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231 results for “molecular features”
Figs 70–77. May rudy gen. n in May gen. n. (Araneae: Sparassidae): a unique lineage from southern Africa supported by morphological and molecular features
Figs 70–77. May rudy gen. n. sp. n., holotype ♂ from Copper Valley, Namibia: (70–72) habitus of preserved spider: (70) dorsal, (71) ventral, (72) frontal; (73–75) ♂ palp: (73) ventral, (74) retrolateral, (75) RTA, dorsal); (76–77) tarsal tips, showing additional claw tufts with Lawrence setae (black arrows) and claw tuft penetrating dorsal setae (white arrow): (76) lateral, (77) ventral.
Figs 18–19. May bruno gen. n in May gen. n. (Araneae: Sparassidae): a unique lineage from southern Africa supported by morphological and molecular features
Figs 18–19. May bruno gen. n. sp. n., ♀ from Twee Riviere, South Africa (PJ 3536): (18) epigyne, ventral; (19) vulva, dorsal.
Figs 20–33. May bruno gen. n in May gen. n. (Araneae: Sparassidae): a unique lineage from southern Africa supported by morphological and molecular features
Figs 20–33. May bruno gen. n. sp. n. from South Africa (♀ paratypes from Witsand, ♀ from Twee Rivieren): (20–22) tarsus tip: (20) ventral, (21) lateral, (22) dorsal); (23) ♀ palpal claw, lateral; (24–25) Lawrence setae; (26–29) prosoma of ♀♀, showing positions of dorsal marks (white arrows in Fig. 26); (30) metatarsal stopper, dorsal; (31) eye arrangement, dorsal; (32) cheliceral dentition, ventral; (33) gnathocoxae, ventro-distal, showing reduced serrula (black arrow). Abbreviations: AP – plate of Lawrence setae; DP – dorsal plate of elongated setae; IP – plate of indented claw tuft setae; TS – transverse suture with slit sensilla.
A human genome editing-based MLL-AF4 acute lymphoblastic leukemia model recapitulates key cellular and molecular leukemogenic features. (Processed data)
<p>The prognosis of infant B-cell acute lymphoblastic leukemia (iB-ALL) remains dismal, especially in patients harboring the MLL-AF4 (KTM2A-AFF1) rearrangement, which arises prenatally in early hematopoietic stem/progenitor cells (HSPCs) and accounts for 80% of iB-ALL and 10% of non-infant cases. MLL-AF4+ B-ALL shows a bimodal localization of the MLL gene breakpoint within the MLL break cluster region, and two subgroups of patients based on the gene expression pattern of the HOXA/MEIS cluster have been identified. The pathogenic mechanisms in MLL- AF4+ B-ALL are challenging to study functionally due to the absence of faithful human cellular models recapitulating the disease phenotype and latency. Here, we assess the molecular contribution and leukemogenic capacity of MLL breakpoints occurring in either intron 10 (MLL i10 , centromeric) or intron 12 (MLL i12 , telomeric) in ontogenically-different human HSPCs sourced prenatally (fetal liver) and neonatally (cord blood). CRISPR-Cas9-induced MLL-AF4 (MA) targeting either MLL i10 (M i10 A) or MLL i12 (M i12 A) causes MA-driven in vitro myeloid immortalization in both fetal liver- and cord blood-CD34+ HSPCs. The centromeric location of the MLL breakpoint, but not the cellular ontogeny, determined the expression of HOXA/MEIS1 genes in MLL-edited cells. Centromeric MLL breakpoints endowed enhanced myeloid clonogenic replating to MLL- edited CD34+ HSPCs. The cellular ontogeny and the location of the MLL breakpoint also influenced the capacity of MLL-edited CD34+ HSPCs to initiate pro-B-ALL in vivo, which faithfully recapitulated the molecular, transcriptomic and methylome profiles of patients with primary MA+ iB-ALL. Our data provide key insights into the cellular and molecular leukemogenic determinants of MA+ iB-ALL. This dataset contains processed RNAseq and DNA methylation data from the abovementioned study.</p>
Molecular and electrophysiological features of GABAergic neurons in the dentate gyrus reveal limited homology with cortical interneurons
Open the record for dataset details and reuse information.
pLMMoRF: A web server that accurately predicts membrane-interacting molecular recognition features by employing a protein language model
<p>pLMMMoRF predictor scrips and MemMoRF prediction of the human proteome.</p>
From mass spectral features to molecules in molecular networks: MolNotator LDB dataset.
