challenges species sample library_prep platform run_acc replicate biosample sizes file_contents file_type file_acc paired_acc file_url paired_url file_s3_uri paired_s3_uri 1,2 human WTC11 CapTrap PacBio ENCSR309IKK 1 ENCBS944CBA reads fastq ENCFF105WIJ https://www.encodeproject.org/files/ENCFF105WIJ/@@download/ENCFF105WIJ.fastq.gz s3://encode-private/2021/03/26/a1d757f6-63c4-4af0-9333-387a9bbc6707/ENCFF105WIJ.fastq.gz 1,2 human WTC11 CapTrap PacBio ENCSR309IKK 1 ENCBS944CBA subreads bam ENCFF028FCL https://www.encodeproject.org/files/ENCFF028FCL/@@download/ENCFF028FCL.bam s3://encode-files/2021/03/26/88f35ea1-5d40-4fd7-8313-89cb0b9d8f35/ENCFF028FCL.bam 1,2 human WTC11 CapTrap PacBio ENCSR309IKK 2 ENCBS593PKA reads fastq ENCFF212HLP https://www.encodeproject.org/files/ENCFF212HLP/@@download/ENCFF212HLP.fastq.gz s3://encode-private/2021/03/26/beb999e2-691f-4f35-97c1-872a3ffb4c94/ENCFF212HLP.fastq.gz 1,2 human WTC11 CapTrap PacBio ENCSR309IKK 2 ENCBS593PKA subreads bam ENCFF950ANU https://www.encodeproject.org/files/ENCFF950ANU/@@download/ENCFF950ANU.bam s3://encode-files/2021/03/26/f59bab56-3097-47ac-93d0-1d4cf3fdcf61/ENCFF950ANU.bam 1,2 human WTC11 CapTrap PacBio ENCSR309IKK 3 ENCBS474NOC reads fastq ENCFF003QZT https://www.encodeproject.org/files/ENCFF003QZT/@@download/ENCFF003QZT.fastq.gz s3://encode-private/2021/03/26/0aae3633-b2d3-424b-8f4e-70828b77bbb9/ENCFF003QZT.fastq.gz 1,2 human WTC11 CapTrap PacBio ENCSR309IKK 3 ENCBS474NOC subreads bam ENCFF508XUP https://www.encodeproject.org/files/ENCFF508XUP/@@download/ENCFF508XUP.bam s3://encode-files/2021/03/26/4d62d683-f374-4ea5-b888-c2a8efdc37fa/ENCFF508XUP.bam 1,2 human WTC11 CapTrap ONT ENCSR054ABL 1 ENCBS944CBA reads fastq ENCFF654SNK https://www.encodeproject.org/files/ENCFF654SNK/@@download/ENCFF654SNK.fastq.gz s3://encode-files/2021/04/10/043dc82e-5c4a-471f-a879-6114cdb12b4f/ENCFF654SNK.fastq.gz 1,2 human WTC11 CapTrap ONT ENCSR054ABL 1 ENCBS944CBA nanopore_signal tar ENCFF970AUV https://www.encodeproject.org/files/ENCFF970AUV/@@download/ENCFF970AUV.tar.gz s3://encode-private/2021/04/09/390b3600-6f60-483a-8fe8-15a96496e873/ENCFF970AUV.tar.gz 1,2 human WTC11 CapTrap ONT ENCSR054ABL 2 ENCBS593PKA reads fastq ENCFF934KDM https://www.encodeproject.org/files/ENCFF934KDM/@@download/ENCFF934KDM.fastq.gz s3://encode-files/2021/04/10/bf3ccd70-7fe0-4c58-850c-e5333f344e33/ENCFF934KDM.fastq.gz 1,2 human WTC11 CapTrap ONT ENCSR054ABL 2 ENCBS593PKA nanopore_signal tar ENCFF902FSA https://www.encodeproject.org/files/ENCFF902FSA/@@download/ENCFF902FSA.tar.gz s3://encode-private/2021/04/09/de97b48b-2797-4d78-b186-2f858952959c/ENCFF902FSA.tar.gz 1,2 human WTC11 CapTrap ONT ENCSR054ABL 3 ENCBS474NOC reads fastq ENCFF104BNW https://www.encodeproject.org/files/ENCFF104BNW/@@download/ENCFF104BNW.fastq.gz s3://encode-files/2021/04/10/a83f5e2f-43e6-4e1e-aedc-2f17224d7229/ENCFF104BNW.fastq.gz 1,2 human WTC11 CapTrap ONT ENCSR054ABL 3 ENCBS474NOC nanopore_signal tar ENCFF053QEQ https://www.encodeproject.org/files/ENCFF053QEQ/@@download/ENCFF053QEQ.tar.gz s3://encode-private/2021/04/10/dddc75de-7603-4627-9764-7cc9f1b69579/ENCFF053QEQ.tar.gz 1,2 human WTC11 dRNA ONT ENCSR392BGY 1 ENCBS944CBA reads fastq ENCFF155CFF https://www.encodeproject.org/files/ENCFF155CFF/@@download/ENCFF155CFF.fastq.gz s3://encode-public/2021/04/07/6b54b9f1-6612-447c-8421-c7ad431063c6/ENCFF155CFF.fastq.gz 1,2 human WTC11 dRNA ONT ENCSR392BGY 1 ENCBS944CBA nanopore_signal tar ENCFF146MTW https://www.encodeproject.org/files/ENCFF146MTW/@@download/ENCFF146MTW.tar.gz s3://encode-public/2021/04/07/7e19cd87-1199-4efd-94da-21349ad7b30b/ENCFF146MTW.tar.gz 1,2 human WTC11 dRNA ONT ENCSR392BGY 2 ENCBS593PKA reads fastq ENCFF771DIX https://www.encodeproject.org/files/ENCFF771DIX/@@download/ENCFF771DIX.fastq.gz