title: Single-cell transcriptomics of microglia isolated from the hypothalamic/thalamic region of E15.5 brains under control and stressed conditions

city: Calgary

first: Jeff

last: Biernaskie

state: Alberta

address: 3330 Hospital Drive NW

department: Comparative Biology and Experimental Medicine

country: Canada

institute: University of Calgary

summary: Microglia are the resident phagocytic immune cells of the central nervous system (CNS). In the embryo, microglia invade the CNS during early embryogenesis and continue to colonize alongside neural development. Microglia also mature across development, altering their morphology and expression signatures from embryonic to adult stages, suggesting differing roles for microglia in the developing brain than in the adult. While microglia were originally thought to be resting immune cells responsible for cleaning up cellular debris, studies are now showing that microglia are highly dynamic cells involved in proper postnatal development of the brain and adult neuronal plasticity. Although reports suggest that microglia in the embryonic brain are responsive to maternal stress, causing changes in neural development that lead to autistic- and schizophrenic-like behaviours later in life, the actual effects of microglia on embryonic developmental programs are just emerging. Our lab studies the hypothalamus, a brain region that controls a variety of physiologies including energy balance, reproduction, and even parenting behaviors, and it is also responsive to maternal stress. Interestingly, my previous work has shown that that the hypothalamus is uniquely comprised of at least two distinct populations of microglia. The first group of microglia are ramified, and appear to be passively surveying the hypothalamic mantle. The second cluster of microglia is amoeboid and activated, and are located adjacent to the ventricular zone (VZ) where hypothalamic neural progenitor cells (NPCs) reside. Given that this second group of microglia is in direct contact with NPCs, we hypothesize that microglia located in the VZ of the hypothalamus play an important role during embryonic development to organize the neurons and neuronal connections required for proper hypothalamic function. In order to identify the expression profiles of microglia in the VZ as compared to microglia present in the mantle of the hypothalamus, we extracted microglia from the brains of CD1 embryos and employed single-cell RNAseq. Specifically, we micro-dissected out the hypothalamic/thalamic region of E15.5 brains, created a single-cell suspension that was stained with Cd11b-PE / Cd45-FITC to mark microglia, and then used FACS to extract microglia from our mixed cell suspension. We then performed single-cell RNAseq on the microglia to determine the transcriptomic phenotype of these two populations either in a control condition or following maternal stress, where pregnant dams were exposed to a mild cold stress for 30 min a day over 5 days.

overall_design: To isolate microglia from the hypothalamic/thalamic region of the E15.5 control and E15.5 stressed (pregnant dams were exposed to a mild cold stress over 5 days), we generated a single-cell suspensions and stained with Cd11b-PE / Cd45-FITC. We FACS collected viable PE / FITC double positive cells at E15.5 from the hypothalamic/thalamic region of the brain. The sample was processed according to 10X Genomics ChromiumTM Single Cell v3 10X Gene expression solution Chip B as per the manufacturer’s protocol. In brief, single cells were sorted into 100% FBS and partitioned into Gel Bead-In-EMulsions (GEMs) using 10xTM GemCodeTM Technology. This process lysed cells and enabled barcoded reverse transcription of RNA, generating full-length cDNA from poly-adenylated mRNA. DynaBeads® MyOneTM Silane magnetic beads were used to remove leftover biochemical reagents, then cDNA was amplified by PCR over 10 cycles. Quality control size gating was used to select cDNA amplicon size prior to library construction. Read 1 primer sequences were added to cDNA during GEM incubation. P5 primers, P7 primers, i7 sample index, and Read 2 primer sequences were added during library construction. Quality control and cDNA quantification was performed using Agilent High Sensitivity DNA Kit. We recovered 1,156 cells from E15.5 control brains (hypothalamic/thalamic tissue pooled from 10 embryos) and 1,467 cells from E15.5 stressed brains (hypothalamic/thalamic tissue pooled from 5 embryos), with an estimated doublet rate of ~3-4%. Based on this, we determined lane distributions for sequencing using Illumina HiSeq 4000 PE (75 bp paired-end reads) with a targeted sequencing depth of ~100,000 reads/cell.

first: Rosin

last: Jessica

first: Sinha

last: Sarthak

first: Biernaskie

last: Jeff

first: Kurrasch

last: Deborah


title: Transcriptome analysis of stomatal lineage ground cells (SLGCs)

status: Public on Apr 05 2021

city: Taipei

first: Chin-Min

middle: Kimmy

last: Ho

address: No. 128 Sec2 Academia Rd

department: IPMB

country: Taiwan

institute: Academia Sinica

type: Expression profiling by high throughput sequencing

summary:
Purpose: Identify SLGC cell fate by transcriptomes
Methods: Cells expressing SLGC markers (BASLp:BRX-YFP, BASLp:myrBRX-YFP and myrBRXp:myrBRX-YFP) and stomatal commitment stage marker (MUTEp:MUTE-YFP) were collected by FACS. 9dpg plants were used for protoplasting and subjected to cell sorting. Around 20,000/sample were cellected and used for library preparation.
Results: SLGCs are renriched in mitotic genes. In addition, top candidates, DEK and MYB16 proteins function in SLGC cell divisions.
Conclusions: SLGCs are division competent cells and the coordination of cell cycle and transcriptional regulation though DEK is important for maintaining the transition (SLGC) state during stomatal development.

overall_design: SLGC mRNA profiles of 9dpg seedlings were generated by deep sequencing, in duplicates, using Illumina HiSeq.

middle: K

first: Dominique

last: Bergmann


title: Identification of potential genes in upper tract urothelial carcinoma by using next-generation sequencing combined with bioinformatics analysis and in vitro study

status: Public on Apr 06 2021

city: Kaohsiung

first: Hsiang

middle: Ying

last: Lee

address: Jhonghua 3rd Rd

institute: Kaohsiung Municipal Ta-Tung Hospital

type: Non-coding RNA profiling by high throughput sequencing

summary: Prognostic biomarkers including microRNAs(miRNAs) and genes in upper tract urothelial carcinomas (UTUCs) originating from the renal pelvis and ureter account for only 5% to 10% of all UCs, but this figure is markedly higher in Taiwan, where it can reach up to 30%. By using next-generation sequencing (NGS), we analysed two pairs of renal pelvis tumours and adjacent normal urothelial tissues to screen miRNAs and messenger RNAs. By combining bioinformatics analysis from miRmap, Gene Expression Omnibus (GEO), and Oncomine and Ingenuity® Pathway Analysis databases, we identified candidate genes. To search upstream miRNAs with exact target binding sites, we used miRmap, TargetScan, and miRDB to enforce evidence. Then, we clarified gene and protein expression through an in vitro study. After interaction of the selected target genes obtained using the NGS and miRmap methods were analysed through a Venn diagram analysis, six potential genes—namely, PDE5A, RECK, ZEB2, NCALD, PLCXD3, CYBRD1—presenting significant differences were distinguished. Further analysis of gene expression indicated lower expression of that PDE5A, RECK, ZEB2, and CYBRD1 in bladder cancer tissue than in normal bladder mucosa, which indicated that PDE5A, RECK, ZEB2, and CYBRD1 may act as tumour suppressors in UTUC. In addition, we identified putative oncomiRs in miR-181c-5p target sites on PDE5A, miR-200c-3p target sites on RECK, and miR-200bc-3p/429 target sites on ZEB2. Compared with normal tissue, lower PDE5A expression in tumour specimens was demonstrated in paired UTUC tissues (normal and tumour) from 20 patients. Our findings suggest that both candidate miRNAs and regulated genes may play crucial roles in UTUC progression. We propose that these markers may be potential targets in both diagnostic and therapeutic strategies as clarified by in vitro and in vivo experiments. PDE5A also potentially presents tumour suppressor genes, as identified by comparing the expression between normal and tumour specimens from 10 patients.

