title: The Arabidopsis Polycomb Repressive Complex 1 (PRC1) components AtBMI1A, B and C impact gene networks throughout all stages of plant development

city: Sevilla

first: Myriam

last: Calonje

address: Americo Vespucio 49

institute: Institute for Plant Biochemistry and Photosynthesis (CSIC -  University of Sevilla)

summary: PcG regulation in Arabidopsis is required to maintain cell differentiation and to allow developmental phase transitions. This is achieved by the activity of three PRC2s and the participation of a yet poorly defined PRC1. Previous results showed that apparent PRC1 components perform discrete roles during plant development, suggesting the existence of PRC1 variants; however, it is not clear in how many processes these components participate. We show that AtBMI1 proteins are required to promote all developmental phase transitions and to control cell proliferation during organ growth and development, expanding their proposed range of action. While AtBMI1 function during germination is closely linked to B3 domain transcription factors VAL1/2 possibly in combination with GT-box binding factors, other AtBMI1 regulatory networks require participation of different factor combinations. Conversely, EMF1 and LHP1 bind many H3K27me3 positive genes upregulated in atbmi1a/b/c mutants; however, loss of their function affects expression of a different subset, suggesting that even if EMF1, LHP1 and AtBMI1 exist in a common PRC1 variant, their role in repression depends on the functional context.

overall_design: mRNA profiles of 10DAG  Arabidopsis seedlings Col-0; single mutants atbmi1a and  atbmi1b; strong double mutants atbmi1a/b and strong triple mutants atbmi1a/b/c

first: Wiam

last: Merini

first: Francisco

last: Romero-Campero

first: Angeles

last: Gomez-Zambrano

first: Yue

last: Zhou

first: Franziska

last: Turck


title: Genome-wide analysis of transcription in in vitro- and in vivo-derived motor neurons

status: Public on Nov 08 2016

city: Los Angeles

first: Justin

last: Ichida

state: CA

address: 1425 San Pablo St. Bcc 307

country: USA

institute: University of Southern California

type: Expression profiling by high throughput sequencing

summary: RNA sequencing analysis of Hb9::GFP mouse embryonic fibroblasts, Hb9::GFP+ primary mouse embryonic motor neurons at day E13.5, Hb9::GFP+ mouse embryonic stem cell-derived motor neurons, Hb9::GFP+ mouse induced pluripotent stem cell derived motor neurons, and Hb9::GFP+ mouse induced motor neurons generated using transcription factor overexpression. The goal of this project is to evaluate the ability of directed differentiation and lineage conversion techniques to generate a bona fide neuronal subtype.

overall_design: The goal of this study is to determine the level of transcriptional similarity between spinal motor neurons generated from pluripotent stem cells by directed differentation, spinal motor neurons generated from fibroblasts by transcription factor-mediated lineage conversion, and primary spinal motor neuron from embryonic spinal cord. In addition, we tested the effect of culturing ESC-MNs in glia-conditioned media. All neurons were generated using the same Hb9::GFP, C57Bl/6 background, and FACS sorted for Hb9::GFP.

first: Brandi

last: Davis-Dusenberry


title: RNA immunoprecipitation (RIP) of IGF2BP3 from pancreatic cancer cell extracts cultured on fibronectin

status: Public on Nov 09 2016

city: Nankoku

first: Keisuke

last: Taniuchi

address: Kohasu

country: Japan

institute: Kochi Medical School

summary: IGF2BP3-bound transcripts were identified by RNA immunoprecipitation and sequencing (RIP-Seq) and bioinformatics analysis. A pancreatic cancer cell line S2-013 was cultured on fibronectin. We performed RIP of IGF2BP3 using anti-IGF2BP3 antibody from the fibronectin-stimulated S2-013 extracts, and identified the associated mRNAs using a next generation sequencer.

overall_design: S2-013 cells were seeded on fibronectin and incubated for 5 h. After washing twice with PBS, cells were lysed in NP2 buffer. Lysates were immunoprecipitated with anti-IGF2BP3 antibody or with normal rabbit IgG and Dynabeads Protein G. The immunoprecipitation products were processed by Hokkaido System Science (Sapporo, Japan) using an Illumina/Solexa instrument following standard procedures.


title: small RNA-seq from upper lobe of left lung (ENCSR996VHB)

city: Stanford

first: ENCODE

last: DCC

address: 300 Pasteur Dr

institute: ENCODE DCC

type: Non-coding RNA profiling by high throughput sequencing

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 54 year old male's upper lobe of left lung tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: Single cell transcriptomics defines human islet cell signatures and reveals cell-type-specific expression changes in type 2 diabetes

city: Farmington

first: Michael

last: Stitzel

state: CT

address: 10 Discovery Drive

institute: The Jackson Laboratory

summary:
This SuperSeries is composed of the SubSeries listed below.

