cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25378/janelia.24246553.v1
title: Manual organelle segmentations (crop86) in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of interphase HeLa cell (jrc_hela-3)

description: <b>This acquisition is part of the CellMap 2024 Segmentation Challenge</b><br><br>- <b>Challenge DOI:</b> https://doi.org/10.25378/janelia.c.7456966<br><br>- <b>Challenge Website:</b> https://cellmapchallenge.janelia.org/<br><br><b>Annotation description</b>: Dense segmentations of nucleus in jrc_hela-3 using Amira 3D 2021.1, Classic Segmentation Workroom and the 'Using Amira to manually segment organelles in vEM for machine learning V.3' annotation protocol.<br><br><b>Annotation ID</b>: crop86<br><br><b>Primary Annotator</b>: Aubrey Weigel<br><br><b>Annotation protocol</b>: Using Amira to manually segment organelles in vEM for machine learning V.3 (http://dx.doi.org/10.17504/protocols.io.bp2l61rb5vqe/v3)<br><br><b>Software</b>: Amira 3D 2021.1, Classic Segmentation Workroom<br><br><b>Annotated voxel size (nm)</b>: 2 x 2 x 2 (x, y, z)<br><br><b>Annotated data dimensions (µm)</b>: 0.8 x 0.8 x 0.8 (x, y, z)<br><br><b>Annotated data offset (nm)</b>: 26479 x 1079 x 21719 (x, y, z)<br><br><b>Classes annotated</b>: nucleus<br><br><b>Dataset URL</b>: s3://janelia-cosem-datasets/jrc_hela-3/jrc_hela-3.zarr/recon-1/labels/groundtruth/crop86<br><br><b>Source (EM) dataset ID</b>: jrc_hela-3<br><br><b>Source (EM) voxel size (nm)</b>: 4 x 4 x 3.24 (x, y, z)<br><br><b>Source (EM) data dimensions (µm)</b>: 49.6 x 4 x 38.88 (x, y, z)<br><br><b>Source (EM) DOI</b>: https://doi.org/10.25378/janelia.13114244<br><br><b>Visualization website</b>: https://openorganelle.janelia.org/datasets/jrc_hela-3<br><br><b>Publication:</b> <i>CellMap Segmentation Challenge,</i> 2024.<br><br><b>The CellMap Project Team during this time consisted of:</b> David Ackerman, Davis Bennett, Marley Bryant, Hannah Nguyen, Grace Park, Alyson Petruncio, Alannah Post, Jacquelyn Price, Diana Ramirez, Jeff Rhoades, Rebecca Vorimo, Aubrey Weigel, Marwan Zouinkhi, Yurii Zubov.<br><br><b>The CellMap Project Team Steering Committee during this time consisted of:</b> Misha Ahrens, Christopher Beck, Teng-Leong Chew, Daniel Feliciano, Jan Funke, Harald Hess, Wyatt Korff, Jennifer Lippincott-Schwartz, Zhe J. Liu, Kayvon Pedram, Stephan Preibisch, Stephan Saalfeld, Ronald Vale, and Aubrey Weigel.
DOI: 10.3535/djl-1lc-g7k
title: Amidostomum acutum (Lundahl, 1848)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/xnc-t21-1yw
title: Potamothrix moldaviensis Vejdovský & Mrázek, 1903

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/y57-b35-chs
title: Plectus cirratus Bastian, 1865

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/a6a-m4s-b8a
title: Plectus cirratus Bastian, 1865

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ye2-n8n-hmn
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/f3p-c1y-hfl
title: Porrocaecum (Porrocaecum) semiteres (Zeder, 1800) Baylis, 1920

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/w5s-fx4-dmr
title: Phagocata teshirogi Ichikawa & Kawakatsu, 1962

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/4rg-9x9-qxj
title: Dugesia japonica Ichikawa & Kawakatsu, 1964

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/fb1-ypc-34p
title: Glossiphonia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/55x-z6k-mmk
title: Planariidae Stimpson, 1857

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/7dr-1hg-w0x
title: Eteone longa (Fabricius, 1780)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/5gr-d10-dfj
title: Girardia schubarti (Marcus, 1946)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3854197_d4.v1
title: Additional file 4: of Vector-borne and zoonotic diseases of dogs in North-west New South Wales and the Northern Territory, Australia

description: Dataset upon which publication conclusions rely. (XLSX 24Â kb)
DOI: 10.3535/341-qx4-a77
title: Plectus cirratus Bastian, 1865

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/fsh-9t3-5d0
title: Magelona papillicornis F. Müller, 1858

