Microbial communities of conducting and respiratory zones of lung-transplanted patients

Autor: Marie Beaume, Vladimir Lazarevic, Thilo Köhler, Nadia Gaïa, Oriol Manuel, John-David Aubert, Loïc Baerlocher, Laurent Farinelli, Paola Gasche, Jacques Schrenzel, Christian Van Delden

Publikováno v: Frontiers in Microbiology, Vol 7 (2016)

Background: Lung transplantation (LT) is a recognized treatment for end-stage pulmonary disease. Bacteria from the recipient nasopharynx seed the new lungs leading to infections and allograft damage. Understanding the characteristics and topological

Externí odkaz: https://doaj.org/article/a200417875d74f93a7faf79d57574985

Complete sequence-based pathway analysis by differential on-chip DNA and RNA extraction from a single cell

Autor: Roland C. M. Vulders, Loïc Baerlocher, Nicholas A. Larsen, Rodolphe Marie, Thomas Steen Hansen, Marie Pødenphant, M. A. van Driel, P. J. van der Zaag, Kalim U. Mir, Julien Schira, Tom Olesen, Wim Verhaegh, D. van Strijp, Anders Kristensen

Publikováno v: Scientific Reports, Vol 7, Iss 1, Pp 1-9 (2017)
van Strijp, D, Vulders, R C M, Larsen, N A, Schira, J, Baerlocher, L, van Driel, M A, Jensen, M P, Hansen, T S, Kristensen, A, Mir, K U, Olesen, T, Verhaegh, W F J, Marie, R & van der Zaag, P J 2017, ' Complete sequence-based pathway analysis by differential on-chip DNA and RNA extraction from a single cell ', Scientific Reports, vol. 7, no. 1, 11030 . https://doi.org/10.1038/s41598-017-10704-4
Scientific Reports

We demonstrate on-chip, differential DNA and RNA extraction from a single cell using a microfluidic chip and a two-stage lysis protocol. This method enables direct use of the whole extract, without additional washing steps, reducing sample loss. Usin

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6cc56c08d632925fdf1750edf4e8952d
http://link.springer.com/article/10.1038/s41598-017-10704-4

MISIS-2: A bioinformatics tool for in-depth analysis of small RNAs and representation of consensus master genome in viral quasispecies

Autor: Patricia Otten, Mikhail M. Pooggin, Laurent Farinelli, Loïc Baerlocher, Jonathan Seguin

Publikováno v: Journal of Virological Methods
Journal of Virological Methods, Elsevier, 2016, 233, pp.37-40. ⟨10.1016/j.jviromet.2016.03.005⟩
Journal of virological methods

International audience; In most eukaryotes, small RNA (sRNA) molecules such as miRNAs, siRNAs and piRNAs regulate gene expression and repress transposons and viruses. AGO/PIWI family proteins sort functional sRNAs based on size, 5'-nucleotide and oth

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::575aa0fb338ca14f41e038b7c7fe4e13
https://doi.org/10.1016/j.jviromet.2016.03.005

Single-molecule DNA-mapping and whole-genome sequencing of individual cells

Autor: Henrik Flyvbjerg, Maksim Zalkovskij, Anders Kristensen, Andrej Mironov, Marie Pødenphant, Kalim U. Mir, Kamila Koprowska, Jonas Nyvold Pedersen, Neil Ashley, Rodolphe Marie, Brian Bilenberg, Loïc Baerlocher, Celine Sabatel, Walter F. Bodmer

Publikováno v: Marie, R, Pedersen, J N, Bærlocher, L, Koprowska, K, Pødenphant, M, Sabatel, C, Zalkovskij, M, Mironov, A, Bilenberg, B, Ashley, N, Flyvbjerg, H, Bodmer, W F, Kristensen, A & Mir, K U 2018, ' Single-molecule DNA-mapping and whole-genome sequencing of individual cells ', Proceedings of the National Academy of Sciences of the United States of America, vol. 115, no. 44, pp. 11192-11197 . https://doi.org/10.1073/pnas.1804194115

To elucidate cellular diversity and clonal evolution in tissues and tumors, one must resolve genomic heterogeneity in single cells. To this end, we have developed low-cost, mass-producible micro-/nanofluidic chips for DNA extraction from individual c

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::d4bc4340ac3b54827845c1359afef95b
https://orbit.dtu.dk/en/publications/9ae9c25d-b5e1-4368-a4b7-39062cb7fb5c

Efficient mutation identification in zebrafish by microarray capturing and next generation sequencing

Autor: Roland Dosch, Sabrina Mehenni, Franck Bontems, Ilham A. Bahechar, Laurent Farinelli, Loïc Baerlocher

Publikováno v: Biochemical and Biophysical Research Communications. 405:373-376

Fish models like medaka, stickleback or zebrafish provide a valuable resource to study vertebrate genes. However, finding genetic variants e.g. mutations in the genome is still arduous. Here we used a combination of microarray capturing and next gene

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::cf046d2c47c6826ec0655de90e4c9830
https://doi.org/10.1016/j.bbrc.2011.01.024