Grant ID: Award No. W81XWH-16-1-0130
Grant title: Peer Reviewed Medical Research Program
Funding Source: Assistant Secretary of Defense for Health Affairs
Affiliation: Jackson Laboratory for Genomic Medicine, Farmington, CT
Name: Michael Stitzel

overall_design: Refer to individual Series


title: Transcriptomes of mouse N-Myc drived B-Acute-Lymphoblastic-Leukemia (B-ALL) leukemia cells treated with fasting

city: Dallas

first: Alec

last: Zhang

state: Texas

address: 5901 Forest Park Rd

department: Physiology

institute: UT Southwestern Medical Center

summary: We reported that fasting completely inhibits the development of Acute Lymphoblastic Leukemia (ALL) in mouse models, by inducing a rapid differentiation and clearance of ALL cells. To determine the underlying mechanisms, we transplanted N-Myc expressed lineage negative  (Lin-) fetal live cells with a GFP reporter into mice to initiate B-ALL development. At the middle stage of B-ALL development when GFP+% in PB reached about 60%, the B-ALL mice were fasted 1-day or 2-days. GFP+B220+ B-ALL cells from 1-day, 2-day fasted mice and control mice were collected by flow cytometry for RNA-seq analysis.

overall_design: 3 samples, including B-ALL leukemia cells from the bone marrow of 1-day fasted, 2-day fasted and control B-ALL mice, were collected for RNA-seq with duplication.

first: Chengcheng

first: Zhigang

last: Lu

first: Jingjing

last: Xie


title: shRNA RNA-seq from HepG2 (ENCSR995JMS)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against HNRNPM. (HNRNPM_BGHLV30)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR995RPB)

summary:
shRNA knockdown against SUPV3L1 in HepG2 cells followed by RNA-seq. (SUPV3L1_BGHLV17)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR992JGE)

summary:
shRNA knockdown against METAP2 in HepG2 cells followed by RNA-seq. (METAP2_BGHLV16)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: siRNA RNA-seq from K562 (ENCSR989NEA)

summary:
RNA-seq on K562 cells treated with siRNA targeting TBL1XR1.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from lower leg skin (ENCSR991HIR)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 53 year old female's skin of the lower leg tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from hepatocyte (ENCSR985XGK)

summary:
The libraries contained in this experiment come from stem cells that were differentiated down a hepatocytic pathway. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: Verification of the quality of the retroviral cDNA library composed of 176 proto-oncogenes and HOX genes

status: Public on Nov 10 2016

city: Seoul

first: Hee Yong

last: Chung

address: FTC Building 12th Fl. Hanengdangdong 17

department: Biomedical Science

country: South Korea

institute: Hanyang University

summary: We constructed retroviral cDNA library of 176 proto-oncogenes and HOX genes to screen for the leukemia initiating gene combinations. The present submission is the NGS data of the PCR products of the whole inserts from the library itself and the bone marrow cells infected with retroviral library

overall_design: The cDNA inserts were amplified from the plasmid library and also from the genomic DNA of the bone marrow cells transduced with the retroviral cDNA library. The usage of the individual cDNA was scored by the read numbers (FPKM value).

first: Hee

middle: Y

first: Suhwa

last: Jang


title: shRNA RNA-seq from K562 (ENCSR984CLJ)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against KIAA1967. (KIAA1967_BGKLV25)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from ovary (ENCSR983ICQ)

summary:
The library contained in this experiment come from human female gonad tissue. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RNA-seq data is shaped in characteristic ways by polymerase processivities

city: Loughborough

first: Nathan

last: Archer

state: East Midlands

address: Sutton Bonington

department: School of Veterinary Medicine and Sciences

country: United Kingdom

institute: University of Nottingham

summary: We present here an integrated framework that allows inference of enzyme reactions during library preparation and which predicts characteristic coverage shapes for different protocols. Analysis of several existing (sc)RNA-seq datasets confirms our model and reveals polymerase processivities as mechanistic origins of the resulting coverage shapes. We show how correction factors are necessary for proper RNA-seq-based mRNA quantification. Finally, we demonstrate the sensitivity of our methodology in inferring increased processivities at lowered reaction temperatures, suggesting possible improvements to existing protocols. Our findings have broad implications for existing and future RNA-seq experiments.