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3854209_d1.v1
title: Additional file 1: Table S1. of Sex differences in microRNA-mRNA networks: examination of novel epigenetic programming mechanisms in the sexually dimorphic neonatal hypothalamus

description: Ago HITS-CLIP identified connections between sex-biased miRNA and their target genes (robust Ago footprints). (CSV 542Â kb)
DOI: 10.3535/jjb-y15-3yk
title: Phagocata kawakatsui Okugawa, 1956

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/yys-eyg-nbt
title: Lepidonotus squamatus (Linnaeus, 1758)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/kq4-7tv-bmf
title: Phagocata kawakatsui Okugawa, 1956

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/rba-lz0-thx
title: Proteocephalus ambiguus (Dujardin, 1845) Weinland, 1858

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3854197_d4
title: Additional file 4: of Vector-borne and zoonotic diseases of dogs in North-west New South Wales and the Northern Territory, Australia

description: Dataset upon which publication conclusions rely. (XLSX 24Â kb)
DOI: 10.3535/4d7-sdg-gja
title: Novomitchellia sarawakana (Kawakatsu & Chapman, 1983)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/g0z-wg7-44h
title: Ectoplana undata Sluys, 1986

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/3xj-837-vxe
title: Proteocephalus ambiguus (Dujardin, 1845) Weinland, 1858

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/hvd-st7-r90
title: Girardia tigrina (Girard, 1850)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/68l-ykw-2yh
title: Microplana Vejdovsky, 1890

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/awy-fv8-n9c
title: Dugesia japonica Ichikawa & Kawakatsu, 1964

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/0e7-g1h-wgn
title: Glycera capitata Örsted, 1842

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/nvy-ldq-dvg
title: Dugesia ryukyuensis Kawakatsu, 1976

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/7sq-5ac-bg4
title: Glycera capitata Örsted, 1842

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/0ca-s3k-h1q
title: Solidosagitta planctonis (Steinhaus, 1896)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/29v-phm-8h2
title: Hydroides recta Straughan, 1967

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/48w-knj-kp0
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/gns-j7c-1wm
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25378/janelia.24246556
title: Manual organelle segmentations (crop87) in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of interphase HeLa cell (jrc_hela-3)

description: <b>This acquisition is part of the CellMap 2024 Segmentation Challenge</b><br><br>- <b>Challenge DOI:</b> https://doi.org/10.25378/janelia.c.7456966<br><br>- <b>Challenge Website:</b> https://cellmapchallenge.janelia.org/<br><br><b>Annotation description</b>: Dense segmentations of nucleus in jrc_hela-3 using Amira 3D 2021.1, Classic Segmentation Workroom and the 'Using Amira to manually segment organelles in vEM for machine learning V.3' annotation protocol.<br><br><b>Annotation ID</b>: crop87<br><br><b>Primary Annotator</b>: Aubrey Weigel<br><br><b>Annotation protocol</b>: Using Amira to manually segment organelles in vEM for machine learning V.3 (http://dx.doi.org/10.17504/protocols.io.bp2l61rb5vqe/v3)<br><br><b>Software</b>: Amira 3D 2021.1, Classic Segmentation Workroom<br><br><b>Annotated voxel size (nm)</b>: 2 x 2 x 2 (x, y, z)<br><br><b>Annotated data dimensions (µm)</b>: 0.8 x 0.8 x 0.8 (x, y, z)<br><br><b>Annotated data offset (nm)</b>: 20119 x 1279 x 17479 (x, y, z)<br><br><b>Classes annotated</b>: nucleus<br><br><b>Dataset URL</b>: s3://janelia-cosem-datasets/jrc_hela-3/jrc_hela-3.zarr/recon-1/labels/groundtruth/crop87<br><br><b>Source (EM) dataset ID</b>: jrc_hela-3<br><br><b>Source (EM) voxel size (nm)</b>: 4 x 4 x 3.24 (x, y, z)<br><br><b>Source (EM) data dimensions (µm)</b>: 49.6 x 4 x 38.88 (x, y, z)<br><br><b>Source (EM) DOI</b>: https://doi.org/10.25378/janelia.13114244<br><br><b>Visualization website</b>: https://openorganelle.janelia.org/datasets/jrc_hela-3<br><br><b>Publication:</b> <i>CellMap Segmentation Challenge,</i> 2024.<br><br><b>The CellMap Project Team during this time consisted of:</b> David Ackerman, Davis Bennett, Marley Bryant, Hannah Nguyen, Grace Park, Alyson Petruncio, Alannah Post, Jacquelyn Price, Diana Ramirez, Jeff Rhoades, Rebecca Vorimo, Aubrey Weigel, Marwan Zouinkhi, Yurii Zubov.<br><br><b>The CellMap Project Team Steering Committee during this time consisted of:</b> Misha Ahrens, Christopher Beck, Teng-Leong Chew, Daniel Feliciano, Jan Funke, Harald Hess, Wyatt Korff, Jennifer Lippincott-Schwartz, Zhe J. Liu, Kayvon Pedram, Stephan Preibisch, Stephan Saalfeld, Ronald Vale, and Aubrey Weigel.
DOI: 10.25378/janelia.24246556.v1
title: Manual organelle segmentations (crop87) in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of interphase HeLa cell (jrc_hela-3)

