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StanfordBioinformatics / pulsar_lims

A LIMS for ENCODE submitting labs.
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ENCODE data submission: WTC11 NGN2 Diff for cs-542 and cs-553 #949

Open twang15 opened 2 years ago

twang15 commented 2 years ago

FOS

https://pulsar-encode.herokuapp.com/chipseq_experiments/542 https://pulsar-encode.herokuapp.com/chipseq_experiments/553

twang15 commented 2 years ago

542 https://www.encodeproject.org/experiments/ENCSR572DUR 553 https://www.encodeproject.org/experiments/ENCSR446SWU

twang15 commented 2 years ago
  1. submission w/ code for each experiment
  2. link biosamples: 1 is the parent of 3 and 2 is the parent of 4. (manual)
    • add 1 as “originated_from” for 3
    • add 2 as “originated_from” for 4, rep1 for rep1, rep2 for rep2
twang15 commented 2 years ago
  1. GMs submission: a. 1 (GM1_on_ENCODE_portal = ENCGM156EZW) b. 2 (ENCGM156EZW, GM2_in_Pulsar) c. 3 (ENCGM156EZW) d. 4 (ENCGM156EZW, GM2_in_Pulsar)
twang15 commented 2 years ago
  1. IP submission for rep1 and rep2 of 2 and 4 respectively (code)
twang15 commented 2 years ago

Post GM

  1. Biosample ontology submission: "biosample_ontology": "/biosample-types/in_vitro_differentiated_cells_CL_0008030/" for a. biosamples in 3 and 4