<p>Finding actual molecules in LC-MS/MS experiments can prove challenging due to the considerable amount of redundant ions generated during ionization. In this context, MolNotator was created and validation with this dataset.</p> <p>MolNotator is a Python 3.7 package designed to predict molecules (molecular masses) by combinatorial triangulation in LC-MS/MS experiments after a preprocessing step using MZMine. An MGF and a CSV files output from MZmine are required as input for MolNotator which are placed in the "mzmine_out" folder of the project folder (the uploaded dataset).</p> <p>Instructions for the use of MolNotator are available on GitHub (https://github.com/ZzakB/MolNotator), Pypi (https://pypi.org/project/MolNotator/) and in the associated publication.</p> <p>The dataset consists of 193 LC-MS/MS analyses of lichen pure standards (previously used for the Lichen Database, LDB), 156 of which were detected by manual curation and served to benchmark MolNotator. Results indicated more than 90% of the 156 molecular masses were predicted by MolNotator under 2 ppm error on average.</p> <p>The project folder contains, in addition to the mzmine_out folder, a database and a params folder (see GitHub and Pypi) as well as a styles folder, containing different styles that can be imported on Cytoscape (https://cytoscape.org/) to visualise MolNotator's network output. </p>
Fig. 3. Heterorhabdus papilliger, Female. A. leg 1 in First record of Heterorhabdus papilliger (Calanoida, Heterorhabdidae) from Korean waters based on morphological and molecular features
Fig. 3. Heterorhabdus papilliger, Female. A. leg 1; B. leg 2; C. leg 3; D. leg 4; E. leg 5.
Fig. 1 in First record of Heterorhabdus papilliger (Calanoida, Heterorhabdidae) from Korean waters based on morphological and molecular features
Fig. 1. Map of study area showing sampling location.
Supplemetary Data for the article: Machine-learning identified molecular fragments responsible for infrared emission features of polycyclic aromatic hydrocarbons
<p>This is a set of Supplementary materials for the article 'Machine-learning identified molecular fragments responsible for infrared emission features of polycyclic aromatic hydrocarbons', by Meng et al.</p> <p>Supplementary_Data_I.pdf contains an extensive table spanning 36 pages that lists the top-10 molecular fragments accountable for the spectral bands between 2.761 and 1172.745 μm. To access this table, hyperlinks within the document can be used for navigation.</p> <p>Supplementary_Data_II.pdf comprises a large table that encompasses 10,691 pages, including the top-100 molecular fragments responsible for the spectral bands between 2.761 and 1172.745 μm. Navigation through the hyperlinks enables access to this table.</p> <p>Supplementary_Data_III.csv encompasses the chemical formulas, number of unpaired valence electrons, spin multiplicities, xyz data, and SMILES strings of the PAHs carrying the additional spectra.</p> <p>Supplementary_data_IV.zip includes the input and output datasets along with the ML code. The code script is written in Python 3.7, and is supported by the following libraries: sklearn, json, numpy, and pandas.</p> <p>Supplementary_Information.pdf contains the evidence supporting the choice of the cutoff radius, as well as the figures of the count of the molecules in the dataset, the FI with changing datasets and hyperparameters, of cross-validation, and of UIE bands and emission features of four SH PAHs. Importance of three carbon skeleton fragments for bands in different intervals is also demonstrated.</p>
Efficient Approximation of Molecular Kinetics using Random Fourier Features
<p>Dataset to accompany the paper "<a href="https://scholar.google.com/citations?view_op=view_citation&hl=en&user=RqvAsE0AAAAJ&sortby=pubdate&citation_for_view=RqvAsE0AAAAJ:ULOm3_A8WrAC">Efficient Approximation of Molecular Kinetics using Random Fourier Features</a>", Journal of Chemical Physics 159, 074105 (2023), <a href="https://doi.org/10.1063/5.0162619">https://doi.org/10.1063/5.0162619</a>. Contains source code, input data, and result files. The data are compressed to a single zip file to preserve directory structure. See README file for detailed description of individual files.</p> <p>To automatically download and create the computational environment, pull the latest docker image from <a href="https://hub.docker.com/r/fnueske/23_jcp_rff_data/">https://hub.docker.com/r/fnueske/23_jcp_rff_data/</a></p> <p>and run the following command in terminal:</p> <p>docker run --rm -p 8888:8888 mk-rff:latest</p>
Refining Adjuvant Treatment in Endometrial Cancer Based on Molecular Features
ClinicalTrials.gov study NCT05255653. IPD Sharing: YES. Countries: 4. Publications: 2.