description: <b>This acquisition is part of the CellMap 2024 Segmentation Challenge</b><br><br>- <b>Challenge DOI:</b> https://doi.org/10.25378/janelia.c.7456966<br><br>- <b>Challenge Website:</b> https://cellmapchallenge.janelia.org/<br><br><b>Annotation description</b>: Dense segmentations of nucleus in jrc_hela-3 using Amira 3D 2021.1, Classic Segmentation Workroom and the 'Using Amira to manually segment organelles in vEM for machine learning V.3' annotation protocol.<br><br><b>Annotation ID</b>: crop87<br><br><b>Primary Annotator</b>: Aubrey Weigel<br><br><b>Annotation protocol</b>: Using Amira to manually segment organelles in vEM for machine learning V.3 (http://dx.doi.org/10.17504/protocols.io.bp2l61rb5vqe/v3)<br><br><b>Software</b>: Amira 3D 2021.1, Classic Segmentation Workroom<br><br><b>Annotated voxel size (nm)</b>: 2 x 2 x 2 (x, y, z)<br><br><b>Annotated data dimensions (µm)</b>: 0.8 x 0.8 x 0.8 (x, y, z)<br><br><b>Annotated data offset (nm)</b>: 20119 x 1279 x 17479 (x, y, z)<br><br><b>Classes annotated</b>: nucleus<br><br><b>Dataset URL</b>: s3://janelia-cosem-datasets/jrc_hela-3/jrc_hela-3.zarr/recon-1/labels/groundtruth/crop87<br><br><b>Source (EM) dataset ID</b>: jrc_hela-3<br><br><b>Source (EM) voxel size (nm)</b>: 4 x 4 x 3.24 (x, y, z)<br><br><b>Source (EM) data dimensions (µm)</b>: 49.6 x 4 x 38.88 (x, y, z)<br><br><b>Source (EM) DOI</b>: https://doi.org/10.25378/janelia.13114244<br><br><b>Visualization website</b>: https://openorganelle.janelia.org/datasets/jrc_hela-3<br><br><b>Publication:</b> <i>CellMap Segmentation Challenge,</i> 2024.<br><br><b>The CellMap Project Team during this time consisted of:</b> David Ackerman, Davis Bennett, Marley Bryant, Hannah Nguyen, Grace Park, Alyson Petruncio, Alannah Post, Jacquelyn Price, Diana Ramirez, Jeff Rhoades, Rebecca Vorimo, Aubrey Weigel, Marwan Zouinkhi, Yurii Zubov.<br><br><b>The CellMap Project Team Steering Committee during this time consisted of:</b> Misha Ahrens, Christopher Beck, Teng-Leong Chew, Daniel Feliciano, Jan Funke, Harald Hess, Wyatt Korff, Jennifer Lippincott-Schwartz, Zhe J. Liu, Kayvon Pedram, Stephan Preibisch, Stephan Saalfeld, Ronald Vale, and Aubrey Weigel.
DOI: 10.3535/em4-44c-lhl
title: Dugesia ryukyuensis Kawakatsu, 1976

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/rd3-8lp-see
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/5w8-60m-3kc
title: Heteromastus filiformis (Claparède, 1864)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/2qd-2ed-hcg
title: Dirofilaria Railliet & Henry, 1911

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/l2x-b60-5hg
title: Serratosagitta serratodentata (Krohn, 1853)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3856921_d1
title: MOESM1 of Do the venous blood samples replicate malaria parasite densities found in capillary blood? A field study performed in naturally-infected asymptomatic children in Cameroon

description: Additional file 1. Sample information and associated Plasmodium prevalence.
DOI: 10.3535/r8h-6pg-al0
title: Grammocephalus

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/xf4-c4a-nxq
title: Dirofilaria Railliet & Henry, 1911

