cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.16895467
title: Processed GTEx Data From Experimental and Computational Methods for Allelic Imbalance Analysis from Single-Nucleus RNA-seq Data

description: Preprint abstract (from https://www.biorxiv.org/content/10.1101/2024.08.13.607784v1): Single-cell RNA-seq (scRNA-seq) is emerging as a powerful tool for understanding gene function across diverse cells. Recently, this has included the use of allele-specific expression (ASE) analysis to better understand how variation in the human genome affects RNA expression at the single-cell level. We reasoned that because intronic reads are more prevalent in single-nucleus RNA-Seq (snRNA-Seq), and introns are under lower purifying selection and thus enriched for genetic variants, that snRNA-seq should facilitate single-cell analysis of ASE. Here we demonstrate how experimental and computational choices can improve the results of allelic imbalance analysis. We explore how experimental choices, such as RNA source, read length, sequencing depth, genotyping, etc., impact the power of ASE-based methods. We developed a new suite of computational tools to process and analyze scRNA-seq and snRNA-seq for ASE. As hypothesized, we extracted more ASE information from reads in intronic regions than those in exonic regions and show how read length can be set to increase power. Additionally, hybrid selection improved our power to detect allelic imbalance in genes of interest. We also explored methods to recover allele-specific isoform expression levels from both long- and short-read snRNA-seq. To further investigate ASE in the context of human disease, we applied our methods to a Parkinson’s disease cohort of 94 individuals and show that ASE analysis had more power than eQTL analysis to identify significant SNP/gene pairs in our direct comparison of the two methods. Overall, we provide an end-to-end experimental and computational approach for future studies.

 

This repo contains the clustering of the single nuclei cortex GTEx data presented in Figure 2 of the above preprint, and is also availble in the Broad single cell repository under accension SCP2873.
DOI: 10.5281/zenodo.16895468
title: Processed GTEx Data From Experimental and Computational Methods for Allelic Imbalance Analysis from Single-Nucleus RNA-seq Data

description: Preprint abstract (from https://www.biorxiv.org/content/10.1101/2024.08.13.607784v1): Single-cell RNA-seq (scRNA-seq) is emerging as a powerful tool for understanding gene function across diverse cells. Recently, this has included the use of allele-specific expression (ASE) analysis to better understand how variation in the human genome affects RNA expression at the single-cell level. We reasoned that because intronic reads are more prevalent in single-nucleus RNA-Seq (snRNA-Seq), and introns are under lower purifying selection and thus enriched for genetic variants, that snRNA-seq should facilitate single-cell analysis of ASE. Here we demonstrate how experimental and computational choices can improve the results of allelic imbalance analysis. We explore how experimental choices, such as RNA source, read length, sequencing depth, genotyping, etc., impact the power of ASE-based methods. We developed a new suite of computational tools to process and analyze scRNA-seq and snRNA-seq for ASE. As hypothesized, we extracted more ASE information from reads in intronic regions than those in exonic regions and show how read length can be set to increase power. Additionally, hybrid selection improved our power to detect allelic imbalance in genes of interest. We also explored methods to recover allele-specific isoform expression levels from both long- and short-read snRNA-seq. To further investigate ASE in the context of human disease, we applied our methods to a Parkinson’s disease cohort of 94 individuals and show that ASE analysis had more power than eQTL analysis to identify significant SNP/gene pairs in our direct comparison of the two methods. Overall, we provide an end-to-end experimental and computational approach for future studies.

 

This repo contains the clustering of the single nuclei cortex GTEx data presented in Figure 2 of the above preprint, and is also availble in the Broad single cell repository under accension SCP2873.
DOI: 10.3535/9g6-gq8-ng1
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/fkw-xg6-n82
title: Plantae

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/s1e-27f-zn1
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/g5h-9hq-dyd
title: Plantae

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ntg-ald-wnv
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/w5a-rp6-9tw
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/z6v-ygg-5h1
title: †Sphaerodoma Keyes, 1889

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ndh-1y2-g31
title: Plantae

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/tm4-vhq-0t9
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/k8g-0v3-a6l
title: Plantae

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/rxj-fla-m96
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ylz-sxk-q9l
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/8na-75e-vja
title: Bos taurus Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/jy0-wkq-730
title: Ostrea Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/0zw-brm-gb3
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/drt-fce-2tx
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/mgq-ffy-y7c
title: Bos taurus Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/qtx-se4-1nt
title: †Pseudolillia emiliana (Reynes, 1868)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/heg-gdf-pqc
title: †Fusulina Fischer de Waldheim, 1829

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/m2l-2r5-15h
title: Canis lupus familiaris Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/p04-gjf-ed2
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/bht-ty2-qw3
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/xa6-zgx-1wr
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/5t3-aq8-6m4
title: Equus (Equus) caballus Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/d8y-sam-pjs
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/1zq-04q-rmd
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/5cq-1wy-xx0
title: Bos taurus Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/aw9-hgl-tkj
title: Bos taurus Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.15468/dl.zsyazh
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Salmo trutta",
 "Country is Micronesia (Federated States of)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019645-250811113504898/datasets/export for details.
DOI: 10.3535/j55-fvz-bfd
title: Hibolithes

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/zgp-kt0-tl0
title: †Heteralosia King, 1938

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/j50-asd-b5s
title: †Belemnitida

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/zya-2vd-bdn
title: Belemnites

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/b00-twq-92a
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/d2y-11f-y9s
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25549/wpacards-c8-153640
title: WPA household census for 4640A EAST 59TH PLACE, Los Angeles County

description: The Works Progress Administration Los Angeles Household Census Cards collection dates from 1939. The physical cards which number nearly half a million items are owned by the USC Libraries. More than a quarter of the collection has been digitized.The household survey cards (or "dwelling schedules"), one for each street address in greater Los Angeles, document a wide variety of information ranging from the type of dwelling, the value of the property, the monthly rent or mortgage, to whether or not there were flush toilets. While these cards form the bulk of the collection, other digitized documents include "block face cards" and "block lists" -- documenting the census process.
DOI: 10.5281/zenodo.18739668
title: PharmaIsomer
DOI: 10.5281/zenodo.18739667
title: PharmaIsomer
DOI: 10.25549/wpacards-c8-153649
title: WPA household census for 4656 1/2 EAST 59TH PLACE, Los Angeles County

description: The Works Progress Administration Los Angeles Household Census Cards collection dates from 1939. The physical cards which number nearly half a million items are owned by the USC Libraries. More than a quarter of the collection has been digitized.The household survey cards (or "dwelling schedules"), one for each street address in greater Los Angeles, document a wide variety of information ranging from the type of dwelling, the value of the property, the monthly rent or mortgage, to whether or not there were flush toilets. While these cards form the bulk of the collection, other digitized documents include "block face cards" and "block lists" -- documenting the census process.
DOI: 10.25549/wpacards-c8-153673
title: WPA household census for 4718 EAST 59TH PLACE, Los Angeles County

description: The Works Progress Administration Los Angeles Household Census Cards collection dates from 1939. The physical cards which number nearly half a million items are owned by the USC Libraries. More than a quarter of the collection has been digitized.The household survey cards (or "dwelling schedules"), one for each street address in greater Los Angeles, document a wide variety of information ranging from the type of dwelling, the value of the property, the monthly rent or mortgage, to whether or not there were flush toilets. While these cards form the bulk of the collection, other digitized documents include "block face cards" and "block lists" -- documenting the census process.
DOI: 10.5281/zenodo.18755213
title: Establishment and application of a new method identifying nitrogen pollution sources using CHEMTAX model combined with hydrochemical fingerprint indicators

description: Source identification of total nitrogen (TN) in rivers is important for water environment protection. This study aimed to establish a TN source identification method using CHEMTAX combined with fingerprint indicators and to apply this method in the basin of the upper Hanjiang River. Forty-eight end-member samples, including cropland, forest, grassland, wastewater, litter and manure samples, were collected and mixed to obtain 95 receptor samples with preset proportions. Four cations (K+, Ca2+, Na+, and Mg2+), two anions (Cl- and SO42-), five trace elements (B, Sr, Si, La, and Se) and four dissolved organic matter (DOM) spectral indices (FI, SR, SUVA254, and HIX) of both the end-member and receptor samples were measured as fingerprint indicators. Finally, a TN source identification method based on CHEMTAX using concentrations of four cations (K+, Ca2+, Na+, and Mg2+) and two elements Sr and Si was established. In addition, methods of hydrochemical fingerprint indicator combined with the CHEMTAX model and Bayesian mixing model based on nitrogen and oxygen stable isotopes were employed for the nitrate source identification in the upper Hanjiang River Basin. The principal coordinates analysis results, variance partitioning analysis and random forest models analysis, and the source contribution correlations between the MixSIAR and CHEMTAX method indicated that nitrogen contribution of three sources including soil, wastewater and litter & manure calculated by this CHEMTAX based method was credible. The established method not only reduced test cost, but also showed potential for online nitrogen source identification monitoring. This study opened a new window for TN source identification.
DOI: 10.5281/zenodo.18755214
title: Establishment and application of a new method identifying nitrogen pollution sources using CHEMTAX model combined with hydrochemical fingerprint indicators

description: Source identification of total nitrogen (TN) in rivers is important for water environment protection. This study aimed to establish a TN source identification method using CHEMTAX combined with fingerprint indicators and to apply this method in the basin of the upper Hanjiang River. Forty-eight end-member samples, including cropland, forest, grassland, wastewater, litter and manure samples, were collected and mixed to obtain 95 receptor samples with preset proportions. Four cations (K+, Ca2+, Na+, and Mg2+), two anions (Cl- and SO42-), five trace elements (B, Sr, Si, La, and Se) and four dissolved organic matter (DOM) spectral indices (FI, SR, SUVA254, and HIX) of both the end-member and receptor samples were measured as fingerprint indicators. Finally, a TN source identification method based on CHEMTAX using concentrations of four cations (K+, Ca2+, Na+, and Mg2+) and two elements Sr and Si was established. In addition, methods of hydrochemical fingerprint indicator combined with the CHEMTAX model and Bayesian mixing model based on nitrogen and oxygen stable isotopes were employed for the nitrate source identification in the upper Hanjiang River Basin. The principal coordinates analysis results, variance partitioning analysis and random forest models analysis, and the source contribution correlations between the MixSIAR and CHEMTAX method indicated that nitrogen contribution of three sources including soil, wastewater and litter & manure calculated by this CHEMTAX based method was credible. The established method not only reduced test cost, but also showed potential for online nitrogen source identification monitoring. This study opened a new window for TN source identification.
DOI: 10.25549/wpacards-ouc11550633
title: WPA household census for 4729 EAST 60TH STREET, Los Angeles County

description: The Works Progress Administration Los Angeles Household Census Cards collection dates from 1939. The physical cards which number nearly half a million items are owned by the USC Libraries. More than a quarter of the collection has been digitized.The household survey cards (or "dwelling schedules"), one for each street address in greater Los Angeles, document a wide variety of information ranging from the type of dwelling, the value of the property, the monthly rent or mortgage, to whether or not there were flush toilets. While these cards form the bulk of the collection, other digitized documents include "block face cards" and "block lists" -- documenting the census process.
DOI: 10.25549/wpacards-ouc11554230
title: WPA household census for 654 S FORD BLVD, Los Angeles County

description: The Works Progress Administration Los Angeles Household Census Cards collection dates from 1939. The physical cards which number nearly half a million items are owned by the USC Libraries. More than a quarter of the collection has been digitized.The household survey cards (or "dwelling schedules"), one for each street address in greater Los Angeles, document a wide variety of information ranging from the type of dwelling, the value of the property, the monthly rent or mortgage, to whether or not there were flush toilets. While these cards form the bulk of the collection, other digitized documents include "block face cards" and "block lists" -- documenting the census process.
DOI: 10.3886/e246287
title: College of Nursing Sciences, Adazi-Nnukwu, Anambra State 2026/2027 Admission Form/Application Form Is Out Call the Registrar (07032031024) 07032031024(07032031024) For More Details On How To Apply And Register Online.

description: College of Nursing Sciences, Adazi-Nnukwu, Anambra State 2026/2027 Admission Form/Application Form Is Out Call the Registrar (07032031024) 07032031024(07032031024) For More Details On How To Apply And Register Online. The Management Of The School Hereby Inform The general Public On The Sales Of The General Nursing Admission Form Into The School Of Nursing, And Also The Sales Of Two (2) Years Post Basic Nursing Program. Contact The Educational Board Admin On (07032031024) For More Details On How To Purchase The Form And Register Online. REQUIREMENT FOR THE THREE YEARS GENERAL NURSING PROGRAMMES1. GENERAL NURSING PROGRAMME Admission Requirements Candidates For Admission Into The General Nursing Program Of The Nursing And Midwifery Council Of Nigeria Must Posses The Senior Secondary School Certificate Or It’s Equivalent With Five Credits To Include English Language And Either Physics, Chemistry, Biology/Health Science At Not More Than Two sittings. Duration Of Training: Three Calendar Years. Registered Nurse (RN) Also POST BASIC NURSING MIDWIFERY PROGRAMME Admission Requirements: The Candidate Must Be a Registered Nurse, Five (O,Level) Credits Not More Two Sittings And Must Also Meet All institutional Requirements. Duration of Training: Two Calendar Year.{07032031024}
DOI: 10.25549/wpacards-c8-155923
title: WPA household census for 654 DUNCAN AVE, Los Angeles County

description: The Works Progress Administration Los Angeles Household Census Cards collection dates from 1939. The physical cards which number nearly half a million items are owned by the USC Libraries. More than a quarter of the collection has been digitized.The household survey cards (or "dwelling schedules"), one for each street address in greater Los Angeles, document a wide variety of information ranging from the type of dwelling, the value of the property, the monthly rent or mortgage, to whether or not there were flush toilets. While these cards form the bulk of the collection, other digitized documents include "block face cards" and "block lists" -- documenting the census process.
DOI: 10.25549/wpacards-ouc11554161
title: WPA household census for 648 DUNCAN AVE, Los Angeles County

description: The Works Progress Administration Los Angeles Household Census Cards collection dates from 1939. The physical cards which number nearly half a million items are owned by the USC Libraries. More than a quarter of the collection has been digitized.The household survey cards (or "dwelling schedules"), one for each street address in greater Los Angeles, document a wide variety of information ranging from the type of dwelling, the value of the property, the monthly rent or mortgage, to whether or not there were flush toilets. While these cards form the bulk of the collection, other digitized documents include "block face cards" and "block lists" -- documenting the census process.
DOI: 10.25549/wpacards-c8-155929
title: WPA household census for 650 DUNCAN AVE, Los Angeles County

description: The Works Progress Administration Los Angeles Household Census Cards collection dates from 1939. The physical cards which number nearly half a million items are owned by the USC Libraries. More than a quarter of the collection has been digitized.The household survey cards (or "dwelling schedules"), one for each street address in greater Los Angeles, document a wide variety of information ranging from the type of dwelling, the value of the property, the monthly rent or mortgage, to whether or not there were flush toilets. While these cards form the bulk of the collection, other digitized documents include "block face cards" and "block lists" -- documenting the census process.
DOI: 10.15468/dl.fchm6d
title: Occurrence Download

description: A dataset containing 1069 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Gustavia romeroi",
 "Country is Colombia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1069 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006525-260221153910048/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/wpacards-c8-155932
title: WPA household census for 640 DUNCAN AVE, Los Angeles County

description: The Works Progress Administration Los Angeles Household Census Cards collection dates from 1939. The physical cards which number nearly half a million items are owned by the USC Libraries. More than a quarter of the collection has been digitized.The household survey cards (or "dwelling schedules"), one for each street address in greater Los Angeles, document a wide variety of information ranging from the type of dwelling, the value of the property, the monthly rent or mortgage, to whether or not there were flush toilets. While these cards form the bulk of the collection, other digitized documents include "block face cards" and "block lists" -- documenting the census process.
DOI: 10.25549/wpacards-ouc11549008
title: WPA household census for 6613 AJAX AVE, Los Angeles County

description: The Works Progress Administration Los Angeles Household Census Cards collection dates from 1939. The physical cards which number nearly half a million items are owned by the USC Libraries. More than a quarter of the collection has been digitized.The household survey cards (or "dwelling schedules"), one for each street address in greater Los Angeles, document a wide variety of information ranging from the type of dwelling, the value of the property, the monthly rent or mortgage, to whether or not there were flush toilets. While these cards form the bulk of the collection, other digitized documents include "block face cards" and "block lists" -- documenting the census process.