Search

Your search keyword '"Grigorev, Kirill"' showing total 33 results
Start Over Author "Grigorev, Kirill"
33 results on '"Grigorev, Kirill"'

4. Molecular and physiological changes in the SpaceX Inspiration4 civilian crew

Author

Jones, Christopher W., Overbey, Eliah G., Lacombe, Jerome, Ecker, Adrian J., Meydan, Cem, Ryon, Krista, Tierney, Braden, Damle, Namita, MacKay, Matthew, Afshin, Evan E., Foox, Jonathan, Park, Jiwoon, Nelson, Theodore M., Suhail Mohamad, Mir, Byhaqui, Syed Gufran Ahmad, Aslam, Burhan, Tali, Ummer Akbar, Nisa, Liaqun, Menon, Priya V., Patel, Chintan O., Khan, Sharib A., Ebert, Doug J., Everson, Aaron, Schubert, Michael C., Ali, Nabila N., Sarma, Mallika S., Kim, JangKeun, Houerbi, Nadia, Grigorev, Kirill, Garcia Medina, J. Sebastian, Summers, Alexander J., Gu, Jian, Altin, John A., Fattahi, Ali, Hirzallah, Mohammad I., Wu, Jimmy H., Stahn, Alexander C., Beheshti, Afshin, Klotz, Remi, Ortiz, Veronica, Yu, Min, Patras, Laura, Matei, Irina, Lyden, David, Melnick, Ari, Banerjee, Neil, Mullane, Sean, Kleinman, Ashley S., Loesche, Michael, Menon, Anil S., Donoviel, Dorit B., Urquieta, Emmanuel, Mateus, Jaime, Sargsyan, Ashot E., Shelhamer, Mark, Zenhausern, Frederic, Bershad, Eric M., Basner, Mathias, and Mason, Christopher E.

Published
2024
Full Text
View/download PDF

5. The Space Omics and Medical Atlas (SOMA) and international astronaut biobank

Author

Overbey, Eliah G., Kim, JangKeun, Tierney, Braden T., Park, Jiwoon, Houerbi, Nadia, Lucaci, Alexander G., Garcia Medina, Sebastian, Damle, Namita, Najjar, Deena, Grigorev, Kirill, Afshin, Evan E., Ryon, Krista A., Sienkiewicz, Karolina, Patras, Laura, Klotz, Remi, Ortiz, Veronica, MacKay, Matthew, Schweickart, Annalise, Chin, Christopher R., Sierra, Maria A., Valenzuela, Matias F., Dantas, Ezequiel, Nelson, Theodore M., Cekanaviciute, Egle, Deards, Gabriel, Foox, Jonathan, Narayanan, S. Anand, Schmidt, Caleb M., Schmidt, Michael A., Schmidt, Julian C., Mullane, Sean, Tigchelaar, Seth Stravers, Levitte, Steven, Westover, Craig, Bhattacharya, Chandrima, Lucotti, Serena, Wain Hirschberg, Jeremy, Proszynski, Jacqueline, Burke, Marissa, Kleinman, Ashley S., Butler, Daniel J., Loy, Conor, Mzava, Omary, Lenz, Joan, Paul, Doru, Mozsary, Christopher, Sanders, Lauren M., Taylor, Lynn E., Patel, Chintan O., Khan, Sharib A., Suhail Mohamad, Mir, Byhaqui, Syed Gufran Ahmad, Aslam, Burhan, Gajadhar, Aaron S., Williamson, Lucy, Tandel, Purvi, Yang, Qiu, Chu, Jessica, Benz, Ryan W., Siddiqui, Asim, Hornburg, Daniel, Blease, Kelly, Moreno, Juan, Boddicker, Andrew, Zhao, Junhua, Lajoie, Bryan, Scott, Ryan T., Gilbert, Rachel R., Lai Polo, San-huei, Altomare, Andrew, Kruglyak, Semyon, Levy, Shawn, Ariyapala, Ishara, Beer, Joanne, Zhang, Bingqing, Hudson, Briana M., Rininger, Aric, Church, Sarah E., Beheshti, Afshin, Church, George M., Smith, Scott M., Crucian, Brian E., Zwart, Sara R., Matei, Irina, Lyden, David C., Garrett-Bakelman, Francine, Krumsiek, Jan, Chen, Qiuying, Miller, Dawson, Shuga, Joe, Williams, Stephen, Nemec, Corey, Trudel, Guy, Pelchat, Martin, Laneuville, Odette, De Vlaminck, Iwijn, Gross, Steven, Bolton, Kelly L., Bailey, Susan M., Granstein, Richard, Furman, David, Melnick, Ari M., Costes, Sylvain V., Shirah, Bader, Yu, Min, Menon, Anil S., Mateus, Jaime, Meydan, Cem, and Mason, Christopher E.