overall_design: We analysed two pairs of renal pelvis tumours and adjacent normal urothelial tissues to screen miRNAs and messenger RNAs.

first: Hsiang-Ying

first: Ching-Chia

last: Li

first: Wei-Ming

first: Ya-Ling

last: Hsu

first: Hsin-Chih

last: Yeh

first: Hung-Lung

last: Ke

first: Bi-Wen

first: Chun-Nung

last: Huang

first: Chien-Feng

first: Po-Lin

last: Kuo

first: Wen-Jeng

last: Wu


title: The chromatin accessibility landscape reveals distinct transcriptional regulation in the induction of human primordial germ cell-like cells from pluripotent stem cells

status: Public on Apr 07 2021

city: Munster

first: Veeramohan

last: Veerapandian

state: North Rhine-Westphalia

address: Röntgenstr. 20

department: Department Tissue Morphogenesis

country: Germany

institute: Max Planck Institute for Molecular Biomedicine

type: Genome binding/occupancy profiling by high throughput sequencing

summary: The  accessibility chromatin patterns during hPGCLCs undergo a diverse changes in absence of SOX15. The consequence of these changes lead to a somatic gene network activation that leads to decrease hPGCLC at late stage

overall_design: We analyzed the acessible genome profiles in human primordial germ cell like cells (hPGCLCs) comparing to SOX15-/-


title: Agrin promotes coordinated therapeutic processes leading to improved cardiac repair in pigs

city: Rehovot

first: Eldad

last: Tzahor

address: 234 Herzl Street

country: Israel

institute: Weizmann Institute of Science

summary: RNA-seq comparing Agrin effect on injured heart, 3 days post MI

overall_design: For this experiment, 4 animals for each experimental group were used (Sham, MI+PBS, WT MI, MI+ Agrin). RNA Seq libraries were made and barcoded, and subsequently subjected to 61bp single read illumina sequencing, using Illumina's HiSeq2500 machine.

first: Kfir

middle: B

last: Umansky

first: Elad

last: Bassat

first: David

last: Kain


title: Arid1a-Plagl1-Hh signaling is indispensable for differentiation-associated cell cycle arrest of tooth root progenitors [ChIP-Seq]

status: Public on Apr 04 2021

city: Shanghai

first: Jiahui

last: Du

address: Zhizaoju Road 639

country: China

institute: Shanghai Jiao Tong University

summary: We show that loss of Arid1a impairs the differentiation-associated cell cycle arrest of tooth root progenitors through Hh signaling regulation, leading to shortened roots. Our data suggest that Plagl1, as a cofactor, endows Arid1a with its cell type/spatial functional specificity.

overall_design: We detected the tooth development in Gli1-CreER;Arid1afl/fl mice conditional knockout mouse models

first: Yang

last: Chai


title: Arid1a-Plagl1-Hh signaling is indispensable for differentiation-associated cell cycle arrest of tooth root progenitors [RNA-Seq]


title: Subversion of host innate immunity by Rickettsia australis via a modified autophagic response in macrophages

city: Galveston

first: Rong

last: Fang

state: Texas

address: 301 University Blvd

department: Pathology

country: USA

institute: utmb

summary: We recently reported that the in vitro and in vivo survival of Rickettsia australis are Atg5-dependent, in association with an inhibited level of anti-rickettsial cytokine, IL-1β. In the present study, we sought to investigate how R. australis interacts with host innate immunity via an Atg5-dependent autophagic response. We found that the serum levels of IFN-γ and G-CSF in R. australis-infected Atg5flox/floxLyz-Cre mice were significantly less compared to Atg5flox/flox mice, accompanied by significantly lower rickettsial loads in tissues with inflammatory cellular infiltrations including neutrophils. R. australis infection differentially regulated a significant number of genes in bone marrow-derived macrophages (BMMs) in an Atg5-depdent fashion as determined by RNA sequencing and Ingenuity Pathway Analysis, including genes in the molecular networks of IL-1 family cytokines and PI3K-Akt-mTOR. The secretion levels of inflammatory cytokines, such as IL-1α, IL-18, TNF-α, and IL-6, by R. australis-infected Atg5flox/floxLyz-Cre BMMs were significantly greater compared to infected Atg5flox/flox BMMs. Interestingly, R. australis significantly increased the levels of phosphorylated mTOR and P70S6K at a time when the autophagic response is induced. Rapamycin treatment nearly abolished the phosphorylated mTOR and P70S6K but did not promote significant autophagic flux during R. australis infection. These results highlight that R. australis modulates an Atg5-dependent autophagic response, which is not sensitive to regulation by mTORC1 signaling in macrophages. Overall, we demonstrate that R. australis counteracts host innate immunity including IL-1β-dependent inflammatory response to support the bacterial survival via an mTORC1-resistant autophagic response in macrophages.

overall_design: RNA-seq analysis (next-generation sequencing on R. australis-infected bone marrow-derived macrophages of Atg5 flox/flox mice and Atg5 flox/flox Lyz-Cre mice at 24 h p.i. .

first: Jeremy

middle: R

last: Bechelli

first: Claire

middle: S

last: Rumfield

first: Steven

last: Widen

middle: H

last: Walker

first: Kamil

last: Khanipov


title: Arid1a-Plagl1-Hh signaling is indispensable for differentiation-associated cell cycle arrest of tooth root progenitors [ATAC-Seq]


title: SARS-CoV-2 infection in pregnancy is associated with robust inflammatory response at the maternal-fetal interface

status: Public on Apr 03 2021

city: West Haven

first: Arun

middle: Rajendra

last: Chavan

state: CT

address: 850 West Campus Drive

department: Ecology and Evolutionary Biology

institute: Yale University

summary: Pregnant women appear to be at increased risk for severe outcomes associated with COVID-19, but the pathophysiology underlying this increased morbidity and its potential impact on the developing fetus is not well understood. In this study of pregnant women with and without COVID-19, we assessed viral and immune dynamics at the placenta during maternal SARS-CoV-2 infection. Amongst uninfected women, ACE2 was detected by immunohistochemistry in syncytiotrophoblast cells of the normal placenta during early pregnancy but was rarely seen in healthy placentas at full term. Term placentas from women infected with SARS-CoV-2, however, displayed a significant increase in ACE2 levels. Using immortalized cell lines and primary isolated placental cells, we determined the vulnerability of various placental cell types to direct infection by SARS-CoV-2 in vitro. Yet, despite the susceptibility of placental cells to SARS-CoV-2 infection, viral RNA was detected in the placentas of only a subset (∼13%) of women in this cohort. Through single cell transcriptomic analyses, we found that the maternal-fetal interface of SARS-CoV-2-infected women exhibited markers associated with pregnancy complications, such as preeclampsia, and robust immune responses, including increased activation of placental NK and T cells and increased expression of interferon-related genes. Overall, this study suggests that SARS-CoV-2 is associated with immune activation at the maternal-fetal interface even in the absence of detectable local viral invasion. While this likely represents a protective mechanism shielding the placenta from infection, inflammatory changes in the placenta may also contribute to poor pregnancy outcomes and thus warrant further investigation.