overall_design: Temperature variations during reverse transcription and analysis of the reverse transcriptase processivity using mathematical modelling.

first: Mark

middle: D

last: Walsh

first: Vahid

last: Shahrezaei

first: Daniel

last: Hebenstreit


title: Stochastic anomaly of methylome but persistent SRY hypermethylation in disorder of sex development in canine somatic cell nuclear transfer

city: Shenzhen

first: Desheng

last: Gong

address: No.7 PengFei road

country: China

institute: Agricultural Genomes Institute at Shenzhen

type: Methylation profiling by high throughput sequencing

summary: To infer potential epigenetic variations during SCNT procedure that could occur and lead to abnormal sex-reversal phenotype, we performed whole genome bisulfite sequencing (WGBS) on DNAs extracted from primary fibroblast cells isolated from seven dog samples. These samples include two normal donors, two sex-reversed cloned dogs, one sex-reversed re-cloned dog as well as a pair of independent replicate samples taken as controls

overall_design: Comparing between sex-reversal SCNT-generated dogs with their original donors

first: Young-Hee

last: Jeong

first: Woo

middle: S

last: Hwang

first: Fei

last: Gao


title: siRNA RNA-seq from K562 (ENCSR977SOT)

first: ENCODE

summary:
RNA-seq on K562 cells treated with siRNA targeting CEBPZ.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR998MZP)

summary:
shRNA knockdown against PRPF8 in HepG2 cells followed by RNA-seq. (PRPF8_BGHLV17)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR978CSQ)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against PKM2. (PKM2_BGKLV21-B)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from limb (ENCSR968QHO)

summary:
Total RNA-seq on 10ng of embryonic 10.5 day mouse limb

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR968BBQ)

summary:
Control shRNA against no target in HepG2 cells followed by RNA-seq. (NT_BGHLV22B)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: siRNA RNA-seq from K562 (ENCSR965CCM)

summary:
RNA-seq on K562 cells treated with siRNA targeting ZNF384.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: small RNA-seq from upper lobe of left lung (ENCSR961FIG)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 51 year old female's upper lobe of left lung tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: small RNA-seq from sigmoid colon (ENCSR968DMR)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 54 year old male's sigmoid colon tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR960MSV)

summary:
Control shRNA against no target in HepG2 cells followed by RNA-seq. (NT_BGHLV27B)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR958NDU)

summary:
shRNA knockdown against HLTF in K562 cells followed by RNA-seq. (HLTF BGKLV13)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR968YWY)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against GPKOW. (GPKOW_BGHLV35)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from gastrocnemius medialis (ENCSR967JPI)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 54 year old male's skeletal muscle tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from adrenal gland (ENCSR954PZB)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 54 year old male's adrenal gland tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR964YTW)

summary:
shRNA knockdown against DDX55 in HepG2 cells followed by RNA-seq. (DDX55_BGHLV17)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from adrenal gland (ENCSR970OWZ)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 54 year old male's adrenal gland tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR963RLK)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against APOBEC3C. (APOBEC3C_BGKLV25)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from fibroblast of arm (ENCSR949PHV)

summary:
The libraries contained in this experiment come from independent growths of skin fibroblasts from the PGP1 donor. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR958KSY)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against AKAP8. (AKAP8_BGHLV27)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR954HAY)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against SART3. (SART3_BGKLV24_B)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from hindbrain (ENCSR943LKA)

summary:
Total RNA-seq on 10ng of embryonic 10.5 day mouse hindbrain

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR945GUR)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against NAA15. (NAA15_BGKLV32)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR945XKW)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against PUM1. (PUM1-BGHLV23)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR973QSV)

summary:
shRNA knockdown against AATF in K562 cells followed by RNA-seq. (AATF BGKLV13)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR943LIB)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against SNRNP200. (SNRNP200_BGKLV28)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR942MBU)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against ILF3. (ILF3-BGHLV22)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from right lobe of liver (ENCSR941SAZ)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 53 year old female's right lobe of liver tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR942UNX)

summary:
RNA-seq on K562 cells treated with a control shRNA against no target. (K-NT-30B)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR936VPP)

summary:
RNA-seq on K562 cells treated with a control shRNA against no target. (k562-shC)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR936TED)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against POLR2G. (K-POLR2G-30B)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from Peyer's patch (ENCSR954YVZ)