Published
2024
Full Text
View/download PDF

7. Genomes of Three Closely Related Caribbean Amazons Provide Insight for Species History and Conservation.

Author

Kolchanova, Sofiia, Kliver, Sergei, Komissarov, Aleksei, Dobrinin, Pavel, Tamazian, Gaik, Grigorev, Kirill, Wolfsberger, Walter W, Majeske, Audrey J, Velez-Valentin, Jafet, Valentin de la Rosa, Ricardo, Paul-Murphy, Joanne R, Guzman, David Sanchez-Migallon, Court, Michael H, Rodriguez-Flores, Juan L, Martínez-Cruzado, Juan Carlos, and Oleksyk, Taras K

Subjects
Animals, Parrots, Genome, Endangered Species, Transcriptome, Islands, Cuba, Hispaniola, Puerto Rican parrot, birds, conservation, demography, genomics, heterozygosity, parrots, Genetics
Abstract

Islands have been used as model systems for studies of speciation and extinction since Darwin published his observations about finches found on the Galapagos. Amazon parrots inhabiting the Greater Antillean Islands represent a fascinating model of species diversification. Unfortunately, many of these birds are threatened as a result of human activity and some, like the Puerto Rican parrot, are now critically endangered. In this study we used a combination of de novo and reference-assisted assembly methods, integrating it with information obtained from related genomes to perform genome reconstruction of three amazon species. First, we used whole genome sequencing data to generate a new de novo genome assembly for the Puerto Rican parrot (Amazona vittata). We then improved the obtained assembly using transcriptome data from Amazona ventralis and used the resulting sequences as a reference to assemble the genomes Hispaniolan (A. ventralis) and Cuban (Amazona leucocephala) parrots. Finally, we, annotated genes and repetitive elements, estimated genome sizes and current levels of heterozygosity, built models of demographic history and provided interpretation of our findings in the context of parrot evolution in the Caribbean.

Published
2019

8. Cell-free DNA (cfDNA) and Exosome Profiling from a Year-Long Human Spaceflight Reveals Circulating Biomarkers

Author

Bezdan, Daniela, Grigorev, Kirill, Meydan, Cem, Pelissier Vatter, Fanny A., Cioffi, Michele, Rao, Varsha, MacKay, Matthew, Nakahira, Kiichi, Burnham, Philip, Afshinnekoo, Ebrahim, Westover, Craig, Butler, Daniel, Mozsary, Chris, Donahoe, Timothy, Foox, Jonathan, Mishra, Tejaswini, Lucotti, Serena, Rana, Brinda K., Melnick, Ari M., Zhang, Haiying, Matei, Irina, Kelsen, David, Yu, Kenneth, Lyden, David C., Taylor, Lynn, Bailey, Susan M., Snyder, Michael P., Garrett-Bakelman, Francine E., Ossowski, Stephan, De Vlaminck, Iwijn, and Mason, Christopher E.

Published
2020
Full Text
View/download PDF

12. Epigenetic evolution and lineage histories of chronic lymphocytic leukaemia

Author

Gaiti, Federico, Chaligne, Ronan, Gu, Hongcang, Brand, Ryan M., Kothen-Hill, Steven, Schulman, Rafael C., Grigorev, Kirill, Risso, Davide, Kim, Kyu-Tae, Pastore, Alessandro, Huang, Kevin Y., Alonso, Alicia, Sheridan, Caroline, Omans, Nathaniel D., Biederstedt, Evan, Clement, Kendell, Wang, Lili, Felsenfeld, Joshua A., Bhavsar, Erica B., Aryee, Martin J., Allan, John N., Furman, Richard, Gnirke, Andreas, Wu, Catherine J., Meissner, Alexander, and Landau, Dan A.

Published
2019
Full Text
View/download PDF

13. Genome and clonal hematopoiesis stability contrasts with immune, cfDNA, mitochondrial, and telomere length changes during short duration spaceflight.