overall_design: Analysis of single-cell RNA-seq data from decidua and placental villi of control and SARS-CoV-2-positive samples.

first: Alice

last: Lu-Culligan

first: Shelli

middle: F

last: Farhadian


title: Co-infection of H9N2 influenza A virus and Escherichia coli in a BALB/c mouse model aggravates lung injury by synergistic effects

status: Public on Apr 08 2021

city: Fuzhou

first: Song

last: Wang

state: Fujian

address: Cangshan District

institute: Fujian Agriculture and Forestry University

summary: Pathogens that cause respiratory diseases in poultry are very complicated, and co-infections with multiple pathogens are prevalent. The H9N2 strain of avian influenza virus (AIV) and Escherichia coli (E. coli) are common poultry pathogens that limit the development of the poultry industry. This study aimed to clarify the interaction between these two pathogens and their pathogenic mechanism using a mouse model. Co-infection with H9N2 AIV and E. coli significantly increased the mortality rate of mice compared to single viral or bacterial infections. It also led to the development of more severe lung lesions compared to single viral or bacterial infections. Co-infection further causes a storm of cytokines, which aggravates the host’s disease by regulating the STAT/SOCS and ERK1/2 pathways. Moreover, co-infection mutually benefited the virus and the bacteria by increasing their multiplication rates. Importantly, nitric oxide synthase 2 (NOS2) expression was also significantly enhanced by the co-infection. It played a key role in the rapid proliferation of E. coli in the presence of the coinfecting H9N2 virus. Therefore, our study underscores the role of NOS2 as a determinant for bacteria growth and illustrates its importance as an additional mechanism that enhances influenza virus-bacteria synergy. It further provides a scientific basis for investigating the synergistic infection mechanism between viruses and bacteria.

overall_design: LncRNA profiles of lung tissues of mice in the Mock, H9N2 AIV, E. coli, and co-infection group

first: Ning

last: Jiang

first: Xiaojuan

last: Chi

first: Ji-Long

last: Chen


title: TSPO ameliorated the liver fibrosis in  non-alcoholic fatty liver disease mice

city: Los Angeles

first: Lu

last: Li

state: CA

address: Room 706, 1985 Zonal Ave

department: School of Pharmacy

institute: University of Southern California

summary: The 18-kDa translocator protein TSPO is a conserved ubiquitous high affinity cholesterol binding protein localized in the outer mitochondrial membrane. It plays a critical role in the segregation and transport of cholesterol from the outer to the inner mitochondrial membrane in steroidogenic cells. Imaging studies in humans, using specific TSPO ligands, showed that TSPO is highly expressed and accurately mirrors the histological picture of non-alcoholic fatty liver disease (NAFLD)/nonalcoholic steatohepatitis (NASH). However, the functions of TSPO in simple steatosis (SS) and NASH are unknown. In the present study, we examined the TSPO functions with in vivo NAFLD model. To induce NASH in vivo, we fed the WT and TSPO KO rat with MCD (methionine-choline deficient) diet. Loss of TSPO ameliorated the liver fibrosis through down regulation of bile acid synthesis by reduction of CYP7A1 and CYP27A1 and increase of farnesoid X receptor (FXR).

first: Yuchang

first: Chantal

middle: M

last: Sottas

first: Vassilios

last: Papadopoulos


title: A comprehensive transcriptome signature of murine hematopoietic stem cell aging

status: Public on Apr 02 2021

city: Groningen

first: Leonid

last: Bystrykh

state: Groningen

address: A. Deusinglaan 1

department: European Research Institute for the Biology of Ageing - ERIBA

country: Netherlands

institute: University Medical Center Groningen

summary: We have performed ATAC-seq in highly purified Hematopoeitic Stem cells (HSC, LSK/SLAM) from young (4-5mo) and old (20-24mo) C57BL/6J in order to investigate differences in chromatin accessible sites between these 2 groups.

overall_design: Investigation of age-specific chromatin accessible sites in LSK/SLAM cells

first: Arthur

last: Svendsen


title: Transcriptomic analysis by RNA-seq unveils distinct gene expression profile of U397 cells depleted of NSPs

city: Stanford

first: Purvesh

last: Khatri

state: California

address: 279 Campus Dr. Beckman Center B235A

department: BMIR

institute: Stanford University

summary: Characterization of transcriptomic changes associated with genetic ablation of three neutrophil serine proteases (CTSG, ELANE, PRTN3). U937 cells depleted of CTSG, ELANE, and PRTN3 simultaneously (ΔNSPs) were generated using the CRISPR-Cas9 system and sgRNAs. RNA-Seq analysis revealed transcriptomic changes between control cells and ΔNSPs, with 170 and 220 genes up- or down-regulated respectively.

overall_design: RNA-Seq analysis of three control lines of U937 cells and three independent clones of ΔNSPs U937 cells

first: Peggie

last: Cheung

last: Schaffert

first: Sarah

middle: E

last: Chang

first: Elizabeth

middle: D

last: Mellins

first: Paul

middle: J

last: Utz

first: Alex

last: Kuo


title: ATAC-seq of human lung cell types

city: Boston

first: Christopher

last: Benway

state: MA

address: 300 Longwood Ave, Enders 510

department: Nephrology

institute: Children's Hospital

summary: We report the application of the assay for transposase-accessible chromatin using sequencing (ATAC-seq) for the profiling of open chromatin human primary lung cell types implicated in lung disease pathology, such as chronic obstructive pulmonary disease. We generated chromatin accessibility profiles for human primary bronchial epithelial cells, small airway epithelial cells, alveolar type II pneumocytes, and lung fibroblasts using Omni-ATAC-seq. We further profiled open chromatin in a commonly used bronchial epithelial cell line (16HBE14o-) to   evaluate the correlation with primary cell profiles and confirm the technical improvements using Omni-ATAC-seq vs Fast-ATAC-seq. We used these profiles to evaluate the enrichment of COPD risk variants in lung-specific open chromatin regions (OCRs) and generated cell type-specific regulatory predictions for >6,500 variants corresponding to 82 COPD GWAS loci.

overall_design: ATAC-seq profiles of 4 primary normal human lung cell types (alveolar type II pneumocytes, small airway epithelial cells, large airway [bronchial] epithelial cells, and lung fibroblasts) and 1 immortalized bronchial epithelial cell line (16HBE14o-). The complete data set contains a total of 14 samples.

first: C


title: The Mediator complex kinase module is necessary for fructose regulation of liver glycogen levels through induction of glucose-6-phosphatase catalytic subunit (G6pc)

city: Bronx

first: Jeffrey

last: Pessin

state: NY

address: 1301 Morris Park Avenue

department: Medicine and Molecular Pharmacology

institute: Albert Einstein College of Medicine

summary: Liver glycogen levels are dynamic and highly regulated by nutrient availability as the levels decrease during fasting and are restored during the feeding cycle. However, feeding in the presence of fructose in water suppressed glycogen accumulation in the liver by up-regulating the expression of glucose-6-phosphatase catalytic subunit (G6pc) gene although the exact mechanism is unknown. We generated liver specific knockout of MED13 mice that lack the transcriptional Mediator complex kinase module to examine its effect on transcriptional activation of inducible target gene expression, such as the ChREBP- and FOXO1-dependent control of the G6pc gene promoter.

overall_design: The relative changes in liver expression of lipogenic and gluconeogenic genes as well as glycogen levels were examined in response to fed standard low fat laboratory chow supplemented with water, or water containing sucrose or fructose in control (Med13fl/fl) and liver-specific MED13 knockout (MED13-LKO) mice.

