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Data associated with the publication: Stick-slip unfolding favors self-association of expanded HTT mRNA
No full textIn Huntington’s Disease (HD) and related disorders, expansion of CAG trinucleotide repeats produces a toxic gain of function in affected neurons. Expanded huntingtin (expHTT) mRNA forms aggregates that sequester essential RNA binding proteins, dysregulating mRNA processing and translation. The physical basis of RNA aggregation has been difficult to disentangle owing to the heterogeneous structure of the CAG repeats. Here, we probe the folding and unfolding pathways of expHTT mRNA using single-molecule force spectroscopy. Whereas normal HTT mRNAs unfold reversibly and cooperatively, expHTT mRNAs with 20 or 40 CAG repeats slip and unravel non-cooperatively at low tension. Slippage of CAG base pairs is punctuated by concerted rearrangement of adjacent CCG trinucleotides, trapping partially folded structures that readily base pair with another RNA strand. We suggest that the conformational entropy of the CAG repeats, combined with stable CCG base pairs, creates a stick-slip behavior that explains the aggregation propensity of expHTT mRNA.
This dataset comprises metadata, analysis scripts, single molecule force recordings, and analyzed data used to create the figures in this manuscript
Data associated with the publication: Optimized genetic tools for neuroanatomical and functional mapping of the Aedes aegypti olfactory system
No full textThis archive contains raw calcium imaging stacks in .tif format, confocal stacks in .tif format and 3D reconstruction files including confocal stacks in .lsm format and associated segmentation label files in .am format used in the publication
Data associated with the publication: Microtubule-binding protein MAP1B regulates interstitial axon branching of cortical neurons via the tubulin tyrosination cycle
No full textIn the mammalian brain cortex, correct layer-specific interstitial (collateral) axon branching is required for generating functional circuitry. Here, precise gene manipulation and defined neuronal labeling in the murine neocortex identifies a role for microtubule-binding protein MAP1B in inhibiting axon interstitial branching. The dataset contains information related to the paper “Microtubule-binding protein MAP1B regulates interstitial axon branching of cortical neurons via the tubulin tyrosination cycle." It includes:
1. figure source data,
2. confocal images of all neurons analyzed.
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Data and code associated with the publication: SARS-CoV-2 variants from long-term, persistently infected immunocompromised patients have altered syncytia formation, temperature-dependent replication, and escape neutralization with convalescent plasma
No full textSARS-CoV-2 infection of immunocompromised individuals often leads to prolonged detection of viral RNA and infectious virus in nasal specimens, presumably due to the lack of induction of an appropriate adaptive immune response. Mutations identified in virus sequences obtained from persistently infected patients bear signatures of immune evasion and have some overlap with sequences present in variants of concern. We characterized virus isolates from two COVID-19 patients undergoing immunosuppressive cancer therapy, with all isolates obtained greater than 100 days after the initial COVID-19 diagnoses and compared to an isolate from the start of the infection. Isolates from an individual who never mounted an antibody response specific to SARS-CoV-2 despite the administration of convalescent plasma showed slight reductions in plaque size and some showed temperature-dependent replication attenuation on human nasal epithelial cell culture compared to the virus that initiated infection. An isolate from another patient - who did mount a SARS-CoV-2 IgM response – showed temperature dependent changes in plaque size as well as increased syncytia formation and escape from serum neutralizing antibody. Our results indicate that not all virus isolates from immunocompromised COVID-19 patients display clear signs of phenotypic change but increased attention should be paid to monitoring virus evolution in this patient population
PMA2020 Ethiopia Round 4 Household & Female Survey (2016)
No full textEthiopia Round 4 Household and Female (HQFQ) survey used a two-stage cluster design with urban-rural and major regions as strata. A sample of 221 enumeration areas (EAs) was drawn by the Central Statistical Agency from its master sampling frame. Each EA was listed and mapped; 35 households were randomly selected. Occupants in selected households were enumerated and eligible females of reproductive age (15-49) were contacted and consented for interview. The final sample included 7,651 households and 7,538 females. Data collection was conducted between March and April, 2016. More information about this dataset can be found in the corresponding codebook, accessible at https://doi.org/10.34976/b88s-zx32</a
PMA Kenya Phase 2 Service Delivery Point Survey (2020)
No full textPMA Kenya Phase 2 (KEP2) Client Exit Interview Baseline Survey includes 308 enumeration areas (EAs) of selected counties. The EAs were drawn using the multi-stage cluster design with urban-rural strata by the Kenya Bureau of Statistics following the pre-existing sampling frame used for PMA2020. The results are national and county-level representative. The final sample included 4,846 clients which completed the interview. Data collection was conducted between November and December 2020. More information about this dataset can be found in the corresponding codebook, accessible at https://doi.org/10.34976/f0vf-qd73</a
PMA2020 Kenya Round 2 Household & Female Survey (2014)
No full textKenya Round 2 Household and Female (HQFQ) survey used a two-stage cluster design with counties as strata. A sample of 120 enumeration areas (EAs) was drawn by the Kenya National Bureau of Statistics from its master sampling frame. In each EA was listed and mapped, with 42 households randomly selected. Households were surveys and occupants enumerated. All eligible females of reproductive age 15 to 49 were contacted and consented for interviews. The final sample included 4,601 households and 4,323 females. Data collection was conducted between November and December, 2014. More information about this dataset can be found in the corresponding codebook, accessible at https://doi.org/10.34976/b88s-zx32</a
PMA2020 Ghana Round 2 Service Delivery Point Survey (2014)
No full textGhana Round 2 Service Delivery Point (SQ) survey used a two-stage cluster design with urban and rural, major ecological zones as the strata. A sample of 100 enumeration areas (EAs) was drawn by the Ghana Statistical Service from its master sampling frame. Each EA was listed and mapped. Public facilities were included if a selected EA fell within the catchment area. Private facilities were included if they fell within the boundaries of the EA. Data collection was conducted between February through June, 2014. The final completed sample in Ghana Round 2 was 124 SDPs. More information about this dataset can be found in the corresponding codebook, accessible at https://doi.org/10.34976/vfbp-bz42</a
PMA Uganda Phase 1 Household and Female Survey (2020)
No full textPMA Uganda Phase 1 Household and Female Baseline Survey includes 122 enumeration areas (EAs) selected using a multi-stage stratified cluster design with urban-rural and region strata. The results are representative at the national level and within urban/rural strata. The final sample included 4,023 households and 3,938 females who completed the interview. Data collection was conducted between September and October 2020. More information about this dataset can be found in the corresponding codebook, accessible at https://doi.org/10.34976/cjvx-z226</a
PMA Burkina Faso Phase 1 Service Delivery Point Survey (2020)
No full textPMA Burkina Faso Phase 1 Service Delivery Point Survey includes a total of 167 enumeration areas (EAs). The EAs were drawn using the stratified cluster design with urban-rural strata from the l’Institut National de la Statistique et de la Démographie (INSD) master sampling frame. The results are nationally representative. The region, Centre, is representative of urban area only, and Hauts-Bassins is representative for both region and urban/rural levels. The final sample included 234 SDPs (98.7%) which completed the interview. Data collection was conducted between December 2019 and February 2020. More information about this dataset can be found in the corresponding codebook, accessible at https://doi.org/10.34976/f0vf-qd73</a