Works by Mitra, Robi D.

Results: 35

Digital quantitative measurements of gene expression.

Published in:

Biotechnology & Bioengineering, 2004, v. 86, n. 2, p. 117, doi. 10.1002/bit.20048

By:

Mikkilineni, Venugopal;
Mitra, Robi D.;
Merritt, Joshua;
DiTonno, Jason R.;
Church, George M.;
Ogunnaike, Babatunde;
Edwards, Jeremy S.

Publication type:

Article

MYT1L deficiency impairs excitatory neuron trajectory during cortical development.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-54371-2

By:

Yen, Allen;
Sarafinovska, Simona;
Chen, Xuhua;
Skinner, Dominic D.;
Leti, Fatjon;
Crosby, MariaLynn;
Hoisington-Lopez, Jessica;
Wu, Yizhe;
Chen, Jiayang;
Li, Zipeng A.;
Noguchi, Kevin K.;
Mitra, Robi D.;
Dougherty, Joseph D.

Publication type:

Article

Pycallingcards: an integrated environment for visualizing, analyzing, and interpreting Calling Cards data.

Published in:

Bioinformatics, 2024, v. 40, n. 2, p. 1, doi. 10.1093/bioinformatics/btae070

By:

Guo, Juanru;
Zhang, Wenjin;
Chen, Xuhua;
Yen, Allen;
Chen, Lucy;
Shively, Christian A;
Li, Daofeng;
Wang, Ting;
Dougherty, Joseph D;
Mitra, Robi D

Publication type:

Article

The qBED track: a novel genome browser visualization for point processes.

Published in:

Bioinformatics, 2021, v. 37, n. 8, p. 1168, doi. 10.1093/bioinformatics/btaa771

By:

Moudgil, Arnav;
Li, Daofeng;
Hsu, Silas;
Purushotham, Deepak;
Wang, Ting;
Mitra, Robi D

Publication type:

Article

Laser capture microdissection–reduced representation bisulfite sequencing (LCM-RRBS) maps changes in DNA methylation associated with gonadectomy-induced adrenocortical neoplasia in the mouse.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 11, p. e116, doi. 10.1093/nar/gkt230

By:

Schillebeeckx, Maximiliaan;
Schrade, Anja;
Löbs, Ann-Kathrin;
Pihlajoki, Marjut;
Wilson, David B.;
Mitra, Robi D.

Publication type:

Article

Intra-tumor heterogeneity of MLH1 promoter methylation revealed by deep single molecule bisulfite sequencing.

Published in:

Nucleic Acids Research, 2009, v. 37, n. 14, p. 4603, doi. 10.1093/nar/gkp457

By:

Varley, Katherine E.;
Mutch, David G.;
Edmonston, Tina B.;
Goodfellow, Paul J.;
Mitra, Robi D.

Publication type:

Article

Parallel competition analysis of Saccharomyces cerevisiae strains differing by a single base using polymerase colonies.

Published in:

Nucleic Acids Research, 2003, v. 31, n. 15, p. e84, doi. 10.1093/nar/gng084

By:

Merritt, Joshua;
DiTonno, Jason R.;
Mitra, Robi D.;
Church, George M.;
Edwards, Jeremy S.

Publication type:

Article

Transposase mapping identifies the genomic targets of BAP1 in uveal melanoma.

Published in:

BMC Medical Genomics, 2018, v. 11, n. 1, p. N.PAG, doi. 10.1186/s12920-018-0424-0

By:

Yen, Matthew;
Qi, Zongtai;
Chen, Xuhua;
Cooper, John A.;
Mitra, Robi D.;
Onken, Michael D.

Publication type:

Article

Long-range polony haplotyping of individual human chromosome molecules.

Published in:

Nature Genetics, 2006, v. 38, n. 3, p. 382, doi. 10.1038/ng1741

By:

Kun Zhang;
Jun Zhu;
Shendure, Jay;
Porreca, Gregory J.;
Aach, John D.;
Mitra, Robi D.;
Church, George M.

Publication type:

Article

A computational analysis of whole-genome expression data reveals chromosomal domains of gene expression.

Published in:

Nature Genetics, 2000, v. 26, n. 2, p. 183, doi. 10.1038/79896

By:

Cohen, Barak A.;
Mitra, Robi D.;
Hughes, Jason D.;
Church, George M.

Publication type:

Article

A role for genetic susceptibility in sporadic focal segmental glomerulosclerosis.