summary:
The library contained in this experiment come from human ileum tissue. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: polyA mRNA RNA-seq from HepG2 (ENCSR931WGT)

summary:
Initial cytosolic fractions on HepG2 Long Poly-A+ from Lecuyer

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from adrenal gland (ENCSR930XIH)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 53 year old female's adrenal gland tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR927XBT)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against NUSAP1. (NUSAP1_BGKLV21)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from esophagus squamous epithelium (ENCSR930RDW)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 51 year old female's esophagus mucosa tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR925SYZ)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against BOP1. (BOP1_BGHLV35)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR921KDS)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against RCC2. (RCC2_BGKLV21)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR927SLP)

summary:
shRNA knockdown against LIN28B in HepG2 cells followed by RNA-seq. (LIN28B_BGHLV18)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR946OFN)

summary:
shRNA knockdown against TROVE2 in HepG2 cells followed by RNA-seq. (TROVE2_BGHLV16)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: small RNA-seq from spleen (ENCSR917CQJ)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 37 year old male's spleen tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR913ZWR)

summary:
shRNA knockdown against DDX52 in HepG2 cells followed by RNA-seq. (DDX52_BGHLV16)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR911DGK)

summary:
shRNA knockdown against TFIP11 in K562 cells followed by RNA-seq. (TFIP11_BGKLV19)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR910YNJ)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against PABPC1. (PABPC1-BGHLV22)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR925RNE)

summary:
shRNA knockdown against SERBP1 in K562 cells followed by RNA-seq. (SERBP1_BGKLV19)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR910ECL)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against UTP3. (UTP3_BGHLV33)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR907UTB)

summary:
shRNA knockdown against DAZAP1 in K562 cells followed by RNA-seq. (DAZAP1 BGKLV13)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR905HID)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against FMR1. (FMR1-BGHLV23)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR898OPN)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against RBM17. (RBM17_BGKLV29-B)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR898NWE)

summary:
Control shRNA against no target in K562 cells followed by RNA-seq

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR896MMU)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against MSI2. (MSI2_BGHLV30)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from spleen (ENCSR900SGE)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 53 year old female's spleen tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR891DYO)

summary:
shRNA knockdown against PES1 in K562 cells followed by RNA-seq. (PES1_BGKLV19)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR896CFV)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against SF3B1. (SF3B1_BGHLV35)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR929PXS)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against CEBPZ. (CEBPZ_BGHLV30)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR927TSP)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against TIAL1. (TIAL1_BGKLV21)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR891AXF)

summary:
shRNA knockdown against SSB in K562 cells followed by RNA-seq. (SSB BGKLV13)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from GM12878 (ENCSR889TRN)

summary:
RNA-seq of GM12878 bulk prep 10 ng

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: microRNA-seq from testis (ENCSR915GVH)

summary:
miRNA-seq on human testis

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from HepG2 (ENCSR887ZSY)

summary:
Initial membrane fractions on HepG2 Long Total from Lecuyer

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: small RNA-seq from uterus (ENCSR887HNW)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 51 year old female's uterus tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from spleen (ENCSR887SSW)

summary:
The library contained in this experiment come from human spleen tissue. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from esophagus muscularis mucosa (ENCSR883KJV)

summary:
The library contained in this experiment come from human muscle layer of esophagus tissue. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR902WSK)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against SSRP1. (SSRP1_BGKLV29)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR883BXR)

summary:
shRNA knockdown against LSM11 in HepG2 cells followed by RNA-seq. (LSM11_BGHLV18)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: small RNA-seq from sigmoid colon (ENCSR882DFF)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 51 year old female's sigmoid colon tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR885YOI)

summary:
shRNA knockdown against CSTF2 in K562 cells followed by RNA-seq. (CSTF2_BGKLV19)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR880DEH)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against PNPT1. (PNPT1-BGHLV22)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from adrenal gland (ENCSR880BIV)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 37 year old male's adrenal gland tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: microRNA-seq from right lobe of liver (ENCSR875UFE)

summary:
miRNA-seq on human right lobe of liver

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: siRNA RNA-seq from K562 (ENCSR874ZXG)

summary:
RNA-seq on K562 cells treated with siRNA targeting E2F4.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR912EHP)

summary:
shRNA knockdown against PES1 in HepG2 cells followed by RNA-seq. (PES1_BGHLV17)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR871BXO)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against STIP1. (STIP1-BGHLV22)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from glomerular endothelial cell (ENCSR878EUT)