Untargeted metabolomics molecular features data for plasma of 20 Peromyscus leucopus and 20 Mus musculus treated with LPS or controls
Open the record for dataset details and reuse information.
Statistical Analysis of Feature-based Molecular Networking Results from Non-Targeted Metabolomics Data
<p>This folder contains the following used for the publication:</p><ul><li>MASSIVE Repositories: MSV000082312 and MSV000085786. This contains the original data in both .raw and .mzxml formats.</li><li>MZmine 3 files: The feature table (SD_BeachSurvey_GapFilled_quant.csv), the associated mgf file, the batch file (.xml) used for MZmine 3 to obtain the feature table, the mgf file for SIRIUS annotations (SD_BeachSurvey_SIRIUS_fixed.mgf)</li><li>SIRIUS and CANOPUS summary files (.tsv files)</li><li>FBMN Result files</li></ul>
FIGURE 2 in Incorporation of Turkish Hyalopterus spp. into recent species reassessment based on their molecular and morphometric features
FIGURE 2 Maximum Likelihood analyses of Hyalopterus spp. based on mitochondrial COI sequences (10000 replicates; the best evolutionary model: HKY+I).
FIGURE 1 in Incorporation of Turkish Hyalopterus spp. into recent species reassessment based on their molecular and morphometric features
FIGURE 1. Scatter-plot of scores of the first two canonical variets for Hyalopterus spp. for P. domestica, P. persica, P. armeniaca and P. dulcis (◊: P. domestica; +: P. dulcis; ○: P. armeniaca; X: P. persica)
FIGURE 3 in Morphological and molecular features of some freshwater prawn species under genus Macrobrachium Spence Bate, 1868 (Crustacea: Decapoda: Palaemonidae) from Myanmar
FIGURE 3. The phylogenetic relationships analyzed by neighbor-joining (NJ) (A) and maximum likelihood (ML) (B) methods based on partial COI sequences of Macrobrachium species with Procambarus clarkii as out-group taxa. Bootstrap values are shown at nodes.
FIGURE 2 in Morphological and molecular features of some freshwater prawn species under genus Macrobrachium Spence Bate, 1868 (Crustacea: Decapoda: Palaemonidae) from Myanmar
FIGURE 2. The photographs of whole prawns. A: Macrobrachium cavernicola; B: Macrobrachium australiense; C: Macrobrachium johnsoni; D: Macrobrachium josephi; E: Macrobrachium sp.WMY-2017. Bars: 2cm.
FIGURE 1 in Morphological and molecular features of some freshwater prawn species under genus Macrobrachium Spence Bate, 1868 (Crustacea: Decapoda: Palaemonidae) from Myanmar
FIGURE 1. Map of the collection site: Monywa, Sagaing Region, Myanmar. A: Map of the Republic of the Union of Myanmar. B: Sagaing Region of Myanmar (the red area represents Monywa). Source: Land Records Department, Monywa.
FIGURE 4 in Redescription, molecular features, and neotype deposition of Rhipicephalus pusillus Gil Collado and Ixodes ventalloi Gil Collado (Acari, Ixodidae)
FIGURE 4. Adults of I. ventalloi. A, male dorsal; B, male ventral. Bar length for A and B: 1.5 mm. C, male, spiracular plate. D, male, gnathosoma, dorsal view; E, male, gnathosoma, ventral view. Bar length for D and E: 0.25 mm. F, male, hypostome. G, male, coxae and trochanters I to IV. H, female dorsal; I, female ventral. Bar length for A and B: 1.5 mm. J, female, spiracular plate. K, female, gnathosoma, dorsal view; L, female, gnathosoma, ventral view. Bar length for K and L: 0.25 mm. M, female, hypostome. N, female, coxae and trochanters I to IV.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.