Published in:

2016

By:

Yu, Haiyang;
Artomov, Mykyta;
Brähler, Sebastian;
Stander, M Christine;
Shamsan, Ghaidan;
Sampson, Matthew G;
White, J Michael;
Kretzler, Matthias;
Miner, Jeffrey H;
Jain, Sanjay;
Winkler, Cheryl A;
Mitra, Robi D;
Kopp, Jeffrey B;
Daly, Mark J;
Shaw, Andrey S

Publication type:

corrected article

A role for genetic susceptibility in sporadic focal segmental glomerulosclerosis.

Published in:

2016

By:

Haiyang Yu;
Mykyta Artomov;
Brähler, Sebastian;
Stander, M. Christine;
Shamsan, Ghaidan;
Sampson, Matthew G.;
White, J. Michael;
Kretzler, Matthias;
Miner, Jeffrey H.;
Jain, Sanjay;
Winkler, Cheryl A.;
Mitra, Robi D.;
Kopp, Jeffrey B.;
Daly, Mark J.;
Shaw, Andrey S.;
Yu, Haiyang;
Artomov, Mykyta

Publication type:

journal article

Cardiac signaling genes exhibit unexpected sequence diversity in sporadic cardiomyopathy, revealing HSPB7 polymorphisms associated with disease.

Published in:

2010

By:

Matkovich, Scot J.;
Van Booven, Derek J.;
Hindes, Anna;
Mm Young Kang;
Druley, Todd E.;
Vallania, Francesco L. M.;
Mitra, Robi D.;
Reilly, Muredach P.;
Cappola, Thomas P.;
Dorn II, Gerald W.;
Kang, Min Young;
Dorn, Gerald W 2nd

Publication type:

journal article

Sensitive single-molecule protein quantification and protein complex detection in a microarray format.

Published in:

Proteomics, 2011, v. 11, n. 24, p. 4731, doi. 10.1002/pmic.201100361

By:

Tessler, Lee A.;
Mitra, Robi D.

Publication type:

Article

Pooled image-base screening of mitochondria with microraft isolation distinguishes pathogenic mitofusin 2 mutations.

Published in:

Communications Biology, 2022, v. 5, n. 1, p. 1, doi. 10.1038/s42003-022-04089-y

By:

Yenkin, Alex L.;
Bramley, John C.;
Kremitzki, Colin L.;
Waligorski, Jason E.;
Liebeskind, Mariel J.;
Xu, Xinyuan E.;
Chandrasekaran, Vinay D.;
Vakaki, Maria A.;
Bachman, Graham W.;
Mitra, Robi D.;
Milbrandt, Jeffrey D.;
Buchser, William J.

Publication type:

Article

Human L1 Transposition Dynamics Unraveled with Functional Data Analysis.

Published in:

Molecular Biology & Evolution, 2020, v. 37, n. 12, p. 3576, doi. 10.1093/molbev/msaa194

By:

Chen, Di;
Cremona, Marzia A;
Qi, Zongtai;
Mitra, Robi D;
Chiaromonte, Francesca;
Makova, Kateryna D

Publication type:

Article

Advanced sequencing technologies: methods and goals.

Published in:

Nature Reviews Genetics, 2004, v. 5, n. 5, p. 335, doi. 10.1038/nrg1325

By:

Shendure, Jay;
Mitra, Robi D.;
Varma, Chris;
Church, George M.

Publication type:

Article

In situ localized amplification and contact replication of many individual DNA molecules.

Published in:

Nucleic Acids Research, 1999, v. 27, n. 24, p. e34, doi. 10.1093/nar/27.24.e34

By:

Mitra, Robi D.;
Church, George M.

Publication type:

Article

IS-seq: a novel high throughput survey of in vivo IS6110 transposition in multiple Mycobacterium tuberculosis genomes.

Published in:

BMC Genomics, 2012, v. 13, n. 1, p. 249, doi. 10.1186/1471-2164-13-249

By:

Reyes, Alejandro;
Sandoval, Andrea;
Cubillos-Ruiz, Andrs;
Varley, Katherine E.;
Hernndez-Neuta, Ivan;
Samper, Sofia;
Martin, Carlos;
Jesus Garcia, Maria;
Ritacco, Viviana;
Lopez, Lucelly;
Robledo, Jaime;
Zambrano, Maria Mercedes;
Mitra, Robi D.;
Del Portillo, Patricia

Publication type:

Article

Rapid and Extraction-Free Detection of SARS-CoV-2 from Saliva by Colorimetric Reverse-Transcription Loop-Mediated Isothermal Amplification.

