🚨 Now available: Grants for advancing pediatric cancer research!

[Jen-OMalley]

Are you interested in receiving a grant for your contributions to the OpenScPCA project?

We're seeking pediatric cancer researchers at non-profit institutions with experience analyzing single-cell RNA-seq datasets to annotate and assign cell types to existing ScPCA datasets. If interested, read the full eligibility and acceptance criteria to determine if you meet the requirements for receiving a grant!

Grants

Grants are available for eligible researchers who annotate cell types for all samples in a given group as identified by the sample table below.

Group ID	Project ID	Diagnosis	Total samples	Grant	Project title	Status
SCPCAB0001	SCPCP000001	Glioblastoma	16	$2000	Single cell RNA sequencing of pediatric high-grade gliomas	#722
SCPCAB0002	SCPCP000001	Anaplastic astrocytoma, Anaplastic glioma, Diffuse midline glioma, High-grade glioma, Pleomorphic xanthoastrocytoma	6	$1000	Single cell RNA sequencing of pediatric high-grade gliomas
SCPCAB0003	SCPCP000002	Pilocytic astrocytoma	18	$2000	Single cell RNA sequencing of pediatric low-grade gliomas
SCPCAB0004	SCPCP000002	Ependymoma, Ganglioglioma, Ganglioglioma/ATRT, Low-grade glioma	8	$1000	Single cell RNA sequencing of pediatric low-grade gliomas
SCPCAB0005	SCPCP000003	Early T-cell precursor T-cell acute lymphoblastic leukemia	30	$4000	Single Cell Profiling of Early T cell Precursor Acute Lymphoblastic Leukemia	#629
SCPCAB0006	SCPCP000003	Non-early T-cell precursor T-cell acute lymphoblastic leukemia	11	$1000	Single Cell Profiling of Early T cell Precursor Acute Lymphoblastic Leukemia	#630
SCPCAB0007	SCPCP000003	T-myeloid mixed phenotype acute leukemia	10	$1000	Single Cell Profiling of Early T cell Precursor Acute Lymphoblastic Leukemia
SCPCAB0008	SCPCP000003	Acute myeloid leukemia	8	$1000	Single Cell Profiling of Early T cell Precursor Acute Lymphoblastic Leukemia
SCPCAB0009	SCPCP000004	Neuroblastoma	40	$4000	Profiling the transcriptional heterogeneity of diverse pediatric solid tumors - Neuroblastoma	#589
SCPCAB0010	SCPCP000006	Wilms tumor	40	$4000	Single nuclear RNA-seq and spatial transcriptomic analysis of anaplastic and favorable histology Wilms tumor	#603; #635
SCPCAB0011	SCPCP000007	Acute myeloid leukemia, T-myeloid mixed phenotype acute leukemia	28	$2000	Single-cell profiling of Acute Myeloid Leukemia for high-resolution chemo-immunotherapy target discovery
SCPCAB0012	SCPCP000008	B-cell acute lymphoblastic leukemia	93	$4000	Single-cell sequencing of acute lymphoblastic leukemia
SCPCAB0013	SCPCP000008	Early T-cell precursor T-cell acute lymphoblastic leukemia, T-cell acute lymphoblastic leukemia	6	$1000	Single-cell sequencing of acute lymphoblastic leukemia
SCPCAB0014	SCPCP000008	Mixed phenotype acute leukemia	5	$1000	Single-cell sequencing of acute lymphoblastic leukemia
SCPCAB0015	SCPCP000010	Low-grade glioma	22	$2000	Delineating pediatric brain tumor progression using single-nuclei sequencing
SCPCAB0016	SCPCP000010	Atypical teratoid rhabdoid tumor, Focal cortical dysplasia, Ganglioglioma, Glial-neuronal tumor, High-grade glioma	20	$2000	Delineating pediatric brain tumor progression using single-nuclei sequencing
SCPCAB0017	SCPCP000011	Retinoblastoma	26	$2000	Profiling the transcriptional heterogeneity of diverse pediatric solid tumors – Retinoblastoma	#588
SCPCAB0018	SCPCP000012	Adrenocortical carcinoma, Germ cell tumor, Hepatoblastoma, Melanoma	12	$1000	Profiling the transcriptional heterogeneity of diverse pediatric solid tumors – Other solid tumors
SCPCAB0019	SCPCP000013	Clear cell sarcoma, Clear cell sarcoma of the kidney, Embryonal sarcoma, Epithelioid sarcoma, Gastrointestinal stromal tumor, Infantile fibrosarcoma, Spindle sarcoma, Synovial sarcoma, Undifferentiated round cell sarcoma	22	$2000	Profiling the transcriptional heterogeneity of diverse pediatric solid tumors – Non-rhabdomyosarcoma soft tissue sarcomas	#604
SCPCAB0020	SCPCP000013	Desmoplastic small round cell tumor	7	$1000	Profiling the transcriptional heterogeneity of diverse pediatric solid tumors – Non-rhabdomyosarcoma soft tissue sarcomas	#583
SCPCAB0021	SCPCP000013	High-grade sarcoma	5	$1000	Profiling the transcriptional heterogeneity of diverse pediatric solid tumors – Non-rhabdomyosarcoma soft tissue sarcomas
SCPCAB0022	SCPCP000014	Wilms tumor	10	$1000	Profiling the transcriptional heterogeneity of diverse pediatric solid tumors – Wilms tumor	#628
SCPCAB0023	SCPCP000016	Rhabdoid tumor	7	$1000	Profiling the transcriptional heterogeneity of diverse pediatric solid tumors – Rhabdoid tumor
SCPCAB0024	SCPCP000017	Osteosarcoma	28	$2000	A Single Cell Atlas of Pediatric Sarcoma	#601
SCPCAB0025	SCPCP000018	Osteosarcoma	11	$1000	TBD
SCPCAB0026	SCPCP000021	Diffuse midline glioma, Glioblastoma, High-grade glioma, Infant-type hemispheric glioma	15	$1000	Profiling pediatric and young adolescent (Ped-AYA) high-grade gliomas (HGGs)
SCPCAB0027	SCPCP000023	Osteosarcoma	54	$4000	Profiling the transcriptional heterogeneity of diverse pediatric solid tumors – Osteosarcoma	#587