summary:
The libraries contained in this experiment come from independent isolates of primary renal glomerular endothelial cells (HGC).  They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from suprapubic skin (ENCSR862RGX)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 37 year old male's suprapubic skin tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR874DVZ)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against GLRX3. (GLRX3_BGKLV34)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from testis (ENCSR866SRG)

summary:
The library contained in this experiment come from human testis tissue. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: small RNA-seq from gastroesophageal sphincter (ENCSR866ZSG)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 51 year old female's esophagogastric junction tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR866XLI)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against LARP4. (LARP4_BGKLV28)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from HepG2 (ENCSR862HPO)

summary:
Initial cytosolic fractions on HepG2 Long Total from Lecuyer

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from K562 (ENCSR860DWK)

summary:
Initial cytosolic fractions on K562 Long Total from Lecuyer

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from epithelial cell of proximal tubule (ENCSR861MQP)

summary:
The libraries contained in this experiment come from epithelial cells of proximal tubule (HRPTE piC). They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from K562 (ENCSR885DVH)

summary:
Initial total fractions on K562 Long Total from Lecuyer

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from tibial nerve (ENCSR858QEL)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 53 year old female's tibial nerve tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from sigmoid colon (ENCSR857WJK)

summary:
The libraries contained in this Experiment come from tissue sub-sections from the sigmoid colon obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: small RNA-seq from sigmoid colon (ENCSR880LXP)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 37 year old male's sigmoid colon tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from hepatocyte (ENCSR859HWB)

summary:
hepatocyte

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR856CJK)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against DDX55. (DDX55_BGKLV21)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR856ZRV)

summary:
Control shRNA against no target in HepG2 cells followed by RNA-seq. (NT_BGHLV17)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from transverse colon (ENCSR855GRG)

summary:
The library contained in this experiment come from human transverse colon tissue. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from stomach (ENCSR853WOM)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 51 year old female's stomach tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR853PBF)

summary:
shRNA knockdown against DHX30 in HepG2 cells followed by RNA-seq. (DHX30-32-BGHLV20)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from SK-N-DZ (ENCSR852KOV)

summary:
The libraries contained in this experiment come from cytoplasmic fractions of a neuroblastoma immortalized cell line SK-N-DZ derived from a metastatic site in the bone marrow of a 2 year old female. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR851KEX)

summary:
shRNA knockdown against PPIL4 in HepG2 cells followed by RNA-seq. (PPIL4-BGHLV20)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from right atrium auricular region (ENCSR877SCS)

summary:
The library contained in this experiment come from human right cardiac atrium tissue. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from gastrocnemius medialis (ENCSR853BNH)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 37 year old male's skeletal muscle tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR850FEH)

summary:
shRNA knockdown against GRWD1 in HepG2 cells followed by RNA-seq. (GRWD1_BGHLV18)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR874ZLI)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against CCDC124. (CCDC124_BGKLV32)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from megakaryocyte progenitor cell (ENCSR848LXY)

summary:
PSU mouse megakaryocyte progenitor cell (CFU-Meg) 1 ng RNA-seq

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR844QNT)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against PPP1R8. (PPP1R8_BGKLV28)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR843LYF)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against YTHDC2. (YTHDC2_BGKLV28)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from cardiac atrium fibroblast (ENCSR936TYP)

summary:
The libraries contained in this experiment come from independent isolates of cardiac atrium fibroblast primary cell type (HCF-aa). They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from GM12878 (ENCSR843RJV)

summary:
RNA-seq of GM12878 bulk prep 100 pg

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from testis (ENCSR841EQJ)

summary:
The library contained in this experiment come from human testis tissue. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from upper lobe of left lung (ENCSR839ZDH)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 54 year old male's lung tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from ovary (ENCSR841ADZ)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 53 year old female's ovary tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from thoracic aorta (ENCSR837ZLY)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 54 year old male's aorta tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR838SMC)

summary:
shRNA knockdown against RPS5 in HepG2 cells followed by RNA-seq. (RPS5_BGHLV18)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from OCI-LY7 (ENCSR855LXJ)

summary:
The libraries contained in this experiment come from independent growths of cell line Oci-Ly-7, a peripherial blood sample from a 48 year old male with Non-Hodgkin lymphoma. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from Karpas-422 (ENCSR836WAX)

summary:
The libraries contained in this experiment come from independent growths of cell line Karpas-422. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR835RMN)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against GRSF1. (GRSF1_BGKLV29-B)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR837QDN)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against SUGP2. (SUGP2_BGHLV27)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR829EFL)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against NSUN2. (NSUN2_BGKLV34)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from sigmoid colon (ENCSR827IXS)