Published in:

Clinical Chemistry, 2021, v. 67, n. 2, p. 415, doi. 10.1093/clinchem/hvaa267

By:

Lalli, Matthew A.;
Langmade, Joshua S.;
Chen, Xuhua;
Fronick, Catrina C.;
Sawyer, Christopher S.;
Burcea, Lauren C.;
Wilkinson, Michael N.;
Fulton, Robert S.;
Heinz, Michael;
Buchser, William J.;
Head, Richard D.;
Mitra, Robi D.;
Milbrandt, Jeffrey

Publication type:

Article

Zinc cluster transcription factors frequently activate target genes using a non-canonical half-site binding mode.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 10, p. 5006, doi. 10.1093/nar/gkad320

By:

Recio, Pamela S;
Mitra, Nikhil J;
Shively, Christian A;
Song, David;
Jaramillo, Grace;
Lewis, Kristine Shady;
Chen, Xuhua;
Mitra, Robi D

Publication type:

Article

Quantitative analysis of transcription factor binding and expression using calling cards reporter arrays.

Published in:

Nucleic Acids Research, 2020, v. 48, n. 9, p. e50, doi. 10.1093/nar/gkaa141

By:

Liu, Jiayue;
Shively, Christian A;
Mitra, Robi D

Publication type:

Article

Redesign of the monomer-monomer interface of Cre recombinase yields an obligate heterotetrameric complex.

Published in:

Nucleic Acids Research, 2015, v. 43, n. 18, p. 9076, doi. 10.1093/nar/gkv901

By:

Chi Zhang;
Myers, Connie A.;
Zongtai Qi;
Mitra, Robi D.;
Corbo, Joseph C.;
Havranek, James J.

Publication type:

Article

ATHLATES: accurate typing of human leukocyte antigen through exome sequencing.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 14, p. e142, doi. 10.1093/nar/gkt481

By:

Liu, Chang;
Yang, Xiao;
Duffy, Brian;
Mohanakumar, Thalachallour;
Mitra, Robi D.;
Zody, Michael C.;
Pfeifer, John D.

Publication type:

Article

Amyotrophic lateral sclerosis onset is influenced by the burden of rare variants in known amyotrophic lateral sclerosis genes.

Published in:

Annals of Neurology, 2015, v. 77, n. 1, p. 100, doi. 10.1002/ana.24306

By:

Cady, Janet;
Allred, Peggy;
Bali, Taha;
Pestronk, Alan;
Goate, Alison;
Miller, Timothy M.;
Mitra, Robi D.;
Ravits, John;
Harms, Matthew B.;
Baloh, Robert H.

Publication type:

Article

Quantification of rare allelic variants from pooled genomic DNA.

Published in:

Nature Methods, 2009, v. 6, n. 4, p. 263, doi. 10.1038/nmeth.1307

By:

Druley, Todd E.;
Vallania, Francesco L. M.;
Wegner, Daniel J.;
Varley, Katherine E.;
Knowles, Olivia L.;
Bonds, Jacqueline A.;
Robison, Sarah W.;
Doniger, Scott W.;
Hamvas, Aaron;
Cole, F. Sessions;
Fay, Justin C.;
Mitra, Robi D.

Publication type:

Article

Correction: Calling Cards: A Customizable Platform to Longitudinally Record Protein‐DNA Interactions Over Time in Cells and Tissues.

Published in:

Current Protocols, 2023, v. 3, n. 10, p. 1, doi. 10.1002/cpz1.928

By:

Yen, Allen;
Mateusiak, Chase;
Sarafinovska, Simona;
Gachechiladze, Mariam A.;
Guo, Juanru;
Chen, Xuhua;
Moudgil, Arnav;
Cammack, Alexander J.;
Hoisington‐Lopez, Jessica;
Crosby, MariaLynn;
Brent, Michael R.;
Mitra, Robi D.;
Dougherty, Joseph D.

Publication type:

Article

Calling Cards: A Customizable Platform to Longitudinally Record Protein‐DNA Interactions Over Time in Cells and Tissues.