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3856936_d1.v1
title: Additional file 1: of 
                     In silico prediction and characterization of secondary metabolite biosynthetic gene clusters in the wheat pathogen Zymoseptoria tritici

description: MultiGeneBLAST analysis of putative secondary metabolite clusters. All encoded amino acid sequences from genes residing in clusters predicted by AntiSMASH are given as FASTA file format. All output data from MultiGeneBLASTs are also provided. (ZIP 42911 kb)
DOI: 10.15468/dl.y3wz4t
title: Occurrence Download

description: A dataset containing 3952 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "TaxonKey is one of (Eurycea quadridigitata (Holbrook, 1842))"
 ]
}

 The dataset includes 3952 records from 38 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040022-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/1cy-2yh-3z5
title: Chaetogaster diaphanus (Gruithuisen, 1828)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/hpv-29y-qrt
title: Dugesia ryukyuensis Kawakatsu, 1976

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/67w-7bl-bvj
title: Dirofilaria ursi Yamaguti, 1941

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/0sa-tkh-689
title: Bdellocephala brunnea Ijima & Kaburaki, 1916

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/vba-8nb-1nn
title: Sagitta Quoy & Gaimard, 1827

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/2h3-nac-e50
title: Cerebratulus insignis Punnett, 1900

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/l3f-ck2-g55
title: Serratosagitta serratodentata (Krohn, 1853)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3856936_d1
title: Additional file 1: of 
                     In silico prediction and characterization of secondary metabolite biosynthetic gene clusters in the wheat pathogen Zymoseptoria tritici

description: MultiGeneBLAST analysis of putative secondary metabolite clusters. All encoded amino acid sequences from genes residing in clusters predicted by AntiSMASH are given as FASTA file format. All output data from MultiGeneBLASTs are also provided. (ZIP 42911 kb)
DOI: 10.3535/5kn-dne-3wn
title: Paramphistomum Fischoeder, 1901

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/xmz-2xs-m9d
title: Proteocephalus ambiguus (Dujardin, 1845) Weinland, 1858

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/zpz-mb4-fws
title: Cerebratulus [Renier], [1804]

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/92r-zhk-shl
title: Dugesia batuensis Ball, 1970

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/pqx-sy1-49t
title: Anchistrocephalus microcephalus (Rudolphi, 1819)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/gz4-wt7-d69
title: Dugesia batuensis Ball, 1970

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/yfd-8jx-n7k
title: Dugesia japonica Ichikawa & Kawakatsu, 1964

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.25378/janelia.24246628
title: Manual organelle segmentations (crop100) in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of interphase HeLa cell (jrc_hela-3)

description: <b>This acquisition is part of the CellMap 2024 Segmentation Challenge</b><br><br>- <b>Challenge DOI:</b> https://doi.org/10.25378/janelia.c.7456966<br><br>- <b>Challenge Website:</b> https://cellmapchallenge.janelia.org/<br><br><b>Annotation description</b>: Dense segmentations of microtubule in, microtubule, centrosome collective, microtubule out, centrosome distal appendage, centrosome subdistal appendage in jrc_hela-3 using Amira 3D 2021.1, Classic Segmentation Workroom and the 'Using Amira to manually segment organelles in vEM for machine learning V.3' annotation protocol.<br><br><b>Annotation ID</b>: crop100<br><br><b>Primary Annotator</b>: Woohyun Park<br><br><b>Annotation protocol</b>: Using Amira to manually segment organelles in vEM for machine learning V.3 (http://dx.doi.org/10.17504/protocols.io.bp2l61rb5vqe/v3)<br><br><b>Software</b>: Amira 3D 2021.1, Classic Segmentation Workroom<br><br><b>Annotated voxel size (nm)</b>: 2 x 2 x 2 (x, y, z)<br><br><b>Annotated data dimensions (µm)</b>: 1.24 x 0.88 x 1.96 (x, y, z)<br><br><b>Annotated data offset (nm)</b>: 27839 x 355 x 11763 (x, y, z)<br><br><b>Classes annotated</b>: microtubule in, microtubule, centrosome collective, microtubule out, centrosome distal appendage, centrosome subdistal appendage<br><br><b>Dataset URL</b>: s3://janelia-cosem-datasets/jrc_hela-3/jrc_hela-3.zarr/recon-1/labels/groundtruth/crop100<br><br><b>Source (EM) dataset ID</b>: jrc_hela-3<br><br><b>Source (EM) voxel size (nm)</b>: 4 x 4 x 3.24 (x, y, z)<br><br><b>Source (EM) data dimensions (µm)</b>: 49.6 x 4 x 38.88 (x, y, z)<br><br><b>Source (EM) DOI</b>: https://doi.org/10.25378/janelia.13114244<br><br><b>Visualization website</b>: https://openorganelle.janelia.org/datasets/jrc_hela-3<br><br><b>Publication:</b> <i>CellMap Segmentation Challenge,</i> 2024.<br><br><b>The CellMap Project Team during this time consisted of:</b> David Ackerman, Davis Bennett, Marley Bryant, Hannah Nguyen, Grace Park, Alyson Petruncio, Alannah Post, Jacquelyn Price, Diana Ramirez, Jeff Rhoades, Rebecca Vorimo, Aubrey Weigel, Marwan Zouinkhi, Yurii Zubov.<br><br><b>The CellMap Project Team Steering Committee during this time consisted of:</b> Misha Ahrens, Christopher Beck, Teng-Leong Chew, Daniel Feliciano, Jan Funke, Harald Hess, Wyatt Korff, Jennifer Lippincott-Schwartz, Zhe J. Liu, Kayvon Pedram, Stephan Preibisch, Stephan Saalfeld, Ronald Vale, and Aubrey Weigel.
DOI: 10.25378/janelia.24246628.v1
title: Manual organelle segmentations (crop100) in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of interphase HeLa cell (jrc_hela-3)