Author

Garcia-Medina, J Sebastian, Sienkiewicz, Karolina, Narayanan, S Anand, Overbey, Eliah G, Grigorev, Kirill, Ryon, Krista A, Burke, Marissa, Proszynski, Jacqueline, Tierney, Braden, Schmidt, Caleb M, Mencia-Trinchant, Nuria, Klotz, Remi, Ortiz, Veronica, Foox, Jonathan, Chin, Christopher, Najjar, Deena, Matei, Irina, Chan, Irenaeus, Cruchaga, Carlos, and Kleinman, Ashley

Published
2024
Full Text
View/download PDF

16. Haplotype diversity and sequence heterogeneity of human telomeres

Author

Grigorev, Kirill, primary, Foox, Jonathan, additional, Bezdan, Daniela, additional, Butler, Daniel, additional, Luxton, Jared J., additional, Reed, Jake, additional, McKenna, Miles J., additional, Taylor, Lynn, additional, George, Kerry A., additional, Meydan, Cem, additional, Bailey, Susan M., additional, and Mason, Christopher E., additional

Published
2021
Full Text
View/download PDF

19. Multi-omics Analysis of Dsup Expressing Human Cells Reveals Open Chromatin Architectural Dynamics Underyling Radioprotection

Author

Westover, Craig, primary, Najjar, Deena, additional, Meydan, Cem, additional, Grigorev, Kirill, additional, Veling, Mike T., additional, Chang, Roger L, additional, Chin, Christopher, additional, Butler, Daniel, additional, Afshin, Evan E., additional, Silver, Pamela A, additional, and Mason, Christopher E., additional

Published
2020
Full Text
View/download PDF

20. Cell-free DNA (cfDNA) and exosome profiling from a year-long human spaceflight reveals circulating biomarkers

Author

Bezdan, Daniela, primary, Grigorev, Kirill, additional, Meydan, Cem, additional, Pelissier Vatter, Fanny A., additional, Cioffi, Michele, additional, Rao, Varsha, additional, Nakahira, Kiichi, additional, Burnham, Philip, additional, Afshinnekoo, Ebrahim, additional, Westover, Craig, additional, Butler, Daniel, additional, Moszary, Chris, additional, MacKay, Matthew, additional, Foox, Jonathan, additional, Mishra, Tejaswini, additional, Lucotti, Serena, additional, Rana, Brinda K., additional, Melnick, Ari M., additional, Zhang, Haiying, additional, Matei, Irina, additional, Kelsen, David, additional, Yu, Kenneth, additional, Lyden, David C, additional, Taylor, Lynn, additional, Bailey, Susan M, additional, P.Snyder, Michael, additional, Garrett-Bakelman, Francine E., additional, Ossowski, Stephan, additional, De Vlaminck, Iwijn, additional, and Mason, Christopher E., additional

Published
2020
Full Text
View/download PDF

23. Temporal Telomere and DNA Damage Responses in the Space Radiation Environment

Author

Luxton, Jared J., primary, McKenna, Miles J., additional, Taylor, Lynn E., additional, George, Kerry A., additional, Zwart, Sara, additional, Crucian, Brian, additional, Drel, Viktor R., additional, Butler, Daniel, additional, Gokhale, Nandan S., additional, Horner, Stacy, additional, Foox, Jonathan, additional, Grigorev, Kirill, additional, Bezdan, Daniela, additional, Meydan, Cem, additional, Smith, Scott M., additional, Sharma, Kumar, additional, Mason, Christopher E., additional, and Bailey, Susan M., additional

Published
2020
Full Text
View/download PDF

24. Innovative assembly strategy contributes to understanding the evolution and conservation genetics of the endangered Solenodon paradoxus from the island of Hispaniola

Author

Grigorev, Kirill, primary, Kliver, Sergey, additional, Dobrynin, Pavel, additional, Komissarov, Aleksey, additional, Wolfsberger, Walter, additional, Krasheninnikova, Ksenia, additional, Afanador-Hernández, Yashira M, additional, Brandt, Adam L, additional, Paulino, Liz A, additional, Carreras, Rosanna, additional, Rodríguez, Luis E, additional, Núñez, Adrell, additional, Brandt, Jessica R, additional, Silva, Filipe, additional, Hernández-Martich, J David, additional, Majeske, Audrey J, additional, Antunes, Agostinho, additional, Roca, Alfred L, additional, O'Brien, Stephen J, additional, Martínez-Cruzado, Juan Carlos, additional, and Oleksyk, Taras K, additional

Published
2018
Full Text
View/download PDF

25. Innovative assembly strategy contributes to the understanding of evolution and conservation genetics of the critically endangeredSolenodon paradoxusfrom the island of Hispaniola

Author

Grigorev, Kirill, primary, Kliver, Sergey, additional, Dobrynin, Pavel, additional, Komissarov, Aleksey, additional, Wolfsberger, Walter, additional, Krasheninnikova, Ksenia, additional, Afanador-Hernández, Yashira M., additional, Paulino, Liz A., additional, Carreras, Rosanna, additional, Rodríguez, Luis E., additional, Núñez, Adrell, additional, Silva, Filipe, additional, Hernández-Martich, J. David, additional, Majeske, Audrey J., additional, Antunes, Agostinho, additional, Roca, Alfred L., additional, O’Brien, Stephen J., additional, Martinez-Cruzado, Juan Carlos, additional, and Oleksyk, Taras K., additional