s3://encode-public/2021/05/06/15245caa-8521-4821-ab0a-541f4ac51069/ENCFF771DIX.fastq.gz 1,2 human WTC11 dRNA ONT ENCSR392BGY 2 ENCBS593PKA nanopore_signal tar ENCFF389XGB https://www.encodeproject.org/files/ENCFF389XGB/@@download/ENCFF389XGB.tar.gz s3://encode-public/2021/05/06/498793b0-c258-41b7-b134-4a1626937b40/ENCFF389XGB.tar.gz 1,2 human WTC11 dRNA ONT ENCSR392BGY 3 ENCBS474NOC reads fastq ENCFF600LIU https://www.encodeproject.org/files/ENCFF600LIU/@@download/ENCFF600LIU.fastq.gz s3://encode-public/2021/04/07/e81c19d1-77be-4e89-a2c8-853c6aad3d3d/ENCFF600LIU.fastq.gz 1,2 human WTC11 dRNA ONT ENCSR392BGY 3 ENCBS474NOC nanopore_signal tar ENCFF591QYR https://www.encodeproject.org/files/ENCFF591QYR/@@download/ENCFF591QYR.tar.gz s3://encode-public/2021/04/07/a4092f54-9463-4256-afb4-9cccf1d7bb29/ENCFF591QYR.tar.gz 1,2 human WTC11 R2C2 ONT ENCSR259DBL 1 ENCBS944CBA 2000-10000 reads fasta ENCFF153SIE https://www.encodeproject.org/files/ENCFF153SIE/@@download/ENCFF153SIE.fasta.gz s3://encode-files/2021/04/14/62fa8c03-d99a-4112-b4ae-bfb570e27d94/ENCFF153SIE.fasta.gz 1,2 human WTC11 R2C2 ONT ENCSR259DBL 1 ENCBS944CBA 2000-10000 reads fastq ENCFF178BYM https://www.encodeproject.org/files/ENCFF178BYM/@@download/ENCFF178BYM.fastq.gz s3://encode-files/2021/04/14/f8d533c7-87b9-4452-95ed-7d82328b742c/ENCFF178BYM.fastq.gz 1,2 human WTC11 R2C2 ONT ENCSR259DBL 2 ENCBS593PKA 2000-10000 reads fasta ENCFF377IEH https://www.encodeproject.org/files/ENCFF377IEH/@@download/ENCFF377IEH.fasta.gz s3://encode-files/2021/04/14/67c63f81-b5a5-448f-bba7-7bda76c55106/ENCFF377IEH.fasta.gz 1,2 human WTC11 R2C2 ONT ENCSR259DBL 2 ENCBS593PKA 2000-10000 reads fastq ENCFF063ASB https://www.encodeproject.org/files/ENCFF063ASB/@@download/ENCFF063ASB.fastq.gz s3://encode-files/2021/04/14/5b00f40e-ce35-427b-af01-2f7e715be54c/ENCFF063ASB.fastq.gz 1,2 human WTC11 R2C2 ONT ENCSR259DBL 3 ENCBS474NOC 2000-10000 reads fasta ENCFF489PQQ https://www.encodeproject.org/files/ENCFF489PQQ/@@download/ENCFF489PQQ.fasta.gz s3://encode-files/2021/04/14/f9976350-5735-422a-8c08-50ca1a110cff/ENCFF489PQQ.fasta.gz 1,2 human WTC11 R2C2 ONT ENCSR259DBL 3 ENCBS474NOC 2000-10000 reads fastq ENCFF408XXR https://www.encodeproject.org/files/ENCFF408XXR/@@download/ENCFF408XXR.fastq.gz s3://encode-files/2021/04/14/762c2d80-99d1-4a22-99d5-9f6b83dee500/ENCFF408XXR.fastq.gz 1,2 human WTC11 R2C2 ONT ENCSR925UQZ 1 ENCBS944CBA reads fasta ENCFF089IVT https://www.encodeproject.org/files/ENCFF089IVT/@@download/ENCFF089IVT.fasta.gz s3://encode-files/2021/04/14/6b9a3d06-19af-43a5-8182-06abb039580c/ENCFF089IVT.fasta.gz 1,2 human WTC11 R2C2 ONT ENCSR925UQZ 1 ENCBS944CBA reads fastq ENCFF542VPN https://www.encodeproject.org/files/ENCFF542VPN/@@download/ENCFF542VPN.fastq.gz s3://encode-files/2021/04/14/bd282e3b-b23e-4762-8e9f-63858b71f65f/ENCFF542VPN.fastq.gz 1,2 human WTC11 R2C2 ONT ENCSR925UQZ 2 ENCBS593PKA reads fasta ENCFF548RZB https://www.encodeproject.org/files/ENCFF548RZB/@@download/ENCFF548RZB.fasta.gz s3://encode-files/2021/04/14/bb8c7fe3-af2d-4bfd-98d1-6d2b3c4989d0/ENCFF548RZB.fasta.gz 1,2 human WTC11 R2C2 ONT ENCSR925UQZ 2 ENCBS593PKA reads fastq ENCFF679LUJ https://www.encodeproject.org/files/ENCFF679LUJ/@@download/ENCFF679LUJ.fastq.gz s3://encode-files/2021/04/14/180f8f55-734f-4742-be81-007603d600b9/ENCFF679LUJ.fastq.gz 1,2 human WTC11 R2C2 ONT ENCSR925UQZ 3 ENCBS474NOC reads fasta ENCFF997UNC https://www.encodeproject.org/files/ENCFF997UNC/@@download/ENCFF997UNC.fasta.gz s3://encode-files/2021/04/14/1f03d2e3-e435-4b6b-8c3d-d1cd7644c69e/ENCFF997UNC.fasta.gz 1,2 human WTC11 R2C2 ONT ENCSR925UQZ 3 ENCBS474NOC reads fastq ENCFF357UQD https://www.encodeproject.org/files/ENCFF357UQD/@@download/ENCFF357UQD.fastq.gz