description: <b>This acquisition is part of the CellMap 2024 Segmentation Challenge</b><br><br>- <b>Challenge DOI:</b> https://doi.org/10.25378/janelia.c.7456966<br><br>- <b>Challenge Website:</b> https://cellmapchallenge.janelia.org/<br><br><b>Annotation description</b>: Dense segmentations of microtubule in, microtubule, centrosome collective, microtubule out, centrosome distal appendage, centrosome subdistal appendage in jrc_hela-3 using Amira 3D 2021.1, Classic Segmentation Workroom and the 'Using Amira to manually segment organelles in vEM for machine learning V.3' annotation protocol.<br><br><b>Annotation ID</b>: crop100<br><br><b>Primary Annotator</b>: Woohyun Park<br><br><b>Annotation protocol</b>: Using Amira to manually segment organelles in vEM for machine learning V.3 (http://dx.doi.org/10.17504/protocols.io.bp2l61rb5vqe/v3)<br><br><b>Software</b>: Amira 3D 2021.1, Classic Segmentation Workroom<br><br><b>Annotated voxel size (nm)</b>: 2 x 2 x 2 (x, y, z)<br><br><b>Annotated data dimensions (µm)</b>: 1.24 x 0.88 x 1.96 (x, y, z)<br><br><b>Annotated data offset (nm)</b>: 27839 x 355 x 11763 (x, y, z)<br><br><b>Classes annotated</b>: microtubule in, microtubule, centrosome collective, microtubule out, centrosome distal appendage, centrosome subdistal appendage<br><br><b>Dataset URL</b>: s3://janelia-cosem-datasets/jrc_hela-3/jrc_hela-3.zarr/recon-1/labels/groundtruth/crop100<br><br><b>Source (EM) dataset ID</b>: jrc_hela-3<br><br><b>Source (EM) voxel size (nm)</b>: 4 x 4 x 3.24 (x, y, z)<br><br><b>Source (EM) data dimensions (µm)</b>: 49.6 x 4 x 38.88 (x, y, z)<br><br><b>Source (EM) DOI</b>: https://doi.org/10.25378/janelia.13114244<br><br><b>Visualization website</b>: https://openorganelle.janelia.org/datasets/jrc_hela-3<br><br><b>Publication:</b> <i>CellMap Segmentation Challenge,</i> 2024.<br><br><b>The CellMap Project Team during this time consisted of:</b> David Ackerman, Davis Bennett, Marley Bryant, Hannah Nguyen, Grace Park, Alyson Petruncio, Alannah Post, Jacquelyn Price, Diana Ramirez, Jeff Rhoades, Rebecca Vorimo, Aubrey Weigel, Marwan Zouinkhi, Yurii Zubov.<br><br><b>The CellMap Project Team Steering Committee during this time consisted of:</b> Misha Ahrens, Christopher Beck, Teng-Leong Chew, Daniel Feliciano, Jan Funke, Harald Hess, Wyatt Korff, Jennifer Lippincott-Schwartz, Zhe J. Liu, Kayvon Pedram, Stephan Preibisch, Stephan Saalfeld, Ronald Vale, and Aubrey Weigel.
DOI: 10.3535/4sh-8pk-0v4
title: Annelida

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/zfk-k62-bbb
title: Bothridium pithonis de Blainville in Bremser, 1824

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3856921_d2
title: MOESM2 of Do the venous blood samples replicate malaria parasite densities found in capillary blood? A field study performed in naturally-infected asymptomatic children in Cameroon

description: Additional file 2. Sample information, associated parasite densities and corresponding class.