first: Dou

middle: Y

last: Youn

first: Alus

last: Xiaoli

first: Haihong

last: Zong

first: Junichi

last: Okada

first: Li

last: Liu

first: Jacob

first: Fajun

last: Yang


title: Assay for Transposase-Accessible Chromatin using sequencing (ATAC-seq) analysis of U937 cells depleted of NSPs

summary: ATAC-Seq was used to investigate the impact of genetic ablation of neutrophil serine proteases CTSG, ELANE, and PRTN3 on chromatin dynamics and accessibility. Differential analysis identified thousands of peaks with elevated accessibility in independent ΔNSP clones relative to controls.

overall_design: ATAC-Seq analysis of three control lines of U937 cells and three independent clones of ΔNSPs U937 cells

first: Steven


title: RNA-seq of SFB-tetramer+ cells

status: Public on Apr 01 2021

city: New York

first: Daniel

middle: Fernando

last: Zegarra-Ruiz

address: 417 E 68th Street

institute: Memorial Sloan Kettering Cancer Center

summary: Humans and their microbiota have coevolved a mutually beneficial relationship, with the human host providing a hospitable environment for the microbes, and the microbiota providing many benefits including nutritional benefits and protection from pathogen infection1. Maintaining this relationship requires careful immune balance to contain commensals within the lumen while limiting inflammatory anti-commensal responses1,2. A number of groups describe T cell antigen-specific recognition of intestinal microbes3,4. While the local environment shapes effector cell differentiation3–5 it is unclear how microbiota-specific T cells are educated in the thymus. Here we identify that early life intestinal colonization leads to trafficking of microbial antigens from the intestine to the thymus by intestinal dendritic cells (DCs) which then expand microbiota-specific T cells. Once in the periphery, microbiota-specific T cells have pathogenic potential, or can protect against related pathogens. In this way, the developing microbiota shapes and expands the thymic and peripheral T cell repertoire, allowing for enhanced recognition of intestinal microbes and pathogens.

overall_design: 5 control (uncolonized SFP B6, CTRL)and 3 experimental (SFB-Tetramer+ SPF B6, TET) samples were analyzed. Each sample was a pool of 10 mice thymi.

first: Matthew

middle: L

last: Bettini

first: Gretchen

last: Diehl


title: Protein quality and quantity influence the effect of dietary fat on weight gain and tissue partitioning via host-microbiota changes

city: Fermoy

first: Kanishka

last: Nilaweera

state: Co. Cork

address: Moorepark

department: Food Biosciences

country: Ireland

institute: Teagasc Food Research Centre

summary:
Purpose: Dietary fat-driven hyperphagia increase intestinal growth and permeability and create microbial imbalance in the gut. Over-nutrition coupled with increase in intestinal nutrient absorbance capacity then lead to nutrient overload in the liver, visceral adipose tissue followed by ectopic fat deposition with consequential lipotoxicity and inflammation. We investigated how protein quantity (10-30%) and quality (casein and whey) interact with dietary fat (20-55%) to affect these outcomes in adult mice. High (30%) protein groups showed differential response to high fat diets (40 and 55% fat) and these groups were selected for RNA-seq experiments. RNA-seq was performed on RNA extracted from the jejunum, liver and hypothalami of mice exposed to the different diets.
Methods: C57BL/6J male mice used in this work. All mice were fed a 20% kcal casein, 10% kcal fat and 70% kcal carbohydrate diet (Research Diets; USA; D12450Bi), until they were aged 20 weeks. Following 15 weeks of intake of the latter diet (at age 20 weeks), all animals were weight matched and randomly allocated to different groups and switched to experimental diets for 12 weeks. After 12 weeks of dietary interventions all animals were sacrificed and dissected.
Methods: The dietary treatments consisted of 3 different levels of dietary fat (20, 40 and 55%) combined with 3 different levels of protein (10, 20 and 30%), each replicated with the protein coming from either casein (CAS) (diet codes: D17052701- D17052709) or whey protein isolate (WPI) (diet codes: D17052710- D17052718). The levels of cellulose and sucrose were fixed at 5% by weight and energy respectively. The carbohydrate (starch) amount was reduced in parallel with increase of dietary protein and fat. All these diets can be ordered direct from research diets (www.researchdiets.com) using the diet codes provided. The 18 different treatments with 12 mice per group, where mice were housed in cages of 3 animals.
Methods: The hypothalamus, liver, and jejunum of all animals from 30% protein groups (6 diets [D17052703, D17052706, D17052709, D17052712, D17052715, D17052718], 71 animals) were collected. Total RNA was extracted from hypothalamic blocks using Tri-reagent (Sigma) and from liver and jejunum using the RNeasy Mini Kit (QIAGEN, 74104) according to manufacture instructions. Hypothalamic RNA was paired-end (PE) sequenced by PE100 on BGISEQ-500 platform at Beijing Genomic Institute (PE 2 x 75 bp, 150 bp per fragment, 20M read-pairs per sample). Sequencing of liver and jejunal RNA was performed using the NovaSeq 6000 platform (chemistry V4.0 Illumina) at Macrogen Inc Seoul, South Korea (PE 2 x 75 bp, 150 bp per fragment, 25M read-pairs per sample). Raw sequence reads were obtained in FASTQ format and these sequence reads were quality assessed using the software FastQC (v 0.111.58; http://www.bioinformatics.babraham.ac.uk/projects/fastqc/). Sequences from all samples were quality trimmed, and cleaned of adaptor sequences using BBDuk java package to trim Illumina adapter sequences. On average 0.1% of the bases were trimmed per sample. Trimmed reads were aligned to the Mus musculus reference genome assembly GRCm38 (ftp://ftp.ensembl.org/pub/release-96/fasta/mus_musculus/dna/) using STAR RNA-seq aligner v2.5.2, and uniquely mapped read counts per Ensembl annotated gene/ transcript were estimated using the STAR -- quantMode option. Genes with zero read counts across all samples as well as non-protein coding genes were removed prior to subsequent analysis. Differential gene expression analysis and data transformations and visualization were carried out using DeSeq2 v1.18.1 in R 3.5.2. Sample clustering was carried out on variance stabilizing transformed data and visualised using PCA. Differentially expressed genes lists were generated using a negative binomial generalized linear model and pairwise comparisons using each combination of fat and protein content in each tissue. P values were adjusted for multiple comparisons using a Benjamini and Hochberg (B-H) method. DE genes with an adjusted P value < 0.05 were used for further DE gene data exploration and pathway analysis. The fold changes and p values were loaded into the Ingenuity Pathway Analysis (IPA) program (Ingenuity Systems; http://www.ingenuity.com/) for core analysis. IPA Knowledge Database was used to analyse the dietary impacts on canonical pathways and upstream regulators available in IPA.
Results: Differential gene expression and IPA results revealed that jejunal immunity of the high (30%) CAS fed groups at 40 and 55% fat was oriented toward pro-inflammatory responses, whereas the corresponding WPI fed groups showed a reduction of inflammation. The liver transcriptome reveals genes involved in FA/lipid uptake and synthesis to be upregulated and genes involved in FA/lipid degradation were downregulated following a proportional increase of dietary fat (20 to 55%) in 30% CAS fed animals and these effects were not seen in WPI fed animals. In the hypothalamus, the intake of 40 and 55% fat significantly increased the number of differentially expressed genes compared to 20% fat. The effect of protein quality on hypothalamic gene expression (CAS vs WPI) was only seen at the highest fat content (55%), where several changes in signalling pathways were seen in WPI relative to CAS. These include a decreased reactive oxygen species production, reduction interleukin and chemokine inflammatory pathways and increased oxidative phosphorylation compared with mice fed CAS and 55% fat.
Conclusions: Analysis of jejunal, liver and hypothalamic transcriptomic revealed that the intake of high WPI impeded the negative effects of high fat feeding (increased lipogenesis in the liver, inflammation, activation of disease-related pathways etc.), whereas the intake of high CAS exacerbated these effects. The data highlight the importance of selecting proteins rich in essential amino acids, for improving the metabolic outcomes of high fat diet.