s3://encode-files/2021/04/14/fc38a8ad-f821-4af0-afd6-201448f70cd2/ENCFF357UQD.fastq.gz 1,2 human WTC11 cDNA Illumina ENCSR673UKZ 1 ENCBS944CBA reads fastq ENCFF766OAK ENCFF644AQW https://www.encodeproject.org/files/ENCFF766OAK/@@download/ENCFF766OAK.fastq.gz https://www.encodeproject.org/files/ENCFF644AQW/@@download/ENCFF644AQW.fastq.gz s3://encode-private/2021/04/02/96324426-1cc6-45d0-8256-250c8a7db572/ENCFF766OAK.fastq.gz s3://encode-private/2021/04/02/c5b529b2-9868-4021-8e73-1368483620de/ENCFF644AQW.fastq.gz 1,2 human WTC11 cDNA Illumina ENCSR673UKZ 2 ENCBS593PKA reads fastq ENCFF198RQU ENCFF620HBM https://www.encodeproject.org/files/ENCFF198RQU/@@download/ENCFF198RQU.fastq.gz https://www.encodeproject.org/files/ENCFF620HBM/@@download/ENCFF620HBM.fastq.gz s3://encode-private/2021/04/02/8e791e2d-1748-459d-b018-146ebcabdd20/ENCFF198RQU.fastq.gz s3://encode-private/2021/04/02/14a84858-0dab-4ba8-a264-20620e803e68/ENCFF620HBM.fastq.gz 1,2 human WTC11 cDNA Illumina ENCSR673UKZ 3 ENCBS474NOC reads fastq ENCFF247XJT ENCFF785SWH https://www.encodeproject.org/files/ENCFF247XJT/@@download/ENCFF247XJT.fastq.gz https://www.encodeproject.org/files/ENCFF785SWH/@@download/ENCFF785SWH.fastq.gz s3://encode-private/2021/04/02/e2ec877d-331f-4cc8-b666-9ad9ced037ea/ENCFF247XJT.fastq.gz s3://encode-private/2021/04/02/ffa0415f-a66d-48cc-b89d-92e317a14641/ENCFF785SWH.fastq.gz 1,2 human WTC11 cDNA PacBio ENCSR507JOF 1 ENCBS944CBA reads fastq ENCFF563QZR https://www.encodeproject.org/files/ENCFF563QZR/@@download/ENCFF563QZR.fastq.gz s3://encode-private/2021/02/05/2382755e-9ad8-4c1c-ba9d-00d0ff9fe05d/ENCFF563QZR.fastq.gz 1,2 human WTC11 cDNA PacBio ENCSR507JOF 1 ENCBS944CBA subreads bam ENCFF112MRR https://www.encodeproject.org/files/ENCFF112MRR/@@download/ENCFF112MRR.bam s3://encode-files/2021/02/11/50c35336-9b9b-49a4-a146-b3fae4780cbb/ENCFF112MRR.bam 1,2 human WTC11 cDNA PacBio ENCSR507JOF 1 ENCBS944CBA subreads bam ENCFF338WQL https://www.encodeproject.org/files/ENCFF338WQL/@@download/ENCFF338WQL.bam s3://encode-files/2021/02/11/66e7327e-e88c-4035-867e-07f535c91c28/ENCFF338WQL.bam 1,2 human WTC11 cDNA PacBio ENCSR507JOF 1 ENCBS944CBA subreads bam ENCFF992WSK https://www.encodeproject.org/files/ENCFF992WSK/@@download/ENCFF992WSK.bam s3://encode-files/2021/02/11/fa2fd026-023a-4237-848f-f42039918637/ENCFF992WSK.bam 1,2 human WTC11 cDNA PacBio ENCSR507JOF 2 ENCBS593PKA reads fastq ENCFF370NFS https://www.encodeproject.org/files/ENCFF370NFS/@@download/ENCFF370NFS.fastq.gz s3://encode-private/2021/02/05/7edc41f6-db7d-4ed9-b9dc-66c2be57e5f7/ENCFF370NFS.fastq.gz 1,2 human WTC11 cDNA PacBio ENCSR507JOF 2 ENCBS593PKA subreads bam ENCFF122GKS https://www.encodeproject.org/files/ENCFF122GKS/@@download/ENCFF122GKS.bam s3://encode-files/2021/02/12/4df8bfff-3b4e-4dbc-a270-d7c2043b50d5/ENCFF122GKS.bam 1,2 human WTC11 cDNA PacBio ENCSR507JOF 2 ENCBS593PKA subreads bam ENCFF455RXJ https://www.encodeproject.org/files/ENCFF455RXJ/@@download/ENCFF455RXJ.bam s3://encode-private/2021/02/12/d80cac3a-5d49-4d01-9b7a-6621f2cae130/ENCFF455RXJ.bam 1,2 human WTC11 cDNA PacBio ENCSR507JOF 2 ENCBS593PKA subreads bam ENCFF875XMU https://www.encodeproject.org/files/ENCFF875XMU/@@download/ENCFF875XMU.bam s3://encode-files/2021/02/12/1b0b2673-3b21-4fd5-bd9d-8c726c84c833/ENCFF875XMU.bam 1,2 human WTC11 cDNA PacBio ENCSR507JOF 3 ENCBS474NOC reads fastq ENCFF245IPA https://www.encodeproject.org/files/ENCFF245IPA/@@download/ENCFF245IPA.fastq.gz s3://encode-private/2021/02/05/3e7cc8e0-5df9-4502-9482-c5cad4e5b502/ENCFF245IPA.fastq.gz 1,2 human WTC11 cDNA PacBio ENCSR507JOF 3 ENCBS474NOC subreads bam ENCFF434SWA https://www.encodeproject.org/files/ENCFF434SWA/@@download/ENCFF434SWA.bam s3://encode-files/2021/02/12/16c48deb-6698-4566-aa7f-130053637c94/ENCFF434SWA.bam 