, 2015, v. 168B, n. 5, p. 363, doi. 10.1002/ajmg.b.32319
By:
- Trampush, Joey W.;
- Lencz, Todd;
- Knowles, Emma;
- Davies, Gail;
- Guha, Saurav;
- Pe'er, Itsik;
- Liewald, David C.;
- Starr, John M.;
- Djurovic, Srdjan;
- Melle, Ingrid;
- Sundet, Kjetil;
- Christoforou, Andrea;
- Reinvang, Ivar;
- Mukherjee, Semanti;
- DeRosse, Pamela;
- Lundervold, Astri;
- Steen, Vidar M.;
- John, Majnu;
- Espeseth, Thomas;
- Räikkönen, Katri
Publication type:
Article
SEACells infers transcriptional and epigenomic cellular states from single-cell genomics data.
Published in:
Nature Biotechnology, 2023, v. 41, n. 12, p. 1746, doi. 10.1038/s41587-023-01716-9
By:
- Persad, Sitara;
- Choo, Zi-Ning;
- Dien, Christine;
- Sohail, Noor;
- Masilionis, Ignas;
- Chaligné, Ronan;
- Nawy, Tal;
- Brown, Chrysothemis C.;
- Sharma, Roshan;
- Pe'er, Itsik;
- Setty, Manu;
- Pe'er, Dana
Publication type:
Article
Contamination source modeling with SCRuB improves cancer phenotype prediction from microbiome data.
Published in:
Nature Biotechnology, 2023, v. 41, n. 12, p. 1820, doi. 10.1038/s41587-023-01696-w
By:
- Austin, George I.;
- Park, Heekuk;
- Meydan, Yoli;
- Seeram, Dwayne;
- Sezin, Tanya;
- Lou, Yue Clare;
- Firek, Brian A.;
- Morowitz, Michael J.;
- Banfield, Jillian F.;
- Christiano, Angela M.;
- Pe'er, Itsik;
- Uhlemann, Anne-Catrin;
- Shenhav, Liat;
- Korem, Tal
Publication type:
Article
HLA-B*5701 genotype is a major determinant of drug-induced liver injury due to flucloxacillin.
Published in:
Nature Genetics, 2009, v. 41, n. 7, p. 816, doi. 10.1038/ng.379
By:
- Daly, Ann K.;
- Donaldson, Peter T.;
- Bhatnagar, Pallav;
- Shen, Yufeng;
- Pe'er, Itsik;
- Floratos, Aris;
- Daly, Mark J.;
- Goldstein, David B.;
- John, Sally;
- Nelson, Matthew R.;
- Graham, Julia;
- Park, B. Kevin;
- Dillon, John F.;
- Bernal, William;
- Cordell, Heather J.;
- Pirmohamed, Munir;
- Aithal, Guruprasad P.;
- Day, Christopher P.
Publication type:
Article
Two independent alleles at 6q23 associated with risk of rheumatoid arthritis.
Published in:
Nature Genetics, 2007, v. 39, n. 12, p. 1477, doi. 10.1038/ng.2007.27
By:
- Plenge, Robert M.;
- Cotsapas, Chris;
- Davies, Leela;
- Price, Alkes L.;
- de Bakker, Paul I. W.;
- Maller, Julian;
- Pe'er, Itsik;
- Burtt, Noel P.;
- Blumenstiel, Brendan;
- DeFelice, Matt;
- Parkin, Melissa;
- Barry, Rachel;
- Winslow, Wendy;
- Healy, Claire;
- Graham, Robert R.;
- Neale, Benjamin M.;
- Izmailova, Elena;
- Roubenoff, Ronenn;
- Parker, Alexander N.;
- Glass, Roberta
Publication type:
Article
Evaluating and improving power in whole-genome association studies using fixed marker sets.
Published in:
Nature Genetics, 2006, v. 38, n. 6, p. 663, doi. 10.1038/ng1816
By:
- Pe'er, Itsik;
- de Bakker, Paul I. W.;
- Maller, Julian;
- Yelensky, Roman;
- Altshuler, David;
- Daly, Mark J.
Publication type:
Article
Evaluating potential for whole-genome studies in Kosrae, an isolated population in Micronesia.
Published in:
Nature Genetics, 2006, v. 38, n. 2, p. 214, doi. 10.1038/ng1712
By:
- Bonnen, Penelope E.;
- Pe'er, Itsik;
- Plenge, Robert M.;
- Salit, Jackie;
- Lowe, Jennifer K.;
- Shapero, Michael H.;
- Lifton, Richard P.;
- Breslow, Jan L.;
- Daly, Mark J.;
- Reich, David E.;
- Jones, Keith W.;
- Stoffel, Markus;
- Altshuler, David;
- Friedman, Jeffrey M.