Published
2017
Full Text
View/download PDF

26. Hydroacoustic profilograph with linear frequency modulation

Author

Chensky Dmitry, Poletaev Alexander, Dobrobaba Christine, Chensky Alexander, and Grigorev Kirill

Subjects
Engineering, Software, business.industry, Hydroacoustics, Acoustics, Electronic engineering, Chirp, CompactRIO, Experimental data, Block diagram, Field-programmable gate array, business, Frequency modulation
Abstract

The article describes a hydroacoustic profilograph with linear frequency modulation built on NI CompactRio equipment. The block-diagram and operation principle of the system are shown in details. A description of the designed software is also presented. The profilograph was being tested during expedition to Lake Oron, the article demonstrates some experimental data.

Published
2015
Full Text
View/download PDF

27. Software of the system for long-term ionospheric monitoring in very low frequency range

Author

Chensky Alexander, Poletaev Alexander, and Grigorev Kirill

Subjects
Engineering, Amplitude, Data acquisition, Software, Radio receiver design, business.industry, Phase (waves), Electronic engineering, Very low frequency, Ionosphere, business, Term (time)
Abstract

The article describes a virtual receiver for longterm amplitude and phase measurements of very low frequency radio signals. The program algorithm and key features are shown. Experimental data and some results of measurements via the designed hardware and software complex are presented.

Published
2015
Full Text
View/download PDF

28. Mitogenomic sequences support a north–south subspecies subdivision within Solenodon paradoxus

Author

Brandt, Adam L., primary, Grigorev, Kirill, additional, Afanador-Hernández, Yashira M., additional, Paulino, Liz A., additional, Murphy, William J., additional, Núñez, Adrell, additional, Komissarov, Aleksey, additional, Brandt, Jessica R., additional, Dobrynin, Pavel, additional, Hernández-Martich, J. David, additional, María, Roberto, additional, O’Brien, Stephen J., additional, Rodríguez, Luis E., additional, Martínez-Cruzado, Juan C., additional, Oleksyk, Taras K., additional, and Roca, Alfred L., additional

Published
2016
Full Text
View/download PDF

30. Mitogenomic sequences support a north–south subspecies subdivision within Solenodon paradoxus.

Author

Brandt, Adam L., Grigorev, Kirill, Afanador-Hernández, Yashira M., Paulino, Liz A., Murphy, William J., Núñez, Adrell, Komissarov, Aleksey, Brandt, Jessica R., Dobrynin, Pavel, Hernández-Martich, J. David, María, Roberto, O'Brien, Stephen J., Rodríguez, Luis E., Martínez-Cruzado, Juan C., Oleksyk, Taras K., and Roca, Alfred L.

Subjects
*INSECTIVORES (Mammals), *GENOMES, *PHYLOGENY, *MAMMALS, *GENETICS
Abstract

Solenodons are insectivores found only in Hispaniola and Cuba, with a Mesozoic divergence date versus extant mainland mammals. Solenodons are the oldest lineage of living eutherian mammal for which a mitogenome sequence has not been reported. We determined complete mitogenome sequences for six Hispaniolan solenodons (Solenodon paradoxus) using next-generation sequencing. The solenodon mitogenomes were 16,454–16,457 bp long and carried the expected repertoire of genes. A mitogenomic phylogeny confirmed the basal position of solenodons relative to shrews and moles, with solenodon mitogenomes estimated to have diverged from those of other mammals ca. 78 Mya. Control region sequences of solenodons from the northern (n = 3) and southern (n = 5) Dominican Republic grouped separately in a network, withFST= 0.72 (p = 0.036) between north and south. This regional genetic divergence supports previous morphological and genetic reports recognizing northern (S. p. paradoxus) and southern (S. p. woodi) subspecies in need of separate conservation plans. [ABSTRACT FROM PUBLISHER]

Published
2017
Full Text
View/download PDF

32. A familial, telomere-to-telomere reference for human de novo mutation and recombination from a four-generation pedigree.