1,2 human WTC11 cDNA PacBio ENCSR507JOF 3 ENCBS474NOC subreads bam ENCFF620NFT https://www.encodeproject.org/files/ENCFF620NFT/@@download/ENCFF620NFT.bam s3://encode-files/2021/02/12/08a43517-c0ff-4c32-a459-b63ab07bcff6/ENCFF620NFT.bam 1,2 human WTC11 cDNA PacBio ENCSR507JOF 3 ENCBS474NOC subreads bam ENCFF962OWJ https://www.encodeproject.org/files/ENCFF962OWJ/@@download/ENCFF962OWJ.bam s3://encode-files/2021/02/12/01c06c2e-392a-4ba7-a874-226b9c276bfd/ENCFF962OWJ.bam 1,2 human WTC11 cDNA ONT ENCSR539ZXJ 1 ENCBS944CBA 600-5000 reads fastq ENCFF263YFG https://www.encodeproject.org/files/ENCFF263YFG/@@download/ENCFF263YFG.fastq.gz s3://encode-private/2021/04/12/e0758800-e18e-4828-af1f-68aa7abfcd3d/ENCFF263YFG.fastq.gz 1,2 human WTC11 cDNA ONT ENCSR539ZXJ 1 ENCBS944CBA 600-5000 nanopore_signal tar ENCFF585AMS https://www.encodeproject.org/files/ENCFF585AMS/@@download/ENCFF585AMS.tar.gz s3://encode-private/2021/04/12/0a844e70-49bf-492b-a759-349a3427730b/ENCFF585AMS.tar.gz 1,2 human WTC11 cDNA ONT ENCSR539ZXJ 2 ENCBS593PKA 600-5000 reads fastq ENCFF023EXJ https://www.encodeproject.org/files/ENCFF023EXJ/@@download/ENCFF023EXJ.fastq.gz s3://encode-private/2021/04/12/65b28dfd-d906-4c29-8087-48cf4afd6c24/ENCFF023EXJ.fastq.gz 1,2 human WTC11 cDNA ONT ENCSR539ZXJ 2 ENCBS593PKA 600-5000 nanopore_signal tar ENCFF737GVV https://www.encodeproject.org/files/ENCFF737GVV/@@download/ENCFF737GVV.tar.gz s3://encode-private/2021/04/12/c9bc2e9e-f1a4-4fc6-b8c1-5293ea6ab9e5/ENCFF737GVV.tar.gz 1,2 human WTC11 cDNA ONT ENCSR539ZXJ 3 ENCBS474NOC 600-5000 reads fastq ENCFF961HLO https://www.encodeproject.org/files/ENCFF961HLO/@@download/ENCFF961HLO.fastq.gz s3://encode-private/2021/04/12/d6b066bf-53c5-4646-b4e7-6e8574ecb078/ENCFF961HLO.fastq.gz 1,2 human WTC11 cDNA ONT ENCSR539ZXJ 3 ENCBS474NOC 600-5000 nanopore_signal tar ENCFF510ABH https://www.encodeproject.org/files/ENCFF510ABH/@@download/ENCFF510ABH.tar.gz s3://encode-private/2021/04/12/ddc8a29f-9087-41f8-8ac6-a3c7471e7003/ENCFF510ABH.tar.gz 1,2 human H1_mix CapTrap PacBio ENCSR743SKO 1 ENCBS464AKI,ENCBS664DSZ reads fastq ENCFF705IEA https://www.encodeproject.org/files/ENCFF705IEA/@@download/ENCFF705IEA.fastq.gz s3://encode-private/2021/03/26/40d8d6e8-01b4-46c6-8bde-e93c6e317e48/ENCFF705IEA.fastq.gz 1,2 human H1_mix CapTrap PacBio ENCSR743SKO 1 ENCBS464AKI,ENCBS664DSZ subreads bam ENCFF073YYF https://www.encodeproject.org/files/ENCFF073YYF/@@download/ENCFF073YYF.bam s3://encode-files/2021/03/26/9327ed2b-0269-465d-838b-fafb6bddc7e8/ENCFF073YYF.bam 1,2 human H1_mix CapTrap PacBio ENCSR743SKO 2 ENCBS012DYC,ENCBS872CFG reads fastq ENCFF885YGF https://www.encodeproject.org/files/ENCFF885YGF/@@download/ENCFF885YGF.fastq.gz s3://encode-private/2021/03/26/9f12b549-d45e-45c2-8d8b-9ac446f53eaf/ENCFF885YGF.fastq.gz 1,2 human H1_mix CapTrap PacBio ENCSR743SKO 2 ENCBS012DYC,ENCBS872CFG subreads bam ENCFF509GUL https://www.encodeproject.org/files/ENCFF509GUL/@@download/ENCFF509GUL.bam s3://encode-files/2021/03/26/1478332f-6ffa-4638-8c1a-a6b8614484c5/ENCFF509GUL.bam 1,2 human H1_mix CapTrap PacBio ENCSR743SKO 3 ENCBS667PZC,ENCBS971DDS reads fastq ENCFF822IZD https://www.encodeproject.org/files/ENCFF822IZD/@@download/ENCFF822IZD.fastq.gz s3://encode-private/2021/03/26/7b174c5d-183b-4ac2-9583-948e7032869d/ENCFF822IZD.fastq.gz 1,2 human H1_mix CapTrap PacBio ENCSR743SKO 3 ENCBS667PZC,ENCBS971DDS subreads bam ENCFF499AVA https://www.encodeproject.org/files/ENCFF499AVA/@@download/ENCFF499AVA.bam s3://encode-files/2021/03/26/2be1b421-c6f1-433f-b07f-226bdec93ce4/ENCFF499AVA.bam 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https://www.encodeproject.org/files/ENCFF464USM/@@download/ENCFF464USM.tar.gz s3://encode-public/2021/04/07/44377850-cfd8-46fc-8e14-3ff839b44133/ENCFF464USM.tar.gz 