Publication type:
Article
Efficiency and power in genetic association studies.
Published in:
Nature Genetics, 2005, v. 37, n. 11, p. 1217, doi. 10.1038/ng1669
By:
- de Bakker, Paul I. W.;
- Yelensky, Roman;
- Pe'er, Itsik;
- Gabriel, Stacey B.;
- Daly, Mark J.;
- Altshuler, David
Publication type:
Article
Caenorhabditis elegans mutant allele identification by whole-genome sequencing.
Published in:
Nature Methods, 2008, v. 5, n. 10, p. 865, doi. 10.1038/nmeth.1249
By:
- Sarin, Sumeet;
- Prabhu, Snehit;
- O'Meara, M Maggie;
- Pe'er, Itsik;
- Hobert, Oliver
Publication type:
Article
Statistical correction of the Winner’s Curse explains replication variability in quantitative trait genome-wide association studies.
Published in:
PLoS Genetics, 2017, v. 13, n. 7, p. 1, doi. 10.1371/journal.pgen.1006916
By:
- Palmer, Cameron;
- Pe’er, Itsik
Publication type:
Article
2-Way k-Means as a Model for Microbiome Samples.
Published in:
Journal of Healthcare Engineering, 2017, p. 1, doi. 10.1155/2017/5284145
By:
- Jackson, Weston J.;
- Agarwal, Ipsita;
- Pe’er, Itsik
Publication type:
Article
ABC Transporters and the Proteasome Complex Are Implicated in Susceptibility to Stevens–Johnson Syndrome and Toxic Epidermal Necrolysis across Multiple Drugs.
Published in:
PLoS ONE, 2015, v. 10, n. 6, p. 1, doi. 10.1371/journal.pone.0131038
By:
- Nicoletti, Paola;
- Bansal, Mukesh;
- Lefebvre, Celine;
- Guarnieri, Paolo;
- Shen, Yufeng;
- Pe’er, Itsik;
- Califano, Andrea;
- Floratos, Aris
Publication type:
Article
Detecting Identity by Descent and Homozygosity Mapping in Whole-Exome Sequencing Data.
Published in:
PLoS ONE, 2012, v. 7, n. 10, p. 1, doi. 10.1371/journal.pone.0047618
By:
- Zhuang, Zhong;
- Gusev, Alexander;
- Cho, Judy;
- Pe'er, Itsik
Publication type:
Article
Cryptic Distant Relatives Are Common in Both Isolated and Cosmopolitan Genetic Samples.
Published in:
PLoS ONE, 2012, v. 7, n. 4, p. 1, doi. 10.1371/journal.pone.0034267
By:
- Henn, Brenna M.;
- Hon, Lawrence;
- Michael Macpherson, J.;
- Eriksson, Nick;
- Saxonov, Serge;
- Pe'er, Itsik;
- Mountain, Joanna L.
Publication type:
Article
Comparing Platforms for C. elegans Mutant Identification Using High-Throughput Whole-Genome Sequencing.
Published in:
PLoS ONE, 2008, v. 3, n. 12, p. 1, doi. 10.1371/journal.pone.0004012
By:
- Yufeng Shen;
- Sumeet Sarin;
- Ye Liu;
- Oliver Hobert;
- Itsik Pe'er
Publication type:
Article
Proteomic signatures: Amino acid and oligopeptide compositions differentiate among phyla.
Published in:
Proteins, 2004, v. 54, n. 1, p. 20, doi. 10.1002/prot.10559
By:
- Itsik Pe'er;
- Clifford E. Felder;
- Orna Man;
- Israel Silman;
- Joel L. Sussman;
- Jacques S. Beckmann
Publication type:
Article
Correction: Leveraging correlations between variants in polygenic risk scores to detect heterogeneity in GWAS cohorts.
Published in:
2020
By:
- Yuan, Jie;
- Xing, Hengrui;
- Lamy, Alexandre Louis;
- Lencz, Todd;
- Pe'er, Itsik
Publication type:
Correction Notice
Leveraging correlations between variants in polygenic risk scores to detect heterogeneity in GWAS cohorts.
Published in:
PLoS Genetics, 2020, v. 16, n. 9, p. 1, doi. 10.1371/journal.pgen.1009015
By:
- Yuan, Jie;
- Xing, Henry;
- Lamy, Alexandre Louis;
- Lencz, Todd;
- Pe'er, Itsik
Publication type:
Article
High-depth whole genome sequencing of an Ashkenazi Jewish reference panel: enhancing sensitivity, accuracy, and imputation.