overall_design: Jejunum, liver, hypothalamus samples.

first: Wiley

last: Barton

first: Oleksandr

last: Nychyk

first: Yolanda

last: Piotrowicz

first: Serena

last: Boscaini

first: Aaron

last: Walsh

first: Thomaz

last: Bastiaanssen

first: Linda

last: Giblin

last: Cormican

first: Liang

last: Chen

first: Davina

last: Derous

first: Áine

last: Fanning

first: Xiaofei

last: Yin

first: Jim

last: Grant

first: Agata

last: Rudolf

first: Silvia

last: Melgar

first: Lorraine

last: Brennan

first: Sharom

last: Mitchell

first: John

last: Cryan

first: Jun

last: Wang

last: Cotter

last: Speakman


title: Ae. aegypti dyspepsia (AAEL000471) is involved in mosquito iron homeostasis and is critical for reproductive fitness

city: College Station

first: Zach

last: Adelman

state: TX

address: 370 Olsen Blvd

department: Entomology

institute: Texas A&M University

summary: As a key vector for the major arthropod-borne viruses (arboviruses), such as dengue, Zika and chikungunya, control of Aedes aegypti represents a major challenge in public health. Bloodmeal acquisition is necessary for the reproduction of vector mosquitoes and pathogen transmission. Blood contains potentially toxic amounts of iron while it provides nutrients for mosquito offspring; disruption of iron homeostasis in the mosquito may therefore lead to a novel control strategies. We previously described a potential iron exporter in Ae. aegypti after a targeted functional screen of ZIP and ZnT family genes. In this study, we performed an RNAseq-based screen in an Ae. aegypti cell line cultured under iron-deficient and iron-excess conditions. A subset of differentially expressed genes were analyzed via a cytosolic iron-sensitive dual-luciferase reporter assay with several gene candidates potentially involved in iron transport. In vivo gene silencing resulted in significant reduction of fecundity (egg number) and fertility (hatch rate) for one gene, AAEL000471. Consistent with a role in iron homeostasis, ferritin expression in the midgut was reduced upon silencing of AAEL000471. Silencing of AAEL000471 also resulted in delayed/impaired excretion and digestion. Together these studies increase our understanding of gene regulatory networks controlling iron homeostasis in bloodfeeding mosquitoes, and suggest new targets for vector control based on the disruption of this critical process.

overall_design: 9 samples, 3 replicates of each type of sample.  The cL15 without FBS sample is the reference sample

first: Hitoshi

last: Tsujimoto

first: Michelle

middle: A

last: Anderson

first: Heather

last: Eggleston

first: Kevin

last: Myles

middle: N


title: SARS-CoV-2 utilizes a multipronged strategy to suppress host protein synthesis

first: Noam

last: Stern-Ginossar

address: 234 herzel

department: Molecular Genetics

institute: Weizmann Institute

summary: Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is the cause of the ongoing coronavirus disease 19 (COVID-19) pandemic. Despite the urgent need, we still do not fully understand the molecular basis of SARS-CoV-2 pathogenesis and its ability to antagonize innate immune responses. Here, we use RNA-sequencing and ribosome profiling along SARS-CoV-2 infection and comprehensively define the mechanisms that are utilized by SARS-CoV-2 to shutoff cellular protein synthesis. We show SARS-CoV-2 infection leads to a global reduction in translation but that viral transcripts are not preferentially translated. Instead, we reveal that infection leads to accelerated degradation of cytosolic cellular mRNAs which facilitates viral takeover of the mRNA pool in infected cells. Moreover, we show that the translation of transcripts whose expression is induced in response to infection, including innate immune genes, is impaired, implying infection prevents newly transcribed cellular mRNAs from accessing the ribosomes. Overall, our results uncover the multipronged strategy employed by SARS-CoV-2 to commandeer the translation machinery and to suppress host defenses.

overall_design: To gain a detailed view of the changes that occur in viral and host translation over the course of SARS-CoV-2 infection, we applied ribosome profiling and RNA-sequencing to Calu3 cells infected with SARS-CoV-2 as well as uninfected cells. The cells were infected with SARS-CoV-2 BavPat1/2020 Ref-SKU: 026V-03883 at a multiplicity of infection ( MOI ) of 3, resulting in infection of the majority of the cells, and harvested at 3, 5, and 8 hours post infection ( hpi ) . For each time point, we monitored transcriptome-wide translation levels by preparing ribosome profiling libraries from cells treated with the translation elongation inhibitor cycloheximide ( CHX ) . In parallel, we prepared RNA-seq libraries following poly-A selection to generate a detailed depiction of transcript levels. In addition, in order to measure total RNA levels and rRNA levels, we prepared RNA-seq libraries from total RNA without poly-A selection or rRNA depletion. Two independent biological replicates were prepared for all libraries from uninfected cells and from cells infected with SARS-CoV-2 for 8 hours.To directly evaluate mRNA decay during SARS-CoV-2 infection we employed SLAM-seq on Calu-3 cells infected with SARS-CoV-2 as well as uninfected cells. This approach allows to measure endogenous mRNA half-lives based on 4-thiouridine ( 4sU ) incorporation into new RNA during transcription. After RNA extraction, 4sU is converted to a cytosine analogue using iodoacetamide, and these U to C conversions are identified and quantified by RNA sequencing. The cells were infected with SARS-CoV-2 BavPat1/2020 Ref-SKU: 026V-03883 at a multiplicity of infection ( MOI ) of 3, resulting in infection of the majority of the cells, or left uninfected, labeled with 4sU at 3hpi and harvested at 4, 5, 6 and 7 hpi. Following iodoacetamide-conversion RNA was used to prepare poly-A selected libraries. Two biological replicates were prepared from uninfected cells and infected cells at 5hpi, following 2 hours of 4sU labeling. To test if SARS-CoV-2 interferes with nuclear mRNA export, Calu3 cells were left uninfected or infected with SARS-CoV-2 and subcellular localization of polyadenylated transcripts was assessed by cytoplasmic/nuclear (Cyto/Nuc) fractionation followed by RNA-seq. RNA was extracted from nuclear and cytoplasmic fractions in parallel to whole cell from the same samples. Two biological replicates were prepared from all samples.

first: Roni

last: Winkler

first: Avi

last: Gluck

first: Yaara

last: Finkel

first: Orel

last: Mizrahi

first: Aharon

last: Nachshon

first: Michal

last: Schwartz


title: The muscle and adipose transcriptome data from patients with PDAC cachexia

city: Portland

first: Teresa

last: Zimmers

state: OR

address: 3181 S.W. Sam Jackson Park Road

department: Cell, Developmental & Cancer Biology

institute: Oregon Health & Science University

summary: The aim of the study is to identify genes and pathways associated with muscle and adipose wasting in PDAC cachexia. Muscle and adipose were collected from same individuals to study the concurrent muscle and adipose wasting.