summary:
The libraries contained in this Experiment come from tissue sub-sections from the sigmoid colon obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from sigmoid colon (ENCSR833XGD)

summary:
The library contained in this experiment come from human sigmoid colon tissue. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR825QXH)

summary:
shRNA knockdown against PARN in HepG2 cells followed by RNA-seq. (PARN-BGHLV20)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR850PWM)

summary:
shRNA knockdown against ZRANB2 in K562 cells followed by RNA-seq. (ZRANB2 BGKLV13)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from NCI-H460 (ENCSR824YLV)

summary:
The libraries contained in this experiment come from cytoplasmic fractions of immortalized cell line NCI-H460 derived from a large cell lung carcinoma of a 37 year old male.  They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: single cell RNA-seq from cerebellar granule layer (ENCSR822EWO)

summary:
LCMD-503,504_Mm_Castaneus_x_C57Bl-granule-layer-area-dissection

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR820ROH)

summary:
shRNA knockdown against SERBP1 in HepG2 cells followed by RNA-seq. (SERBP1_BGHLV16)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR823WTA)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against KIF1C. (KIF1C_BGKLV32)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from tibial nerve (ENCSR848OYH)

summary:
The library contained in this experiment come from human tibial nerve tissue. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR815JDY)

summary:
shRNA knockdown against CSTF2 in HepG2 cells followed by RNA-seq. (CSTF2_BGHLV17)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR813NZP)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against SRFBP1. (SRFBP1_BGKLV21)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR815CVQ)

summary:
Control shRNA against no target in K562 cells followed by RNA-seq. (NT BGKLV13)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from HepG2 (ENCSR813BDU)

summary:
Initial insoluble cytoplasmic fractions on HepG2 Long Total from Lecuyer

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from H4 (ENCSR850NOP)

summary:
The libraries contained in this experiment come from independent growths of cell line H4 isolated from a neuroglioma of a 37 year old caucasian male. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: microRNA-seq from lower leg skin (ENCSR819AXA)

summary:
miRNA-seq on human lower leg skin

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR810JYX)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against SUCLG1. (SUCLG1-BGHLV23)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR809ISU)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against AKAP8L. (AKAP8L_BGKLV32)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from sigmoid colon (ENCSR812AKX)

summary:
The libraries contained in this Experiment come from tissue sub-sections from the sigmoid colon obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR812EIA)

summary:
shRNA knockdown against EXOSC9 in K562 cells followed by RNA-seq. (EXOSC9 BGKLV13)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR810FHY)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against UPF2. (UPF2_BGKLV21-B)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from embryonic facial prominence (ENCSR809VYL)

summary:
Total RNA-seq on 10ng of embryonic 10.5 day mouse embryonic facial prominence

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from Peyer's patch (ENCSR802HPM)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 37 year old male's small intestine tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from stomach (ENCSR792XFE)

summary:
The library contained in this experiment come from human stomach tissue. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: siRNA RNA-seq from K562 (ENCSR793ISR)

summary:
RNA-seq on K562 cells treated with siRNA targeting BACH1.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from adrenal gland (ENCSR801MKV)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 51 year old female's adrenal gland tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR788YGG)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against RPS3A. (RPS3A_BGKLV24_B)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from transverse colon (ENCSR800WIY)

summary:
The libraries contained in this Experiment come from tissue sub-sections from the transverse colon obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from tibial nerve (ENCSR796HLX)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 37 year old male's tibial nerve tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR795VAK)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against CPEB4. (CPEB4_BGKLV25)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR788HVK)

summary:
shRNA knockdown against EIF3D in HepG2 cells followed by RNA-seq. (EIF3D_BGHLV16)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR807ODB)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against AKAP8L. (AKAP8L_BGHLV31)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR808FBR)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against DDX5. (DDX5_BGHLV30)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR794NUE)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against HNRNPA2B1. (HNRNPA2B1_BGKLV28)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR783YSQ)

summary:
shRNA knockdown against RTF1 in K562 cells followed by RNA-seq. (RTF1 BGKLV13)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR812TLY)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against AGGF1. (AGGF1_BGKLV32)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR782MXN)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against SFPQ. (SFPQ_BGHLV26)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: single cell RNA-seq from Purkinje cell (ENCSR805QYO)

summary:
LCMD-501,502_Mm_Castaneus_x_C57Bl-Purkinje-30-pool

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from SK-N-DZ (ENCSR786DTS)