1,3 mouse ES R2C2 ONT ENCSR602SAJ 1 ENCBS648HXY reads fasta ENCFF824JVI https://www.encodeproject.org/files/ENCFF824JVI/@@download/ENCFF824JVI.fasta.gz s3://encode-files/2021/04/14/540749b9-e6dd-4b82-8556-f038402ecbbb/ENCFF824JVI.fasta.gz 1,3 mouse ES R2C2 ONT ENCSR602SAJ 1 ENCBS648HXY reads fastq ENCFF055REA https://www.encodeproject.org/files/ENCFF055REA/@@download/ENCFF055REA.fastq.gz s3://encode-files/2021/04/14/8a652a1c-76bd-4d89-b62f-9ce45191ad05/ENCFF055REA.fastq.gz 1,3 mouse ES R2C2 ONT ENCSR602SAJ 2 ENCBS951CRC reads fasta ENCFF104DMI https://www.encodeproject.org/files/ENCFF104DMI/@@download/ENCFF104DMI.fasta.gz s3://encode-files/2021/04/14/5e42263f-860c-4973-9810-0e93a723747e/ENCFF104DMI.fasta.gz 1,3 mouse ES R2C2 ONT ENCSR602SAJ 2 ENCBS951CRC reads fastq ENCFF598YQO https://www.encodeproject.org/files/ENCFF598YQO/@@download/ENCFF598YQO.fastq.gz s3://encode-files/2021/04/14/3a76456a-38d0-42b8-a0fc-672b991235f4/ENCFF598YQO.fastq.gz 1,3 mouse ES R2C2 ONT ENCSR602SAJ 3 ENCBS418RDP reads fasta ENCFF412UHU https://www.encodeproject.org/files/ENCFF412UHU/@@download/ENCFF412UHU.fasta.gz s3://encode-files/2021/04/14/18adcb4f-99a2-4288-84cf-a4efb9ab17b0/ENCFF412UHU.fasta.gz 1,3 mouse ES R2C2 ONT ENCSR602SAJ 3 ENCBS418RDP reads fastq ENCFF335WMC https://www.encodeproject.org/files/ENCFF335WMC/@@download/ENCFF335WMC.fastq.gz s3://encode-files/2021/04/14/e5da5d4c-3564-4a10-97ce-4579a6afbf63/ENCFF335WMC.fastq.gz 1,3 mouse ES R2C2 ONT ENCSR710TDI 1 ENCBS648HXY 2000-10000 reads fasta ENCFF513AEK https://www.encodeproject.org/files/ENCFF513AEK/@@download/ENCFF513AEK.fasta.gz s3://encode-files/2021/04/14/3b6e2892-5673-438a-9629-9266acb91fd9/ENCFF513AEK.fasta.gz 1,3 mouse ES R2C2 ONT ENCSR710TDI 1 ENCBS648HXY 2000-10000 reads fastq ENCFF797PJV https://www.encodeproject.org/files/ENCFF797PJV/@@download/ENCFF797PJV.fastq.gz s3://encode-files/2021/04/14/63ea07a3-6217-434c-aa21-fbe0de68d9c8/ENCFF797PJV.fastq.gz 1,3 mouse ES R2C2 ONT ENCSR710TDI 2 ENCBS951CRC 2000-10000 reads fasta ENCFF850MIB https://www.encodeproject.org/files/ENCFF850MIB/@@download/ENCFF850MIB.fasta.gz s3://encode-files/2021/04/14/f7a80d03-aa10-4385-8670-34195bde6dcf/ENCFF850MIB.fasta.gz 1,3 mouse ES R2C2 ONT ENCSR710TDI 2 ENCBS951CRC 2000-10000 reads fastq ENCFF742GCO https://www.encodeproject.org/files/ENCFF742GCO/@@download/ENCFF742GCO.fastq.gz s3://encode-files/2021/04/14/e485b457-d141-455b-a791-a04a35c3cc4a/ENCFF742GCO.fastq.gz 1,3 mouse ES R2C2 ONT ENCSR710TDI 3 ENCBS418RDP 2000-10000 reads fasta ENCFF595TIH https://www.encodeproject.org/files/ENCFF595TIH/@@download/ENCFF595TIH.fasta.gz s3://encode-files/2021/04/14/c03f6ed3-238b-47e2-94e9-25b62b052c01/ENCFF595TIH.fasta.gz 1,3 mouse ES R2C2 ONT ENCSR710TDI 3 ENCBS418RDP 2000-10000 reads fastq ENCFF717LLT https://www.encodeproject.org/files/ENCFF717LLT/@@download/ENCFF717LLT.fastq.gz s3://encode-files/2021/04/14/5247507c-81a5-494d-b579-5c3ddd7d92da/ENCFF717LLT.fastq.gz 1,3 mouse ES cDNA Illumina ENCSR982PLD 1 ENCBS648HXY reads fastq ENCFF521IDK ENCFF006WNS https://www.encodeproject.org/files/ENCFF521IDK/@@download/ENCFF521IDK.fastq.gz https://www.encodeproject.org/files/ENCFF006WNS/@@download/ENCFF006WNS.fastq.gz s3://encode-private/2021/04/02/4ed8e190-3734-447e-b024-07dfd2f573f6/ENCFF521IDK.fastq.gz s3://encode-private/2021/04/02/a09bf424-6e8c-42b8-975d-7e94d3a27601/ENCFF006WNS.fastq.gz 1,3 mouse ES cDNA Illumina ENCSR982PLD 2 ENCBS951CRC reads fastq ENCFF089PFT ENCFF914YPT https://www.encodeproject.org/files/ENCFF089PFT/@@download/ENCFF089PFT.fastq.gz https://www.encodeproject.org/files/ENCFF914YPT/@@download/ENCFF914YPT.fastq.gz s3://encode-private/2021/04/02/9a72e66c-cece-4d83-acc1-479dc260ec86/ENCFF089PFT.fastq.gz