overall_design: Muscle and adipose tissues were taken from same individuals and were subjected to Ion Ampliseq transcriptome. The two groups are non-cancer control and patients with PDAC.  RNA was isolated from muscle and adipose and was sequenced. DeSeq2 method was used to generate Differential gene expression.

first: Ashok

last: Narasimhan

first: Brad

last: Hancock

first: Milan

last: Radovich

first: Guanglong

last: Jiang

first: Yunlong

last: Liu

first: Leonidas

middle: G

last: Koniaris


title: ChIP-seq analysis of H3[delta]N genomic localization in U937 cells,  primary monocytes, and monocyte-derived macrophages

first: Purvesh

last: Khatri

summary: ChIP-seq analysis reveals widespread H3[delta]N distribution across the genome in U937 cells, and primary monocytes, which is largely absent in fully differentiated macrophages.

overall_design: ChIP-seq analysis of i) U937 cells with two biological replicates; ii) peripheral blood monocytes from three healthy volunteers; and iii) the matching monocyte-derived macrophages from ii) using antibodies against bulk h3 or H3[delta]NThr22

first: Peggie

last: Cheung

first: Steven

last: Schaffert

first: Sarah

last: Chang

first: Elizabeth

last: Mellins

first: Paul

last: Utz

first: Alex

last: Kuo


title: Expression data from CRC patient-derived organoids

city: Koto-ku

first: Ryoji

last: Yao

state: Tokyo

address: 3-8-31 Ariake

country: Japan

institute: The JFCR-Cancer Institute

summary:
Colorectal cancer (CRC) is a commonly occurring cancer worldwide. Metastasis and recurrence are the major causes of cancer-related death. CRC progression is a multistep process, and extensive efforts have been made to identify the genomic and transcriptomic alterations that occur during this process. However, whether primary tumors and metastatic lesions possess distinct biological features remains unclear.
We established 74 patient-derived organoids (PDOs) from primary tumors and patient-matched metastatic and recurrent lesions.

overall_design: CRC PDOs were isolated for RNA extraction and hybridization on Affymetrix microarrays. In addtion to 74 PDOs, two organoids derived from nomal mucosa  were included.


title: Transcriptional Response to Dauer-Inducing Ascarosides in Late L1 in C. elegans

status: Public on Mar 30 2021

city: Pasadena

last: Cohen

address: 257 S. Hudson Ave, Unit 108

department: Biology and Bioengineering

institute: California Institute of Technology

summary: There are two steps in the C. elegans decision to enter the dauer-diapause lifestage. The first is a choice between L2 and L2d and the second is between L3 and dauer. We studied the transcriptional changes when well-fed worms were given a cocktail of dauer-inducing ascarosides in the late L1 phase as opposed to worms that received no such treatment. This study was done in both N2 wild-type worms, and daf-22 worms, which lack an enzyme necessary to produce endogenous ascarosides.

overall_design: Transcriptional response of late L1 stage worms to a cocktail of ascr#2, ascr#3, and ascr#8 in in both N2 and daf-22 backgrounds.

first: Jessica

last: Sun

first: Frank

middle: C

last: Schroeder

middle: W

last: Sternberg


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR697FME)

first: ENCODE

last: DCC

address: 300 Pasteur Dr

institute: ENCODE DCC

summary: 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: TF ChIP-seq from HepG2 (ENCSR697WMX)

summary:
ChIP-Seq on HepG2

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: DNase-seq from omental fat pad (ENCSR693UHT)


title: TF ChIP-seq from HepG2 (ENCSR695SLS)


title: Genome-Wide Analysis of Gene expression in the Pituitary Gland of the Pregnant Dam

city: London

first: Ruben

last: Esse

address: Guy's Hospital, Great Maze Pond

department: Department of Medical and Molecular Genetics

country: United Kingdom

institute: King’s College London

summary: Analysis of gene expression in the pituitary gland of pregnant versus non-pregnant dams. We describe the dynamic control of pituitary gene expression in the pregnant mother, with implications for the regulation of maternal metabolic adaptations to pregnancy.

overall_design: Females (c57BL6/J strain) from independent litters were randomly allocated to the mating (n = 8) or virgin (n = 4) groups. Females were mated with c57BL6/J studs the day of the vaginal plug was recorded, and the gravid females were sacrificed at e15.5 by terminal anaesthesia. The whole pituitary was removed from the skull and immediately snap frozen, then stored at −80 °C. RNA was extracted and processed for gene expression profiling.

first: Marika

last: Charalambous


title: TF ChIP-seq from K562 (ENCSR525VAT)

summary:
eGFP-JUNB ChIP-seq on human K562

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: TF ChIP-seq from K562 (ENCSR699RWG)

summary:
eGFP-ZNF215 ChIP-seq on human K562

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: TF ChIP-seq from K562 (ENCSR692RET)

summary:
eGFP-NR4A1 ChIP-seq on human K562

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: Genome-wide binding sites for Arabidopsis ATH1

status: Public on Mar 31 2021

city: NORWICH

first: Robert

last: Sablowski

state: Norfolk

address: The John Innes Centre

department: CDB

institute: JIC

summary: The Arabidopsis thaliana ATH1 encodes a BEL1-like TALE homeodomain (BLH) transcription factor that controls the development of shoot organ boundaries. As part of a screen for genes that mediate the function of ATH1 in shoot development, we performed ChIP-seq to identify genome-wide ATH1 binding sites in developing seedlings.

overall_design: Plants expressing GFP-tagged ATH1 (pATH1:ATH1-GFP in ath1-3 backgound) were used for ChIP-seq with anti-GFP antibodies; wild-type controls (Col) were used as epitope-negatve controls.

first: Stefano

last: Bencivenga


title: TF ChIP-seq from HepG2 (ENCSR690FIA)


title: TF ChIP-seq from HepG2 (ENCSR689JMN)


title: DNase-seq from placenta (ENCSR689FYA)


title: DNase-seq from Peyer's patch (ENCSR689DSM)


title: DNase-seq from heart right ventricle (ENCSR694LFE)


title: Heat-induced transcriptional memory profiled in human K562 erythroleukemia cells [PRO-seq]

city: Stockholm

first: Anniina

last: Vihervaara

address: Tomtebodavägen 23A

department: Gene Technology

country: Sweden

institute: KTH Royal Institute of Technology

summary: Precision run-on sequencing (PRO-seq) of nascent RNA synthesis across the human genome. The PRO-seq data was generated from human K562 erythroleukemia cells that were either unconditioned (unCond) or preconditioned with a single heat shock exposure (preC). After two day recovery from the preconditioning, during which the cells underwent two mitotic divisions, the cells were additionally subjected to a single heat shock to measure nascent transcription in response to heat shock in unconditioned versus preconditioned cells.

overall_design: Genome-wide nascent transcription profiles from human K562 cells that were either unconditioned (uC) or preconditioned with a single heat shock exposure (pC). The kinetics of heat-induced reprogramming were compared between uncoditioned and preconditioned cells measured after a 48h recovery.