summary:
The libraries contained in this experiment come from independent growths of cell line SK-N-DZ, a metastatic neuroblastoma from a 2 year old female. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: microRNA-seq from ovary (ENCSR782FPG)

summary:
miRNA-seq on human female gonad

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR781YNI)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against SRSF5. (SRSF5-BGHLV23)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from gastroesophageal sphincter (ENCSR779OWH)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 51 year old female's esophagogastric junction tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: small RNA-seq from esophagus squamous epithelium (ENCSR779BVZ)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 51 year old female's esophagus mucosa tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR784FTX)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against KHDRBS1. (KHDRBS1-BGHLV22)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: small RNA-seq from vagina (ENCSR812JEU)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 53 year old female's vagina tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR783LUA)

summary:
shRNA knockdown against PRPF6 in K562 cells followed by RNA-seq. (PRPF6 BGKLV13)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR778WPL)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against HNRNPAB. (HNRNPAB_BGKLV24_B)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR778SIU)

summary:
shRNA knockdown against SUPV3L1 in K562 cells followed by RNA-seq. (SUPV3L1_BGKLV19)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR778RWJ)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against XPO5. (XPO5-BGHLV22)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR777EDL)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against STAU1. (STAU1_BGKLV29)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR775TMW)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against BOP1. (BOP1_BGKLV36)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR771ZZL)

summary:
RNA-seq on K562 cells treated with a control shRNA against no target. (K-NT-25B)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR770OWW)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against LARP7. (LARP7_BGKLV21)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from esophagus muscularis mucosa (ENCSR750ETS)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 54 year old male's esophagal muscle tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR767LLP)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against RBFOX2. (RBFOX2_BGHLV26)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from adrenal gland (ENCSR754WLW)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 53 year old female's adrenal gland tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR769GES)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against HNRNPA2B1. (HNRNPA2B1-BGHLV23)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR770LYW)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against SAFB2. (SAFB2_BGKLV24)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR755KOM)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against FUBP3. (FUBP3-BGHLV12)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR754RJA)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against NUFIP2. (NUFIP2_BGKLV34)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from induced pluripotent stem cell (ENCSR748GVH)

summary:
induced pluripotent stem cell

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR760EGM)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against RBM39. (RBM39_BGHLV26)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from stomach (ENCSR752UNJ)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 53 year old female's stomach tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR762FEO)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against LSM11. (LSM11_BGKLV21)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR776SXA)

summary:
Control shRNA against no target in HepG2 cells followed by RNA-seq. (NT_BGHLV30B)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from skeletal muscle myoblast (ENCSR765LMM)

summary:
The libraries contained in this experiment come from independent growths of skeletal myoblasts. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR745WVZ)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against PUM1. (PUM1-BGKLV25)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR744YVR)

summary:
shRNA knockdown against PSIP1 in HepG2 cells followed by RNA-seq. (PSIP1_BGHLV18)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR771QMJ)

summary:
shRNA knockdown against GEMIN5 in HepG2 cells followed by RNA-seq. (GEMIN5_BGHLV16)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: siRNA RNA-seq from K562 (ENCSR756JGE)

summary:
Control siRNA against no target in K562 cells followed by RNA-seq.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from adrenal gland (ENCSR743LXD)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 51 year old female's adrenal gland tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR744PAQ)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against LARP4. (LARP4_BGHLV20)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from midbrain (ENCSR764OPZ)

summary:
Total RNA-seq on 10ng of embryonic 10.5 day mouse midbrain

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from gastroesophageal sphincter (ENCSR740YMS)

summary:
The libraries contained in this Experiment come from tissue sub-sections from the esophagogastric junction obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR732ICL)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against HNRNPU. (K-HNRNPU)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from upper lobe of left lung (ENCSR738HKC)

summary:
The library contained in this experiment come from human upper lobe of left lung tissue. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR741YCA)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against TBRG4. (TBRG4_BGHLV27)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: small RNA-seq from upper lobe of left lung (ENCSR737NPO)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 53 year old female's upper lobe of left lung tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR728BOL)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against FASTKD1. (FASTKD1-BGHLV22)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from heart (ENCSR724SZY)

summary:
The library contained in this experiment come from heart tissue from a 34 year old adult. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR717SJA)

summary:
shRNA knockdown against XRN2 in K562 cells followed by RNA-seq. (XRN2_BGKLV19)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: microRNA-seq from body of pancreas (ENCSR723WQE)

summary:
miRNA-seq on human pancreas

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR720BPO)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against HNRNPA0. (HNRNPA0-BGHLV22)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR715XZS)