Published in:
Human Genetics, 2018, v. 137, n. 4, p. 343, doi. 10.1007/s00439-018-1886-z
By:
- Lencz, Todd;
- Yu, Jin;
- Palmer, Cameron;
- Carmi, Shai;
- Ben-Avraham, Danny;
- Barzilai, Nir;
- Bressman, Susan;
- Darvasi, Ariel;
- Cho, Judy H.;
- Clark, Lorraine N.;
- Gümüş, Zeynep H.;
- Joseph, Vijai;
- Klein, Robert;
- Lipkin, Steven;
- Offit, Kenneth;
- Ostrer, Harry;
- Ozelius, Laurie J.;
- Peter, Inga;
- Atzmon, Gil;
- Pe’er, Itsik
Publication type:
Article
On the applicability of a haplotype map to un-assayed populations.
Published in:
Human Genetics, 2004, v. 114, n. 2, p. 214, doi. 10.1007/s00439-003-1046-x
By:
- Pe'er, Itsik;
- Beckmann, Jacques S.
Publication type:
Article
European admixture on the Micronesian island of Kosrae: lessons from complete genetic information.
Published in:
European Journal of Human Genetics, 2010, v. 18, n. 3, p. 309, doi. 10.1038/ejhg.2009.180
By:
- Bonnen, Penelope E.;
- Lowe, Jennifer K.;
- Altshuler, David M.;
- Breslow, Jan L.;
- Stoffel, Markus;
- Friedman, Jeffrey M.;
- Pe'er, Itsik
Publication type:
Article
Typing without calling the allele: a strategy for inferring SNP haplotypes.
Published in:
2005
By:
- Barzuza, Tamar;
- Beckmann, Jacques S;
- Shamir, Ron;
- Pe'er, Itsik
Publication type:
Letter
A Hidden Markov Model for Copy Number Variant prediction from whole genome resequencing data.
Published in:
BMC Bioinformatics, 2011, v. 12, n. Suppl 6, p. 1, doi. 10.1186/1471-2105-12-S6-S4
By:
- Yufeng Shen;
- Yiwei Gu;
- Pe'er, Itsik
Publication type:
Article
Approximate Bayesian Computation Approach for Modeling Genome Rearrangements.
Published in:
Molecular Biology & Evolution, 2022, v. 39, n. 11, p. 1, doi. 10.1093/molbev/msac231
By:
- Moshe, Asher;
- Wygoda, Elya;
- Ecker, Noa;
- Loewenthal, Gil;
- Avram, Oren;
- Israeli, Omer;
- Hazkani-Covo, Einat;
- Pe'er, Itsik;
- Pupko, Tal
Publication type:
Article
The Architecture of Long-Range Haplotypes Shared within and across Populations.
Published in:
Molecular Biology & Evolution, 2012, v. 29, n. 2, p. 473, doi. 10.1093/molbev/msr133
By:
- Gusev, Alexander;
- Palamara, Pier Francesco;
- Aponte, Gregory;
- Zhuang, Zhong;
- Darvasi, Ariel;
- Gregersen, Peter;
- Pe'er, Itsik
Publication type:
Article
Common variants on chromosome 6p22.1 are associated with schizophrenia.
Published in:
Nature, 2009, v. 460, n. 7256, p. 753, doi. 10.1038/nature08192
By:
- Shi, Jianxin;
- Levinson, Douglas F.;
- Duan, Jubao;
- Sanders, Alan R.;
- Zheng, Yonglan;
- Pe’er, Itsik;
- Dudbridge, Frank;
- Holmans, Peter A.;
- Whittemore, Alice S.;
- Mowry, Bryan J.;
- Olincy, Ann;
- Amin, Farooq;
- Cloninger, C. Robert;
- Silverman, Jeremy M.;
- Buccola, Nancy G.;
- Byerley, William F.;
- Black, Donald W.;
- Crowe, Raymond R.;
- Oksenberg, Jorge R.;
- Mirel, Daniel B.
Publication type:
Article
Advanced computational techniques for re‐sequencing DNA with polymerase signaling assay arrays.
Published in:
Nucleic Acids Research, 2003, v. 31, n. 19, p. 5667
By:
- Pe’er, Itsik;
- Arbili, Naama;
- Liu, Yi;
- Enck, Colby;
- Gelfand, Craig A.;
- Shamir, Ron
Publication type:
Article
SICaRiO: short indel call filtering with boosting.