first: John

middle: T

last: Lis


title: DNase-seq from posterior cingulate gyrus (ENCSR694DOX)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR686LOE)


title: Promoter G-quadruplex folding precedes transcription and is controlled by chromatin

city: Manchester

first: Angela

last: Simeone

address: 200 Hathersage Rd

institute: Genomic Services QIAGEN

summary: Four stranded DNA G-quadruplex (G4) structures are common features of the human genome that are primarily found in active promoters associated with elevated transcription. Here, we explore the relationship between the folding of G4s in promoters, transcription and chromatin state. Transcriptional inhibition by DRB or by triptolide reveals that promoter G4 formation, as assessed G4 ChIP-seq, is not reliant on transcriptional activity. Establishing a link between G4 formation and chromatin accessibility, we demonstrate that chromatin compaction leads to loss of promoter G4s accompanied by a corresponding loss of RNA polymerase II (Pol II). Furthermore, pre-treatment of cells with a G4-stabilising ligand can mitigate Pol II loss at promoters induced by chromatin compaction. Overall, our findings show that G4 formation is fostered in accessible chromatin and does not require active transcription. Furthermore, our findings suggest that G4s have a role to recruit Pol II to promote transcription.

overall_design:
K562 cells profiling by G4-ChIP-seq upon DRB, TPL; K562 cells profiling by G4-ChIP-seq, Pol2-ChIP-seq and Atac-seq upon pyPDS, Hypoxia, Hypoxia plus pyPDS or DMSO, Normoxia plus pyPDS or DMSO.
U2OS cells profiling by G4-ChIP-seq in Hypoxia and Normoxia in triplicates.

first: Jiazhen

last: Shen

first: Dhaval

last: Varshney

first: David

last: Tannahill

first: Shankar

last: Balasubramanian


title: TF ChIP-seq from HepG2 (ENCSR692GFR)


title: DNase-seq from placenta (ENCSR685PCS)


title: DNase-seq from head of caudate nucleus (ENCSR688AWP)


title: DNase-seq from head of caudate nucleus (ENCSR682ZZT)


title: DNase-seq from gastrocnemius medialis (ENCSR686WJL)


title: DNase-seq from head of caudate nucleus (ENCSR677XGD)


title: DNase-seq from sciatic nerve (ENCSR672MOG)


title: TF ChIP-seq from HepG2 (ENCSR673GDQ)


title: DNase-seq from HFFc6 (ENCSR672EWY)


title: DNase-seq from central memory CD4-positive, alpha-beta T cell (ENCSR671ZRV)


title: TF ChIP-seq from HepG2 (ENCSR672BSA)


title: DNase-seq from head of caudate nucleus (ENCSR671YPX)


title: Arid1a-Plagl1-Hh signaling is indispensable for differentiation-associated cell cycle arrest of tooth root progenitors

city: Shanghai

first: Jiahui

last: Du

address: Zhizaoju Road 639

institute: Shanghai Jiao Tong University

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

overall_design: Refer to individual Series


title: DNase-seq from posterior cingulate gyrus (ENCSR670MKJ)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR670BGI)


title: TF ChIP-seq from HepG2 (ENCSR670UEX)


title: TF ChIP-seq from SK-N-SH (ENCSR667WDR)

summary:
ChIP-Seq on SK-N-SH

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: TF ChIP-seq from HepG2 (ENCSR669PVF)


title: TF ChIP-seq from HepG2 (ENCSR664FGR)


title: ATAC-seq from gastroesophageal sphincter (ENCSR670REK)

summary:
ATAC-seq on human esophagogastric junction

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: DNase-seq from CD8-positive, alpha-beta T cell (ENCSR662IRS)


title: TF ChIP-seq from HepG2 (ENCSR663CTC)


title: DNase-seq from head of caudate nucleus (ENCSR663MNQ)


title: DNase-seq from placenta (ENCSR656KLT)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR661AMM)


title: DNase-seq from left lung (ENCSR658UBE)


title: DNase-seq from head of caudate nucleus (ENCSR659JPP)


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR654WXX)


title: TF ChIP-seq from HepG2 (ENCSR661IKO)


title: TF ChIP-seq from HepG2 (ENCSR661PKJ)


title: TF ChIP-seq from HepG2 (ENCSR658YLN)


title: DNase-seq from posterior cingulate gyrus (ENCSR654GSG)


title: DNase-seq from head of caudate nucleus (ENCSR650TZF)


title: DNase-seq from upper lobe of left lung (ENCSR650FLQ)


title: TF ChIP-seq from HepG2 (ENCSR654PQY)


title: DNase-seq from CD8-positive, alpha-beta T cell (ENCSR649XRC)


title: DNase-seq from head of caudate nucleus (ENCSR649MJI)


title: DNase-seq from posterior cingulate gyrus (ENCSR652IZW)


title: TF ChIP-seq from HepG2 (ENCSR647PSR)


title: TF ChIP-seq from HepG2 (ENCSR647CXR)


title: TF ChIP-seq from HepG2 (ENCSR647BZJ)


title: DNase-seq from head of caudate nucleus (ENCSR646JBR)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR645HET)


title: DNase-seq from T-cell (ENCSR642DZF)


title: TF ChIP-seq from HepG2 (ENCSR643XPG)


title: TF ChIP-seq from HepG2 (ENCSR644WQN)


title: DNase-seq from T-cell (ENCSR635URJ)


title: DNase-seq from head of caudate nucleus (ENCSR638PZJ)


title: TF ChIP-seq from HepG2 (ENCSR635SKD)


title: TF ChIP-seq from HepG2 (ENCSR633HRJ)


title: TF ChIP-seq from HepG2 (ENCSR639UKJ)


title: TF ChIP-seq from A549 (ENCSR637RKG)

summary:
eGFP-PBX1 ChIP-seq on human A549

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: DNase-seq from T-cell (ENCSR630XDN)


title: DNase-seq from head of caudate nucleus (ENCSR629TMA)


title: DNase-seq from right lobe of liver (ENCSR628NEA)


title: DNase-seq from posterior cingulate gyrus (ENCSR628GQE)


title: DNase-seq from right cardiac atrium (ENCSR633DZW)


title: DNase-seq from T-cell (ENCSR631XIF)


title: DNase-seq from T-cell (ENCSR627QIA)


title: ATAC-seq from GM12878 (ENCSR637XSC)

summary:
ATAC-seq on human cell line GM12878

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: DNase-seq from CD8-positive, alpha-beta memory T cell (ENCSR625WLB)


title: DNase-seq from lower lobe of left lung (ENCSR632ONQ)


title: TF ChIP-seq from K562 (ENCSR625ZVM)

summary:
Chip-Seq on K562

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: DNase-seq from T-helper 17 cell (ENCSR623PVB)


title: DNase-seq from right cardiac atrium (ENCSR622HTS)


title: ATAC-seq from tibial artery (ENCSR630REB)

summary:
ATAC-seq on human tibial artery

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: DNase-seq from lung (ENCSR627NIF)

summary:
DNase-seq on 58 day old fetal male human lung tissue

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: TF ChIP-seq from HepG2 (ENCSR625XAV)


title: DNase-seq from retina (ENCSR621ENC)

summary: 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: TF ChIP-seq from HepG2 (ENCSR622AMZ)

summary:
ChIP-Seq on HepG2

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: TF ChIP-seq from K562 (ENCSR619UPN)

summary:
eGFP-ZNF133 ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR620DBD)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR617SVO)


title: TF ChIP-seq from HepG2 (ENCSR613RDS)


title: TF ChIP-seq from K562 (ENCSR617POJ)

summary:
eGFP-ZFP1 ChIP-seq on human K562

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: DNase-seq from right lobe of liver (ENCSR608NWP)


title: DNase-seq from posterior cingulate gyrus (ENCSR612IKQ)


title: TF ChIP-seq from HepG2 (ENCSR608XRC)


title: DNase-seq from mucosa of descending colon (ENCSR612CTW)