s3://encode-private/2021/04/02/ddacf57c-0fb3-4ff0-870a-ea1b5e17c7fb/ENCFF914YPT.fastq.gz 1,3 mouse ES cDNA Illumina ENCSR982PLD 3 ENCBS418RDP reads fastq ENCFF696TCH ENCFF751FTE https://www.encodeproject.org/files/ENCFF696TCH/@@download/ENCFF696TCH.fastq.gz https://www.encodeproject.org/files/ENCFF751FTE/@@download/ENCFF751FTE.fastq.gz s3://encode-private/2021/04/02/ac264bad-3dfb-4f7e-a2c6-5c8a1ae21c70/ENCFF696TCH.fastq.gz s3://encode-private/2021/04/02/950df2d8-6839-4885-86d6-b12f17715c42/ENCFF751FTE.fastq.gz 1,3 mouse ES cDNA PacBio ENCSR172GXL 1 ENCBS648HXY reads fastq ENCFF874VSI https://www.encodeproject.org/files/ENCFF874VSI/@@download/ENCFF874VSI.fastq.gz s3://encode-private/2021/02/05/8031a810-3691-4add-889f-b9b40f132576/ENCFF874VSI.fastq.gz 1,3 mouse ES cDNA PacBio ENCSR172GXL 1 ENCBS648HXY subreads bam ENCFF564NGV https://www.encodeproject.org/files/ENCFF564NGV/@@download/ENCFF564NGV.bam s3://encode-files/2021/02/12/119ad2eb-479e-4679-bee1-347ddcd2575f/ENCFF564NGV.bam 1,3 mouse ES cDNA PacBio ENCSR172GXL 1 ENCBS648HXY subreads bam ENCFF714ZJR https://www.encodeproject.org/files/ENCFF714ZJR/@@download/ENCFF714ZJR.bam s3://encode-files/2021/02/12/8508e2eb-4f89-4375-8c94-49c115b1fbe7/ENCFF714ZJR.bam 1,3 mouse ES cDNA PacBio ENCSR172GXL 2 ENCBS951CRC reads fastq ENCFF667VXS https://www.encodeproject.org/files/ENCFF667VXS/@@download/ENCFF667VXS.fastq.gz s3://encode-private/2021/02/05/1195494f-5857-4cec-9c06-26d92c4ff37e/ENCFF667VXS.fastq.gz 1,3 mouse ES cDNA PacBio ENCSR172GXL 2 ENCBS951CRC subreads bam ENCFF493CBP https://www.encodeproject.org/files/ENCFF493CBP/@@download/ENCFF493CBP.bam s3://encode-private/2021/02/13/6fd5c4fe-ea70-418d-9f26-5807a52b2b14/ENCFF493CBP.bam 1,3 mouse ES cDNA PacBio ENCSR172GXL 2 ENCBS951CRC subreads bam ENCFF993JVA https://www.encodeproject.org/files/ENCFF993JVA/@@download/ENCFF993JVA.bam s3://encode-files/2021/02/13/d2ca889a-0ab8-4df3-9cb8-9b0078e3d893/ENCFF993JVA.bam 1,3 mouse ES cDNA PacBio ENCSR172GXL 3 ENCBS418RDP reads fastq ENCFF313VYZ https://www.encodeproject.org/files/ENCFF313VYZ/@@download/ENCFF313VYZ.fastq.gz s3://encode-private/2021/02/05/4b36e8f6-9960-4c46-9981-00d2170368ed/ENCFF313VYZ.fastq.gz 1,3 mouse ES cDNA PacBio ENCSR172GXL 3 ENCBS418RDP subreads bam ENCFF094NZA https://www.encodeproject.org/files/ENCFF094NZA/@@download/ENCFF094NZA.bam s3://encode-files/2021/04/05/cb263833-80c8-4e75-b833-9af26a3dc12a/ENCFF094NZA.bam 1,3 mouse ES cDNA PacBio ENCSR172GXL 3 ENCBS418RDP subreads bam ENCFF280DWZ https://www.encodeproject.org/files/ENCFF280DWZ/@@download/ENCFF280DWZ.bam s3://encode-files/2021/04/05/8863fb53-be5c-47bf-8785-7df65a1ae1bb/ENCFF280DWZ.bam 1,3 mouse ES cDNA ONT ENCSR198UZE 1 ENCBS648HXY 500-5000 reads fastq ENCFF683TBO https://www.encodeproject.org/files/ENCFF683TBO/@@download/ENCFF683TBO.fastq.gz s3://encode-private/2021/04/12/8cb91303-ea0b-4155-a77a-724eafe58254/ENCFF683TBO.fastq.gz 1,3 mouse ES cDNA ONT ENCSR198UZE 1 ENCBS648HXY 500-5000 nanopore_signal tar ENCFF429FDN https://www.encodeproject.org/files/ENCFF429FDN/@@download/ENCFF429FDN.tar.gz s3://encode-private/2021/04/12/79346aba-f48c-4f6e-af9f-161d67e8d436/ENCFF429FDN.tar.gz 1,3 mouse ES cDNA ONT ENCSR198UZE 2 ENCBS951CRC 500-5000 reads fastq ENCFF232YSU https://www.encodeproject.org/files/ENCFF232YSU/@@download/ENCFF232YSU.fastq.gz s3://encode-private/2021/04/12/6db28225-6e7c-47d8-9994-a52f69e62960/ENCFF232YSU.fastq.gz 1,3 mouse ES cDNA ONT ENCSR198UZE 2 ENCBS951CRC 500-5000 nanopore_signal tar ENCFF209ZZU https://www.encodeproject.org/files/ENCFF209ZZU/@@download/ENCFF209ZZU.tar.gz s3://encode-private/2021/04/12/61998b95-d130-43d6-922e-fe95bda4b289/ENCFF209ZZU.tar.gz 1,3 mouse ES cDNA ONT ENCSR198UZE 3 ENCBS418RDP 500-5000 reads fastq ENCFF288PBL https://www.encodeproject.org/files/ENCFF288PBL/@@download/ENCFF288PBL.fastq.gz