Published in:
Briefings in Bioinformatics, 2021, v. 22, n. 4, p. 1, doi. 10.1093/bib/bbaa238
By:
- Bhuyan, Md Shariful Islam;
- Pe'er, Itsik;
- Rahman, M Sohel
Publication type:
Article
Variants in exons and in transcription factors affect gene expression in trans.
Published in:
Genome Biology, 2013, v. 14, n. 7, p. R71, doi. 10.1186/gb-2013-14-7-r71
By:
- Kreimer, Anat;
- Pe’er, Itsik
Publication type:
Article
Compositional Lotka-Volterra describes microbial dynamics in the simplex.
Published in:
PLoS Computational Biology, 2020, v. 16, n. 5, p. 1, doi. 10.1371/journal.pcbi.1007917
By:
- Joseph, Tyler A.;
- Shenhav, Liat;
- Xavier, Joao B.;
- Halperin, Eran;
- Pe'er, Itsik
Publication type:
Article
Excess of homozygosity in the major histocompatibility complex in schizophrenia.
Published in:
Human Molecular Genetics, 2014, v. 23, n. 22, p. 6088, doi. 10.1093/hmg/ddu308
By:
- Mukherjee, Semanti;
- Guha, Saurav;
- Ikeda, Masashi;
- Iwata, Nakao;
- Malhotra, Anil K.;
- Pe'er, Itsik;
- Darvasi, Ariel;
- Lencz, Todd
Publication type:
Article
Elevated GM3 plasma concentration in idiopathic Parkinson’s disease: A lipidomic analysis.
Published in:
PLoS ONE, 2017, v. 12, n. 2, p. 1, doi. 10.1371/journal.pone.0172348
By:
- Chan, Robin B.;
- Perotte, Adler J.;
- Zhou, Bowen;
- Liong, Christopher;
- Shorr, Evan J.;
- Marder, Karen S.;
- Kang, Un J.;
- Waters, Cheryl H.;
- Levy, Oren A.;
- Xu, Yimeng;
- Shim, Hong Bin;
- Pe’er, Itsik;
- Di Paolo, Gilbert;
- Alcalay, Roy N.
Publication type:
Article
A branch-and-bound algorithm for the inference of ancestral amino-acid sequences when the replacement rate varies among sites: Application to the evolution of five gene families.
Published in:
Bioinformatics, 2002, v. 18, n. 8, p. 1116, doi. 10.1093/bioinformatics/18.8.1116
By:
- Pupko, Tal;
- Pe'er, Itsik;
- Hasegawa, Masami;
- Graur, Dan;
- Friedman, Nir
Publication type:
Article
Searching and visualizing genetic associations of pregnancy traits by using GnuMoM2b.
Published in:
Genetics, 2023, v. 225, n. 2, p. 1, doi. 10.1093/genetics/iyad151
By:
- Qi Yan;
- Guerrero, Rafael F.;
- Khan, Raiyan R.;
- Surujnarine, Andy A.;
- Wapner, Ronald J.;
- Hahn, Matthew W.;
- Raja, Anita;
- Salleb-Aouissi, Ansaf;
- Grobman, William A.;
- Simhan, Hyagriv;
- Blue, Nathan R.;
- Silver, Robert;
- Chung, Judith H.;
- Reddy, Uma M.;
- Radivojac, Predrag;
- Pe'er, Itsik;
- Haas, David M.
Publication type:
Article
Co-regulated Transcripts Associated to Cooperating eSNPs Define Bi-fan Motifs in Human Gene Networks.
Published in:
PLoS Genetics, 2014, v. 10, n. 9, p. 1, doi. 10.1371/journal.pgen.1004587
By:
- Kreimer, Anat;
- Pe'er, Itsik
Publication type:
Article
A Genome-Wide Scan of Ashkenazi Jewish Crohn's Disease Suggests Novel Susceptibility Loci.
Published in:
PLoS Genetics, 2012, v. 8, n. 3, p. 1, doi. 10.1371/journal.pgen.1002559
By:
- Kenny, Eimear E.;
- Pe'er, Itsik;
- Karban, Amir;
- Ozelius, Laurie;
- Mitchell, Adele A.;
- Sok Meng Ng;
- Erazo, Monica;
- Ostrer, Harry;
- Abraham, Clara;
- Abreu, Maria T.;
- Atzmon, Gil;
- Barzilai, Nir;
- Brant, Steven R.;
- Bressman, Susan;
- Burns, Edward R.;
- Chowers, Yehuda;
- Clark, Lorraine N.;
- Darvasi, Ariel;
- Doheny, Dana;
- Duerr, Richard H.
Publication type:
Article
Web-Based, Participant-Driven Studies Yield Novel Genetic Associations for Common Traits.