Author

Porubsky D, Dashnow H, Sasani TA, Logsdon GA, Hallast P, Noyes MD, Kronenberg ZN, Mokveld T, Koundinya N, Nolan C, Steely CJ, Guarracino A, Dolzhenko E, Harvey WT, Rowell WJ, Grigorev K, Nicholas TJ, Oshima KK, Lin J, Ebert P, Watkins WS, Leung TY, Hanlon VCT, McGee S, Pedersen BS, Goldberg ME, Happ HC, Jeong H, Munson KM, Hoekzema K, Chan DD, Wang Y, Knuth J, Garcia GH, Fanslow C, Lambert C, Lee C, Smith JD, Levy S, Mason CE, Garrison E, Lansdorp PM, Neklason DW, Jorde LB, Quinlan AR, Eberle MA, and Eichler EE

Abstract

Using five complementary short- and long-read sequencing technologies, we phased and assembled >95% of each diploid human genome in a four-generation, 28-member family (CEPH 1463) allowing us to systematically assess de novo mutations (DNMs) and recombination. From this family, we estimate an average of 192 DNMs per generation, including 75.5 de novo single-nucleotide variants (SNVs), 7.4 non-tandem repeat indels, 79.6 de novo indels or structural variants (SVs) originating from tandem repeats, 7.7 centromeric de novo SVs and SNVs, and 12.4 de novo Y chromosome events per generation. STRs and VNTRs are the most mutable with 32 loci exhibiting recurrent mutation through the generations. We accurately assemble 288 centromeres and six Y chromosomes across the generations, documenting de novo SVs, and demonstrate that the DNM rate varies by an order of magnitude depending on repeat content, length, and sequence identity. We show a strong paternal bias (75-81%) for all forms of germline DNM, yet we estimate that 17% of de novo SNVs are postzygotic in origin with no paternal bias. We place all this variation in the context of a high-resolution recombination map (~3.5 kbp breakpoint resolution). We observe a strong maternal recombination bias (1.36 maternal:paternal ratio) with a consistent reduction in the number of crossovers with increasing paternal (r=0.85) and maternal (r=0.65) age. However, we observe no correlation between meiotic crossover locations and de novo SVs, arguing against non-allelic homologous recombination as a predominant mechanism. The use of multiple orthogonal technologies, near-telomere-to-telomere phased genome assemblies, and a multi-generation family to assess transmission has created the most comprehensive, publicly available "truth set" of all classes of genomic variants. The resource can be used to test and benchmark new algorithms and technologies to understand the most fundamental processes underlying human genetic variation., Competing Interests: Conflicts of interest E.E.E. is a scientific advisory board (SAB) member of Variant Bio, Inc. C.Lee is an SAB member of Nabsys and Genome Insight. D.P. has previously disclosed a patent application (no. EP19169090) relevant to Strand-seq. Z.K., C.N., E.D., C.F., C.Lambert, T.M., W.J.R., and M.A.E. are employees and shareholders of PacBio. Z.K. is a private shareholder in Phase Genomics. The other authors declare no competing interests.

Published
2024
Full Text
View/download PDF

33. NASA GeneLab: interfaces for the exploration of space omics data.

Author

Berrios DC, Galazka J, Grigorev K, Gebre S, and Costes SV

Subjects
Animals, Astronauts, Bacteria genetics, Bacteria metabolism, Fishes genetics, Fishes metabolism, Gene Expression Regulation, Humans, Information Dissemination, Insecta genetics, Insecta metabolism, Internet, Mice, Nematoda genetics, Nematoda metabolism, Plants genetics, Plants metabolism, Space Flight, Weightlessness Simulation, Databases, Genetic, Genome, Software, Weightlessness
Abstract

The mission of NASA's GeneLab database (https://genelab.nasa.gov/) is to collect, curate, and provide access to the genomic, transcriptomic, proteomic and metabolomic (so-called 'omics') data from biospecimens flown in space or exposed to simulated space stressors, maximizing their utilization. This large collection of data enables the exploration of molecular network responses to space environments using a systems biology approach. We review here the various components of the GeneLab platform, including the new data repository web interface, and the GeneLab Online Data Entry (GEODE) web portal, which will support the expansion of the database in the future to include companion non-omics assay data. We discuss our design for GEODE, particularly how it promotes investigators providing more accurate metadata, reducing the curation effort required of GeneLab staff. We also introduce here a new GeneLab Application Programming Interface (API) specifically designed to support tools for the visualization of processed omics data. We review the outreach efforts by GeneLab to utilize the spaceflight data in the repository to generate novel discoveries and develop new hypotheses, including spearheading data analysis working groups, and a high school student training program. All these efforts are aimed ultimately at supporting precision risk management for human space exploration., (© The Author(s) 2020. Published by Oxford University Press on behalf of Nucleic Acids Research.)

Published
2021
Full Text
View/download PDF

Catalog

Books, media, physical & digital resources
See catalog results