About the table:

• It contains a unique group identifier, project identifier, project title, list of diagnoses and total number of samples for each group.
• Groups of samples encompass samples from a single ScPCA project representing either a single diagnosis or a group of related diagnoses.
• The table displays the maximum grant amount (USD) for annotating the group of samples.
• The last column shows the Status of each group of samples.
  • If this column is blank, then no analysis has been proposed or started for that group of samples.
  • If there is a link to a GitHub discussion post, it means that a contributor has proposed an analysis for that group of samples. Click to view the discussion.
  • If a group of samples has already been annotated and the grant is no longer available, this column will say Awarded.

To be eligible for a grant:

• You must complete cell type annotation for all samples assigned to a specified group identifier.
• You must complete the cell type annotation analysis openly and collaboratively by contributing your analysis to the OpenScPCA project.
• ALSF will only award grants with submissions meeting the eligibility requirements and acceptance criteria. All decisions regarding applications and grants, including satisfaction of requirements, are made solely by ALSF, in its sole discretion.

These are just some of the requirements. Read the full eligibility requirements and acceptance criteria.

Distribution and Permitted Use of Funds

• The funds will be distributed to the researcher’s institution and must be used for pediatric cancer research. If the institution is not conducting such research at the time the grant is to be distributed, the grant will be deemed declined.
• ALSF does not allow the use of funds for research utilizing human embryonic stem cells or nonhuman primates. Research with human induced pluripotent stem cells is permissible.
• The institution receiving the grant is responsible for compliance with any governmental reporting requirements and related tax obligations, if any.

Important Dates:

• Final Table Submission Deadline: November 1, 2024 (5PM EDT)
• Application Submission Deadline, if eligible: November 15, 2024 (5PM EST) or within ten days of notification of eligibility, whichever is sooner

Getting started

Are you interested in annotating a group of these samples? Let us know by filing a GitHub discussion to propose a new analysis. A team member will respond to your post to help you get started.

Your discussion post must include:

• The unique group identifier for which you would like to add cell type annotations
• The project title, project identifier, and list of diagnoses for that group
• An outline of the approach you plan to take to complete the cell type annotation, including an explanation of the methods you plan to use to perform cell type annotation

All code and results must undergo review by a Data Lab team member before they will be made available in the public OpenScPCA-analysis repository. You can expect multiple rounds of peer review before the final table submission. Please start participating as early as possible to avoid missing the submission deadlines. Learn more!

Feel free to leave any questions or comments here! You can also reach us by email at [email protected] or on the #open-scpca Slack channel.

[Jen-OMalley]

This is a reminder that the deadline for final table submissions is today, November 1. Thank you to everyone for their hard work and contributions to OpenScPCA, so far! Please reach out to a Data Lab team member with any questions.