Published in:
PLoS Genetics, 2010, v. 6, n. 6, p. 1, doi. 10.1371/journal.pgen.1000993
By:
- Eriksson, Nicholas;
- Macpherson, J. Michael;
- Tung, Joyce Y.;
- Hon, Lawrence S.;
- Naughton, Brian;
- Saxonov, Serge;
- Avey, Linda;
- Wojcicki, Anne;
- Pe'er, Itsik;
- Mountain, Joanna
Publication type:
Article
Genome-Wide Association Studies in an Isolated Founder Population from the Pacific Island of Kosrae.
Published in:
PLoS Genetics, 2009, v. 5, n. 2, p. 1, doi. 10.1371/journal.pgen.1000365
By:
- Lowe, Jennifer K.;
- Maller, Julian B.;
- Pe'er, Itsik;
- Neale, Benjamin M.;
- Salit, Jacqueline;
- Kenny, Eimear E.;
- Shea, Jessica L.;
- Burkhardt, Ralph;
- Smith, J. Gustav;
- Weizhen Ji;
- Noel, Martha;
- Jia Nee Foo;
- Blundell, Maude L.;
- Skilling, Vita;
- Garcia, Laura;
- Sullivan, Marcia L.;
- Lee, Heather E.;
- Labek, Anna;
- Ferdowsian, Hope;
- Auerbach, Steven B.
Publication type:
Article
MiSDEED: a synthetic data engine for microbiome study power analysis and study design.
Published in:
Bioinformatics Advances, 2022, v. 2, n. 1, p. 1, doi. 10.1093/bioadv/vbac043
By:
- Chlenski, Philippe;
- Hsu, Melody;
- Pe'er, Itsik
Publication type:
Article
Current status of artificial intelligence methods for skin cancer survival analysis: a scoping review.
Published in:
Frontiers in Medicine, 2024, p. 1, doi. 10.3389/fmed.2024.1243659
By:
- Schreidah, Celine M.;
- Gordon, Emily R.;
- Adeuyan, Oluwaseyi;
- Chen, Caroline;
- Lapolla, Brigit A.;
- Kent, Joshua A.;
- Reynolds, George Bingham;
- Fahmy, Lauren M.;
- Chunhua Weng;
- Tatonetti, Nicholas P.;
- Chase, Herbert S.;
- Pe'er, Itsik;
- Geskin, Larisa J.
Publication type:
Article
Increased power of mixed models facilitates association mapping of 10 loci for metabolic traits in an isolated population.
Published in:
Human Molecular Genetics, 2011, v. 20, n. 4, p. 827, doi. 10.1093/hmg/ddq510
By:
- Kenny, Eimear E.;
- Kim, Minseung;
- Gusev, Alexander;
- Lowe, Jennifer K.;
- Salit, Jacqueline;
- Smith, J. Gustav;
- Kovvali, Sirisha;
- Kang, Hyun Min;
- Newton-Cheh, Christopher;
- Daly, Mark J.;
- Stoffel, Markus;
- Altshuler, David M.;
- Friedman, Jeffrey M.;
- Eskin, Eleazar;
- Breslow, Jan L.;
- Pe'er, Itsik
Publication type:
Article
Estimation of the multiple testing burden for genomewide association studies of nearly all common variants.
Published in:
Genetic Epidemiology, 2008, v. 32, n. 4, p. 381, doi. 10.1002/gepi.20303
By:
- Pe'er, Itsik;
- Yelensky, Roman;
- Altshuler, David;
- Daly, Mark J.
Publication type:
Article
Optimal two‐stage genotyping designs for genome‐wide association scans.
Published in:
Genetic Epidemiology, 2006, v. 30, n. 4, p. 356, doi. 10.1002/gepi.20150
By:
- Hansong Wang;
- Duncan C. Thomas;
- Itsik Pe'er;
- Daniel O. Stram
Publication type:
Article
arcasHLA: high-resolution HLA typing from RNAseq.
Published in:
Bioinformatics, 2020, v. 36, n. 1, p. 33, doi. 10.1093/bioinformatics/btz474
By:
- Orenbuch, Rose;
- Filip, Ioan;
- Comito, Devon;
- Shaman, Jeffrey;
- Pe'er, Itsik;
- Rabadan, Raul
Publication type:
Article
Inference of historical migration rates via haplotype sharing.
Published in:
Bioinformatics, 2013, v. 29, n. 13, p. i180, doi. 10.1093/bioinformatics/btt239
By:
- Palamara, Pier Francesco;
- Pe’er, Itsik
Publication type:
Article

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