summary:
shRNA knockdown against XRCC5 in K562 cells followed by RNA-seq. (XRCC5 BGKLV13)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from omental fat pad (ENCSR729CAZ)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 37 year old male's adipose tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from ascending aorta (ENCSR719PXC)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 53 year old female's aorta tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR710NWE)

summary:
shRNA knockdown against IGF2BP3 in HepG2 cells followed by RNA-seq. (IGF2BP3-BGHLV12)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from gastrocnemius medialis (ENCSR710LGT)

summary:
The library contained in this experiment come from human skeletal muscle tissue. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR711ZJQ)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against RBM47. (RBM47-BGHLV22)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from tibial nerve (ENCSR706VZW)

summary:
The library contained in this experiment come from human tibial nerve tissue. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from subcutaneous adipose tissue (ENCSR708VVE)


title: small RNA-seq from Peyer's patch (ENCSR718AXQ)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 53 year old female's ileum tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA < 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR713OLV)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against ATP5C1. (ATP5C1_BGHLV30)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR746NIM)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against HNRNPM. (HNRNPM_BGKLV29)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR706SXN)

summary:
shRNA knockdown against RPL23A in HepG2 cells followed by RNA-seq. (RPL23A_BGHLV18)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from prostate gland (ENCSR701TST)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 54 year old male's prostate tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from thyroid gland (ENCSR700YLA)

summary:
The library contained in this experiment come from human thyroid gland tissue. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from sigmoid colon (ENCSR698NAQ)

summary:
The library contained in this experiment come from human sigmoid colon tissue. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR701GSV)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against MTPAP. (MTPAP_BGHLV35)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from Daoy (ENCSR700NMZ)

summary:
The libraries contained in this experiment come from independent growths of cell line Daoy isolated from the cerebellar region of a 4 year old caucasian male with desmoplastic cerebellar medulloblastoma. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from K562 (ENCSR696YIB)

summary:
Initial insoluble fractions on K562 Long Total from Lecuyer

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR697GLD)

summary:
shRNA knockdown against SRSF4 in K562 cells followed by RNA-seq. (SRSF4 BGKLV13)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR691IVR)

summary:
Control shRNA against no target in HepG2 cells followed by RNA-seq. (NT_BGHLV33)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR712CSN)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against EIF4G1. (EIF4G1_BGKLV24)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR689PHN)

summary:
Control shRNA against no target in HepG2 cells followed by RNA-seq. (NT_BGHLV16)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR693MZJ)

summary:
shRNA knockdown against HNRNPF in HepG2 cells followed by RNA-seq. (HNRNPF-BGHLV20)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR695XOD)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against CUGBP1. (CUGBP1-BGHLV23)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR689ZJC)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against HNRNPUL1. (HNRNPUL1_BGHLV26)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR689MIY)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against UPF1. (UPF1_BGHLV33)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR681SMT)

summary:
shRNA knockdown against PHF6 in HepG2 cells followed by RNA-seq. (PHF6_BGHLV18)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: RAMPAGE from esophagus muscularis mucosa (ENCSR679TCM)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 51 year old female's muscle layer of esophagus tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RAMPAGE libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from gastrocnemius medialis (ENCSR678TMV)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 53 year old female's skeletal muscle tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR678WOA)

summary:
RNA-seq on K562 cells treated with an shRNA knockdown against RBM39. (RBM39_BGKLV28)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: total RNA-seq from thyroid gland (ENCSR687HJY)

summary:
The libraries contained in this Experiment come from tissue sub-sections of a 51 year old female's thyroid gland tissue section obtained from GTEx. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Total RNA > 200 nucleotides in size.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR685JXU)

summary:
shRNA knockdown against RCC2 in HepG2 cells followed by RNA-seq. (RCC2_BGHLV18)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR676EKU)

summary:
RNA-seq on HepG2 cells treated with an shRNA knockdown against CPSF6. (CPSF6_BGHLV35)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from HepG2 (ENCSR684HTV)

summary:
shRNA knockdown against UCHL5 in HepG2 cells followed by RNA-seq. (UCHL5_BGHLV17)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: microRNA-seq from heart left ventricle (ENCSR688RNO)

summary:
miRNA-seq on human heart left ventricle

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf


title: shRNA RNA-seq from K562 (ENCSR678MVE)

summary:
shRNA knockdown against UCHL5 in K562 cells followed by RNA-seq. (UCHL5_BGKLV19)

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf