cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/thsm8r258w
title: Elevational patterns and thresholds of plant functional traits across China’s biomes

description: This dataset contains species-level functional trait data for 20,774 vascular plant species across China, including leaf area, plant height, seed size, and cone size. It also includes species occurrence coordinates, elevation, and associated environmental variables (climate, soil properties, NDVI, PM₂.₅, and Aridity Index). The data were compiled from multiple public databases, published records, and herbarium sources.
DOI: 10.15156/bio/sh0167049.10fu
title: SH0167049.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.17632/thsm8r258w.1
title: Elevational patterns and thresholds of plant functional traits across China’s biomes

description: This dataset contains species-level functional trait data for 20,774 vascular plant species across China, including leaf area, plant height, seed size, and cone size. It also includes species occurrence coordinates, elevation, and associated environmental variables (climate, soil properties, NDVI, PM₂.₅, and Aridity Index). The data were compiled from multiple public databases, published records, and herbarium sources.
DOI: 10.15156/bio/sh0167050.10fu
title: SH0167050.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh0167051.10fu
title: SH0167051.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.17632/6s94kxnhfw
title: Immunoblotting analysis of pathway activation in OSM-stimulated Edge cell cultures

description: OSM stimulation of Edge cell cultures
GCCs derived from glioblastoma edge samples were seeded at a density of 5 × 10⁵ cells per well in 6-cm culture dishes pre-coated with laminin. After a 24-hour incubation period, half of the wells were treated with 50 ng/mL (diluted in PBS) of human Oncostatin M (Peprotech, #300-10-50UG) and control cells were given PBS only (vehicle control (VC)). The treatment was refreshed every 48 hours for a total of 7 days. At the end of the treatment period, cells were harvested for subsequent analyses, including RNA and protein extraction, Extreme Limiting Dilution Assay (ELDA), invasion assays and cell viability assessment.

Western blot analysis
Edge cells from three independent OSM-stimulations have been analyzed. Cells were lysed using RIPA buffer (Thermo Scientific, 89900) supplemented with protease (Roche, CO-RO) and phosphatase inhibitors (Roche, PHOSS-RO). Protein concentrations were measured with the Pierce™ BCA Protein Assay Kit (Thermo Scientific, 23225). Equal amounts of protein samples were resolved on 4–12% Bis-Tris polyacrylamide gradient gels (NuPAGE, Thermo Scientific) and transferred onto nitrocellulose membranes (Novex, Thermo Scientific). Membranes were blocked with EveryBlot Blocking Buffer (BioRad, 12010020) and incubated overnight at 4°C with the following primary antibodies: rabbit anti-pSTAT3 (#9145, CST, 1:1000 dilution), mouse anti-STAT3 (#9139, CST, 1:1000 dilution), rabbit anti-pERK1/2 (#9101, CST, 1:1000 dilution), rabbit anti-ERK1/2 (#9102, CST, 1:1000 dilution), rabbit anti-pAKT(#4060, CST, 1:2000 dilution), rabbit anti-AKT(#4691, CST, 1:1000 dilution) and rabbit anti-GAPDH (#5174, CST, 1:1000 dilution). Following primary antibody incubation, membranes were incubated with HRP-conjugated secondary antibodies (anti-mouse, GE Healthcare, #NXA931, 1:5000 dilution; anti-rabbit, GE Healthcare, #NA9340, 1:5000 dilution) and developed using SuperSignal™ West Femto Maximum Sensitivity Substrate (Thermo Scientific, 34095). Signals were visualized with the Amersham™ Imager 680 system (GE Healthcare). For membrane reprobing, Restore™ Western Blot Stripping Buffer (Thermo Scientific, 21059) was used according to the manufacturer’s protocol. 

Raw, unedited immunoblotting images with annotated molecular weight markers were assembled in Adobe Illustrator. For each blot, an arrow denotes the band corresponding to the expected molecular weight of the target protein, as reported by the antibody manufacturer. The arrow-denoted band was selected for quantification using ImageJ2 software (Version 2.14.0). For the first membrane, pSTAT3, STAT3 and GAPDH were probed sequentially and stripped in this exact order. For the parallel membrane, pERK, ERK and GAPDH were probed and stripped in this exact order. For the final parallel membrane, pAKT, AKT and GAPDH were probed and stripped in this exact order.
DOI: 10.15156/bio/sh0167052.10fu
title: SH0167052.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh0167053.10fu
title: SH0167053.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.17632/6s94kxnhfw.2
title: Immunoblotting analysis of pathway activation in OSM-stimulated Edge cell cultures

description: OSM stimulation of Edge cell cultures
GCCs derived from glioblastoma edge samples were seeded at a density of 5 × 10⁵ cells per well in 6-cm culture dishes pre-coated with laminin. After a 24-hour incubation period, half of the wells were treated with 50 ng/mL (diluted in PBS) of human Oncostatin M (Peprotech, #300-10-50UG) and control cells were given PBS only (vehicle control (VC)). The treatment was refreshed every 48 hours for a total of 7 days. At the end of the treatment period, cells were harvested for subsequent analyses, including RNA and protein extraction, Extreme Limiting Dilution Assay (ELDA), invasion assays and cell viability assessment.

Western blot analysis
Edge cells from three independent OSM-stimulations have been analyzed. Cells were lysed using RIPA buffer (Thermo Scientific, 89900) supplemented with protease (Roche, CO-RO) and phosphatase inhibitors (Roche, PHOSS-RO). Protein concentrations were measured with the Pierce™ BCA Protein Assay Kit (Thermo Scientific, 23225). Equal amounts of protein samples were resolved on 4–12% Bis-Tris polyacrylamide gradient gels (NuPAGE, Thermo Scientific) and transferred onto nitrocellulose membranes (Novex, Thermo Scientific). Membranes were blocked with EveryBlot Blocking Buffer (BioRad, 12010020) and incubated overnight at 4°C with the following primary antibodies: rabbit anti-pSTAT3 (#9145, CST, 1:1000 dilution), mouse anti-STAT3 (#9139, CST, 1:1000 dilution), rabbit anti-pERK1/2 (#9101, CST, 1:1000 dilution), rabbit anti-ERK1/2 (#9102, CST, 1:1000 dilution), rabbit anti-pAKT(#4060, CST, 1:2000 dilution), rabbit anti-AKT(#4691, CST, 1:1000 dilution) and rabbit anti-GAPDH (#5174, CST, 1:1000 dilution). Following primary antibody incubation, membranes were incubated with HRP-conjugated secondary antibodies (anti-mouse, GE Healthcare, #NXA931, 1:5000 dilution; anti-rabbit, GE Healthcare, #NA9340, 1:5000 dilution) and developed using SuperSignal™ West Femto Maximum Sensitivity Substrate (Thermo Scientific, 34095). Signals were visualized with the Amersham™ Imager 680 system (GE Healthcare). For membrane reprobing, Restore™ Western Blot Stripping Buffer (Thermo Scientific, 21059) was used according to the manufacturer’s protocol. 

Raw, unedited immunoblotting images with annotated molecular weight markers were assembled in Adobe Illustrator. For each blot, an arrow denotes the band corresponding to the expected molecular weight of the target protein, as reported by the antibody manufacturer. The arrow-denoted band was selected for quantification using ImageJ2 software (Version 2.14.0). For the first membrane, pSTAT3, STAT3 and GAPDH were probed sequentially and stripped in this exact order. For the parallel membrane, pERK, ERK and GAPDH were probed and stripped in this exact order. For the final parallel membrane, pAKT, AKT and GAPDH were probed and stripped in this exact order.
DOI: 10.15156/bio/sh0167054.10fu
title: SH0167054.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15468/dl.zyzz87
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Pleione confusa"
 ]
}

 The dataset includes 7 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001270-260108223611665/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17099732
title: Infrared spectra of murine PDX tissues from paper entitled "DREAMER-S: Deep leaRning-Enabled Attention-based Multiple-instance approaches with Explainable Representations for Spectral-histopathology".

description: Dataset for DREAMER-S: Deep LeaRning-Enabled Attention-based Multiple-instance approaches with Explainable Representations for Spectral-histopathology

This repository contains chemical imaging data referenced in the following GitHub repository (https://github.com/AidanDMeade/DREAMER-S). Download the `.mat` files and place them in the `data/` folder to train a model.

Data Acquisition

Spectroscopic measurements were performed using a Daylight Spero-QT 340 Quantum Cascade Laser (QCL) infrared microscope operating in transmission mode. Hyperspectral chemical images (HCIs) were acquired at low magnification (0.3 NA) across the wavenumber range of 952–1800 cm⁻¹. Each HCI covered a spatial area of 480 × 480 pixels with a spectral depth of 213 wavenumbers.

Spectral Pre-processing

Rubber-band baseline correction was applied to each spectrum using the Pybaselines library (version 1.2). A threshold value of 0.1 was then applied to the absorbance intensity of the Amide I peak (approximately 1654 cm⁻¹) to distinguish tissue from background. Any spectrum falling below this threshold was classified as non-tissue and replaced with a zero vector. Finally, vector normalisation was performed on the remaining tissue spectra using the Scikit-Learn library (version 1.7.0).

The complete dataset comprises 40 hyperspectral images. Each image contains 213 wavenumbers and 230,400 individual spectra, amounting to more than 49 million data points per image.
DOI: 10.5281/zenodo.17099733
title: Infrared spectra of murine PDX tissues from paper entitled "DREAMER-S: Deep leaRning-Enabled Attention-based Multiple-instance approaches with Explainable Representations for Spectral-histopathology".

description: Dataset for DREAMER-S: Deep LeaRning-Enabled Attention-based Multiple-instance approaches with Explainable Representations for Spectral-histopathology

This repository contains chemical imaging data referenced in the following GitHub repository (https://github.com/AidanDMeade/DREAMER-S). Download the `.mat` files and place them in the `data/` folder to train a model.

Data Acquisition

Spectroscopic measurements were performed using a Daylight Spero-QT 340 Quantum Cascade Laser (QCL) infrared microscope operating in transmission mode. Hyperspectral chemical images (HCIs) were acquired at low magnification (0.3 NA) across the wavenumber range of 952–1800 cm⁻¹. Each HCI covered a spatial area of 480 × 480 pixels with a spectral depth of 213 wavenumbers.

Spectral Pre-processing

Rubber-band baseline correction was applied to each spectrum using the Pybaselines library (version 1.2). A threshold value of 0.1 was then applied to the absorbance intensity of the Amide I peak (approximately 1654 cm⁻¹) to distinguish tissue from background. Any spectrum falling below this threshold was classified as non-tissue and replaced with a zero vector. Finally, vector normalisation was performed on the remaining tissue spectra using the Scikit-Learn library (version 1.7.0).

The complete dataset comprises 40 hyperspectral images. Each image contains 213 wavenumbers and 230,400 individual spectra, amounting to more than 49 million data points per image.
DOI: 10.15468/dl.3nfk7x
title: Occurrence Download

description: A dataset containing 105 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Dinophysis norvegica",
 "Country is Mexico",
 "HasCoordinate is true"
 ]
}

 The dataset includes 105 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008388-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v9xqgc
title: Occurrence Download

description: A dataset containing 35 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nasa formosissima"
 ]
}

 The dataset includes 35 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008387-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/3c9-at7-nka
title: Andicolea thuyoides (Lam.) Mayta & Molinari

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/qgw-v6x-476
title: Palisota barteri Hook.f.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/31w-ps9-tt7
title: Juncus L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/nad-sfq-zkm
title: Gaultheria insana (Molina) D. J. Middleton

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/41w-26e-kpd
title: Eleocharis R.Br.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/jsw-5yc-vrr
title: Limosella australis R. Br.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/krz-8dq-3mv
title: Sapindaceae Juss.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/9bj-x4j-99n
title: Palisota barteri Hook.f.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/vq4-fbl-7ef
title: Carex pseudobrizoides Clavaud

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/az3-f4r-9m7
title: Eleocharis R.Br.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/ltt-heb-yyf
title: Juncus L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/06e-1s0-s1e
title: Palisota barteri Hook.f.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/0k0-f01-sng
title: Gaultheria pumila (L. fil.) D. J. Middleton

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/4vz-h9p-qsg
title: Raphia matombe De Wild.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/fkz-fjy-c9c
title: Dracaena cerasifera Hua

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/rkw-zpk-fz4
title: Muscari Mill.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/4yd-3cz-s7a
title: Poa annua L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/qa0-hmp-0ww
title: Sticherus revolutus (Kunth) Ching

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/qks-3nx-na6
title: Antrophyum reticulatum (G. Forst.) Kaulf.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/9v5-p32-adm
title: Carex caryophyllea Latourr.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/v2x-l25-g5f
title: Lysimachia lanceola (Baudo) Hassemer, Funez & R. Trevis.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/7ca-xdq-0bd
title: Guatteria modesta Diels

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/r3a-jbp-q5s
title: Alocasia indica (Lour.) Spach

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/cb5-re7-s51
title: Sticherus revolutus (Kunth) Ching

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/gqx-yfj-lmy
title: Phyllanthus williamioides Griseb.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/7qm-hql-7ha
title: Cyperus L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/7l0-sq8-wpp
title: Poa glauca Vahl

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/pyv-2nk-4pv
title: Chrysophyllum oliviforme subsp. oliviforme

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/psl-p95-n21
title: Palisota barteri Hook.f.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/z9t-92p-pss
title: Carex brizoides L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/g35-1bc-q0d
title: Dioscorea brachybotrya Poepp.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/c1q-c0g-v0l
title: Juncus L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.