s3://encode-private/2021/04/12/802c147f-f2dc-4de2-99f4-0bcc28dff7b4/ENCFF288PBL.fastq.gz 1,3 mouse ES cDNA ONT ENCSR198UZE 3 ENCBS418RDP 500-5000 nanopore_signal tar ENCFF931ICQ https://www.encodeproject.org/files/ENCFF931ICQ/@@download/ENCFF931ICQ.tar.gz s3://encode-private/2021/04/12/edb604c2-ff2d-4d4d-a1fb-90ab251cf950/ENCFF931ICQ.tar.gz 1,2 mouse mouse_simulation dRNA ONT syn25591653 1 mm_ont_sim reads fastq syn25591653 1,2 mouse mouse_simulation cDNA Illumina syn25591436 1 mm_illumina_sim reads fastq syn25591503 syn25591548 1,2 mouse mouse_simulation cDNA PacBio syn25591622 1 mm_pb_sim reads fasta syn25591622 3 manatee blood cDNA Illumina ENCSR513JKI 1 ENCBS538IUC 300-350 reads fastq ENCFF646MEJ ENCFF402UPZ https://www.encodeproject.org/files/ENCFF646MEJ/@@download/ENCFF646MEJ.fastq.gz https://www.encodeproject.org/files/ENCFF402UPZ/@@download/ENCFF402UPZ.fastq.gz s3://encode-public/2021/04/29/046a80b4-55dd-4b47-bd3e-e2ec4f082721/ENCFF646MEJ.fastq.gz s3://encode-public/2021/04/29/74046633-ac72-4715-a87a-f2714ccd4808/ENCFF402UPZ.fastq.gz 3 manatee blood cDNA Illumina ENCSR513JKI 2 ENCBS797CKD 300-350 reads fastq ENCFF380MWG ENCFF293HYT https://www.encodeproject.org/files/ENCFF380MWG/@@download/ENCFF380MWG.fastq.gz https://www.encodeproject.org/files/ENCFF293HYT/@@download/ENCFF293HYT.fastq.gz s3://encode-public/2021/04/29/68d73494-610f-4f96-a9cd-29cb4a2d2ce0/ENCFF380MWG.fastq.gz s3://encode-public/2021/04/29/dc8aff09-7bae-465f-bec8-f5ed40dbe680/ENCFF293HYT.fastq.gz 3 manatee blood cDNA Illumina ENCSR513JKI 3 ENCBS193IGY 300-350 reads fastq ENCFF195QJY ENCFF704YKH https://www.encodeproject.org/files/ENCFF195QJY/@@download/ENCFF195QJY.fastq.gz https://www.encodeproject.org/files/ENCFF704YKH/@@download/ENCFF704YKH.fastq.gz s3://encode-private/2021/04/29/464e63ad-15ae-4405-9e94-0850b8872373/ENCFF195QJY.fastq.gz s3://encode-public/2021/04/29/642217a8-555c-47c6-9e1b-505844061a79/ENCFF704YKH.fastq.gz 3 manatee blood cDNA Illumina ENCSR513JKI 4 ENCBS621PNS 300-350 reads fastq ENCFF447NFQ ENCFF031QKC https://www.encodeproject.org/files/ENCFF447NFQ/@@download/ENCFF447NFQ.fastq.gz https://www.encodeproject.org/files/ENCFF031QKC/@@download/ENCFF031QKC.fastq.gz s3://encode-private/2021/04/29/9fa7a633-5def-4881-8a3d-c67bd46de7d5/ENCFF447NFQ.fastq.gz s3://encode-private/2021/04/29/0e962f8b-1671-4abb-841b-535ff6c3980f/ENCFF031QKC.fastq.gz 3 manatee blood cDNA Illumina ENCSR513JKI 5 ENCBS416GXR 300-350 reads fastq ENCFF968KOV ENCFF803GHI https://www.encodeproject.org/files/ENCFF968KOV/@@download/ENCFF968KOV.fastq.gz https://www.encodeproject.org/files/ENCFF803GHI/@@download/ENCFF803GHI.fastq.gz s3://encode-public/2021/04/29/bf11827d-448a-4cd4-bd39-8c0d2f637316/ENCFF968KOV.fastq.gz s3://encode-public/2021/04/29/db466e08-cefb-47a5-87f3-03f64b8faf66/ENCFF803GHI.fastq.gz 3 manatee blood cDNA Illumina ENCSR513JKI 6 ENCBS689ZOI 300-350 reads fastq ENCFF112OQR ENCFF530SHH https://www.encodeproject.org/files/ENCFF112OQR/@@download/ENCFF112OQR.fastq.gz https://www.encodeproject.org/files/ENCFF530SHH/@@download/ENCFF530SHH.fastq.gz s3://encode-public/2021/04/29/1634a16d-e993-4910-8566-01ea8b1db80d/ENCFF112OQR.fastq.gz s3://encode-private/2021/04/29/a06902c0-5a21-4c13-90a9-081b00b69ddd/ENCFF530SHH.fastq.gz 3 manatee blood cDNA Illumina ENCSR513JKI 7 ENCBS235LIE 300-350 reads fastq ENCFF411RUT ENCFF029FVJ https://www.encodeproject.org/files/ENCFF411RUT/@@download/ENCFF411RUT.fastq.gz https://www.encodeproject.org/files/ENCFF029FVJ/@@download/ENCFF029FVJ.fastq.gz s3://encode-public/2021/04/29/1f06062c-ade9-4d89-acb1-43d08954ca9e/ENCFF411RUT.fastq.gz s3://encode-public/2021/04/29/0add0ba0-4e72-46c0-b969-d75b13eba518/ENCFF029FVJ.fastq.gz 3 manatee blood cDNA Illumina ENCSR513JKI 8 ENCBS014III 300-350 reads fastq ENCFF970WAY ENCFF940ZOB https://www.encodeproject.org/files/ENCFF970WAY/@@download/ENCFF970WAY.fastq.gz https://www.encodeproject.org/files/ENCFF940ZOB/@@download/ENCFF940ZOB.fastq.gz s3://encode-private/2021/04/29/c62a714c-9c2a-4ee3-9091-35ee6991632c/ENCFF970WAY.fastq.gz s3://encode-public/2021/04/29/d70ee7da-281c-4aa7-8403-b2d876ce74df/ENCFF940ZOB.fastq.gz 3 manatee blood cDNA Illumina ENCSR513JKI 9 ENCBS169YJA 300-350 reads fastq ENCFF382JPM ENCFF028TCU https://www.encodeproject.org/files/ENCFF382JPM/@@download/ENCFF382JPM.fastq.gz https://www.encodeproject.org/files/ENCFF028TCU/@@download/ENCFF028TCU.fastq.gz s3://encode-public/2021/04/29/51fc28e7-5d4e-4663-b8d9-8a434859ca9a/ENCFF382JPM.fastq.gz s3://encode-private/2021/04/29/c8652af7-3dff-405c-a879-c87297b77037/ENCFF028TCU.fastq.gz 3 manatee blood cDNA PacBio ENCSR272BQI 1 ENCBS028XVY reads fastq ENCFF835YMN https://www.encodeproject.org/files/ENCFF835YMN/@@download/ENCFF835YMN.fastq.gz s3://encode-public/2021/04/30/3ca60c6d-ec13-42f6-a283-8ea6d82af206/ENCFF835YMN.fastq.gz 3 manatee blood cDNA PacBio ENCSR272BQI 1 ENCBS028XVY subreads bam ENCFF058GPT https://www.encodeproject.org/files/ENCFF058GPT/@@download/ENCFF058GPT.bam s3://encode-public/2021/04/30/6fb61a1e-0ff7-4bc7-8432-b801528cd061/ENCFF058GPT.bam 3 manatee blood cDNA PacBio ENCSR272BQI 1 ENCBS028XVY subreads bam ENCFF123MVQ https://www.encodeproject.org/files/ENCFF123MVQ/@@download/ENCFF123MVQ.bam s3://encode-public/2021/04/30/4438c259-a9f0-4616-8e1c-859a02b98248/ENCFF123MVQ.bam 3 manatee blood cDNA PacBio ENCSR272BQI 1 ENCBS028XVY subreads bam ENCFF529XIE https://www.encodeproject.org/files/ENCFF529XIE/@@download/ENCFF529XIE.bam s3://encode-public/2021/04/30/74e71399-2860-4910-95aa-ee5dce3649d5/ENCFF529XIE.bam 3 manatee blood cDNA PacBio ENCSR583MLP 1 ENCBS028XVY reads fastq ENCFF589LDN https://www.encodeproject.org/files/ENCFF589LDN/@@download/ENCFF589LDN.fastq.gz s3://encode-public/2021/04/29/ab77bb35-68a3-4c2a-99d6-990178ecde36/ENCFF589LDN.fastq.gz 3 manatee blood cDNA PacBio ENCSR583MLP 1 ENCBS028XVY subreads bam ENCFF973PES https://www.encodeproject.org/files/ENCFF973PES/@@download/ENCFF973PES.bam s3://encode-public/2021/04/29/4d789137-ea70-4690-8f85-7d7df2bbbf3c/ENCFF973PES.bam 3 manatee blood cDNA ONT ENCSR703ZIY 1 ENCBS028XVY reads fastq ENCFF629AWL https://www.encodeproject.org/files/ENCFF629AWL/@@download/ENCFF629AWL.fastq.gz s3://encode-public/2021/04/30/ba717efa-ff37-4e78-876e-ffaafc6202f5/ENCFF629AWL.fastq.gz 3 manatee blood cDNA ONT ENCSR703ZIY 1 ENCBS028XVY nanopore_signal tar ENCFF527WMT https://www.encodeproject.org/files/ENCFF527WMT/@@download/ENCFF527WMT.tar.gz s3://encode-public/2021/04/30/84e04752-0a5d-4ff7-8d62-9c8c3322b7fa/ENCFF527WMT.tar.gz 3 manatee blood cDNA ONT ENCSR941VON 1 ENCBS028XVY reads fastq ENCFF090GGQ https://www.encodeproject.org/files/ENCFF090GGQ/@@download/ENCFF090GGQ.fastq.gz s3://encode-private/2021/04/30/038e18c1-1747-4738-860a-eb591dcaabf0/ENCFF090GGQ.fastq.gz 3 manatee blood cDNA ONT ENCSR941VON 1 ENCBS028XVY reads fastq ENCFF620ASK https://www.encodeproject.org/files/ENCFF620ASK/@@download/ENCFF620ASK.fastq.gz s3://encode-public/2021/04/30/36e175e3-dd91-4a39-958c-a5e912a118c3/ENCFF620ASK.fastq.gz 3 manatee blood cDNA ONT ENCSR941VON 1 ENCBS028XVY nanopore_signal tar ENCFF268XPT https://www.encodeproject.org/files/ENCFF268XPT/@@download/ENCFF268XPT.tar.gz s3://encode-public/2021/04/30/53c3dca3-c35e-45c1-9da1-b1d79e4651eb/ENCFF268XPT.tar.gz 3 manatee blood cDNA ONT ENCSR941VON 1 ENCBS028XVY nanopore_signal tar ENCFF691IHT https://www.encodeproject.org/files/ENCFF691IHT/@@download/ENCFF691IHT.tar.gz s3://encode-public/2021/04/29/fdc6467c-e6c7-4627-9720-dc4fe64a3dc6/ENCFF691IHT.tar.gz