Published in:

Current Protocols, 2023, v. 3, n. 9, p. 1, doi. 10.1002/cpz1.883

By:

Yen, Allen;
Mateusiak, Chase;
Sarafinovska, Simona;
Gachechiladze, Mariam A.;
Guo, Juanru;
Chen, Xuhua;
Moudgil, Arnav;
Cammack, Alexander J.;
Hoisington‐Lopez, Jessica;
Crosby, MariaLynn;
Brent, Michael R.;
Mitra, Robi D.;
Dougherty, Joseph D.

Publication type:

Article

Measuring transcription factor binding and gene expression using barcoded self-reporting transposon calling cards and transcriptomes.

Published in:

NAR Genomics & Bioinformatics, 2022, v. 4, n. 3, p. 1, doi. 10.1093/nargab/lqac061

By:

Lalli, Matthew;
Yen, Allen;
Thopte, Urvashi;
Dong, Fengping;
Moudgil, Arnav;
Chen, Xuhua;
Milbrandt, Jeffrey;
Dougherty, Joseph D;
Mitra, Robi D

Publication type:

Article

PDE7B Is a Novel, Prognostically Significant Mediator of Glioblastoma Growth Whose Expression Is Regulated by Endothelial Cells.

Published in:

PLoS ONE, 2014, v. 9, n. 9, p. 1, doi. 10.1371/journal.pone.0107397

By:

Brooks, Michael D.;
Jackson, Erin;
Warrington, Nicole M.;
Luo, Jingqin;
Forys, Jason T.;
Taylor, Sara;
Mao, Diane D.;
Leonard, Jeffrey R.;
Kim, Albert H.;
Piwnica-Worms, David;
Mitra, Robi D.;
Rubin, Joshua B.

Publication type:

Article

Gene Expression Analysis of Zebrafish Melanocytes, Iridophores, and Retinal Pigmented Epithelium Reveals Indicators of Biological Function and Developmental Origin.

Published in:

PLoS ONE, 2013, v. 8, n. 7, p. 1, doi. 10.1371/journal.pone.0067801

By:

Higdon, Charles W.;
Mitra, Robi D.;
Johnson, Stephen L.

Publication type:

Article

Rare Variants in APP, PSEN1 and PSEN2 Increase Risk for AD in Late-Onset Alzheimer's Disease Families.

Published in:

PLoS ONE, 2012, v. 7, n. 2, p. 1, doi. 10.1371/journal.pone.0031039

By:

Cruchaga, Carlos;
Chakraverty, Sumitra;
Mayo, Kevin;
Vallania, Francesco L. M.;
Mitra, Robi D.;
Faber, Kelley;
Williamson, Jennifer;
Bird, Tom;
Diaz-Arrastia, Ramon;
Foroud, Tatiana M.;
Boeve, Bradley F.;
Graff-Radford, Neill R.;
Jean, Pamela St.;
Lawson, Michael;
Ehm, Margaret G.;
Mayeux, Richard;
Goate, Alison M.

Publication type:

Article

Bedraggled, a Putative Transporter, Influences the Tissue Polarity Complex During the R3/R4 Fate Decision in the Drosophila Eye.

Published in:

Genetics, 2007, v. 177, n. 1, p. 313, doi. 10.1534/genetics.107.075945

By:

Rawis, Amy S.;
Schultz, Sarah A.;
Mitra, Robi D.;
Wolff, Tanya

Publication type:

Article

Implications and frequency of APP, PSEN1, PSEN2, GRN and MAPT mutation in a well-characterized series of late-onset Alzheimer families

Published in:

2010

By:

Cruchaga, Carlos;
Chakraverty, Sumi;
Haller, Gabe;
Kevin, Mayo;
Vallania, Francesco L.;
Robi, Mitra D.;
Bird, Tom D.;
Diaz-Arrestia, Ramón;
Boeve, Bradley;
Bradley, Boeve;
Graff-Radford, Neill R.;
Mayeux, Richard;
Goate, Alison

Publication type:

Abstract

Rare missense variants in CHRNB4 are associated with reduced risk of nicotine dependence.

Published in:

Human Molecular Genetics, 2012, v. 21, n. 3, p. 647, doi. 10.1093/hmg/ddr498

By:

Haller, Gabe;
Druley, Todd;
Vallania, Francesco L.;
Mitra, Robi D.;
Li, Ping;
Akk, Gustav;
Steinbach, Joe Henry;
Breslau, Naomi;
Johnson, Eric;
Hatsukami, Dorothy;
Stitzel, Jerry;
Bierut, Laura J.;
Goate, Alison M.

Publication type:

Article