title: DNase-seq from effector memory CD4-positive, alpha-beta T cell (ENCSR607EJV)


title: DNase-seq from pancreas (ENCSR999VDH)


title: TF ChIP-seq from HepG2 (ENCSR607XFI)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR606QDB)


title: TF ChIP-seq from K562 (ENCSR998OMC)

summary:
eGFP-TFCP2 ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR998YJI)


title: TF ChIP-seq from K562 (ENCSR606KTL)

summary:
eGFP-ZNF239 ChIP-seq on human K562

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: DNase-seq from dorsolateral prefrontal cortex (ENCSR995YPS)


title: TF ChIP-seq from HepG2 (ENCSR612XVQ)


title: TF ChIP-seq from MCF-7 (ENCSR604WXQ)

summary:
eGFP-MSX2 ChIP-seq on human MCF-7

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: TF ChIP-seq from HepG2 (ENCSR606LDL)


title: TF ChIP-seq from HepG2 (ENCSR989QTM)


title: TF ChIP-seq from HepG2 (ENCSR999JKC)


title: DNase-seq from posterior cingulate gyrus (ENCSR987CQN)


title: TF ChIP-seq from K562 (ENCSR985OYK)

summary:
eGFP-ZBTB11 ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR604VAE)


title: TF ChIP-seq from HepG2 (ENCSR988EVQ)


title: DNase-seq from right atrium auricular region (ENCSR984SQJ)


title: TF ChIP-seq from K562 (ENCSR992KLV)

summary:
ChIP-Seq on K562

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: TF ChIP-seq from K562 (ENCSR995FUM)

summary:
eGFP-ZNF79 ChIP-seq on human K562

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: DNase-seq from head of caudate nucleus (ENCSR984SDD)


title: DNase-seq from head of caudate nucleus (ENCSR984HJW)


title: TF ChIP-seq from HepG2 (ENCSR601KKB)


title: TF ChIP-seq from HepG2 (ENCSR984IXF)


title: TF ChIP-seq from HepG2 (ENCSR621PAN)


title: TF ChIP-seq from HepG2 (ENCSR603BJQ)


title: DNase-seq from CD8-positive, alpha-beta T cell (ENCSR984HIY)


title: TF ChIP-seq from HepG2 (ENCSR983FBD)


title: DNase-seq from heart left ventricle (ENCSR598RVJ)


title: DNase-seq from posterior cingulate gyrus (ENCSR599JZA)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR982XOK)


title: TF ChIP-seq from HepG2 (ENCSR599XKG)


title: TF ChIP-seq from HepG2 (ENCSR982CFC)


title: DNase-seq from spleen (ENCSR597UIG)


title: TF ChIP-seq from HepG2 (ENCSR981BHT)


title: TF ChIP-seq from HepG2 (ENCSR983KRB)


title: DNase-seq from adrenal gland (ENCSR597NVK)


title: TF ChIP-seq from HepG2 (ENCSR597QZQ)


title: TF ChIP-seq from HepG2 (ENCSR980EGJ)


title: DNase-seq from T-cell (ENCSR597URK)


title: TF ChIP-seq from A549 (ENCSR977FEF)

summary:
eGFP-PRDM1 ChIP-seq on human A549

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: TF ChIP-seq from HepG2 (ENCSR980HGI)


title: DNase-seq from left forelimb (ENCSR976XOY)


title: DNase-seq from aorta (ENCSR595DQM)


title: TF ChIP-seq from HepG2 (ENCSR597MCV)


title: DNase-seq from head of caudate nucleus (ENCSR587SZC)


title: ATAC-seq from Panc1 (ENCSR591PIX)


title: TF ChIP-seq from K562 (ENCSR972CVS)

summary:
eGFP-ELK3 ChIP-seq on human K562

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: DNase-seq from posterior cingulate gyrus (ENCSR590EFT)


title: TF ChIP-seq from K562 (ENCSR591ASD)

summary:
eGFP-TEAD1 ChIP-seq on human K562

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: DNase-seq from head of caudate nucleus (ENCSR598RRF)


title: TF ChIP-seq from K562 (ENCSR970OJY)


title: TF ChIP-seq from HepG2 (ENCSR587BVQ)


title: TF ChIP-seq from HepG2 (ENCSR598NQU)


title: TF ChIP-seq from HepG2 (ENCSR584DEL)


title: DNase-seq from ascending aorta (ENCSR968TPO)


title: DNase-seq from effector memory CD4-positive, alpha-beta T cell (ENCSR582QEW)


title: TF ChIP-seq from HepG2 (ENCSR964ZJC)


title: DNase-seq from pancreas (ENCSR589HAC)


title: DNase-seq from posterior cingulate gyrus (ENCSR581LHW)


title: DNase-seq from T-cell (ENCSR581RSO)


title: DNase-seq from neural progenitor cell (ENCSR963ALV)

summary:
DNase-seq on 5 day embryonic female human neural progenitor 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: TF ChIP-seq from K562 (ENCSR971EWR)


title: TF ChIP-seq from HepG2 (ENCSR581KCO)


title: TF ChIP-seq from HepG2 (ENCSR959COF)


title: TF ChIP-seq from HepG2 (ENCSR580HOI)


title: TF ChIP-seq from K562 (ENCSR958JPH)

summary:
eGFP-TSHZ1 ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR398TMP)


title: TF ChIP-seq from A549 (ENCSR967ZMR)

summary:
eGFP-HOXB13 ChIP-seq on human A549

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: TF ChIP-seq from HepG2 (ENCSR583KLD)


title: TF ChIP-seq from HepG2 (ENCSR957FIZ)


title: DNase-seq from adrenal gland (ENCSR962VJO)


title: DNase-seq from T-cell (ENCSR965JHW)


title: TF ChIP-seq from K562 (ENCSR578KEN)


title: DNase-seq from T-cell (ENCSR396ZIN)


title: DNase-seq from regulatory T cell (ENCSR398CXD)


title: TF ChIP-seq from K562 (ENCSR582IAO)


title: DNase-seq from posterior cingulate gyrus (ENCSR577QZP)


title: TF ChIP-seq from K562 (ENCSR577KQD)

summary:
eGFP-ZNF507 ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR956OSX)


title: TF ChIP-seq from HepG2 (ENCSR396XDF)


title: DNase-seq from lower leg skin (ENCSR579KDC)

summary: 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: TF ChIP-seq from K562 (ENCSR959BQO)

summary:
eGFP-ZNF700 ChIP-seq on human K562

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: DNase-seq from colonic mucosa (ENCSR576UAF)


title: TF ChIP-seq from HepG2 (ENCSR960ASR)

summary:
ChIP-Seq on HepG2

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: TF ChIP-seq from HepG2 (ENCSR959XNY)


title: DNase-seq from placenta (ENCSR395EZY)


title: TF ChIP-seq from K562 (ENCSR574VJG)

summary:
eGFP-NFIX ChIP-seq on human K562

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: TF ChIP-seq from K562 (ENCSR953KEY)

summary:
eGFP-TFE3 ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR574UJE)


title: DNase-seq from ureter (ENCSR398JUP)


title: TF ChIP-seq from HepG2 (ENCSR953MMC)


title: DNase-seq from heart left ventricle (ENCSR395HAE)


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR572FSS)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR571CJM)


title: DNase-seq from spleen (ENCSR567EEO)


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR389BWT)


title: DNase-seq from placenta (ENCSR566VAK)


title: DNase-seq from T-cell (ENCSR389IHS)


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR567IWT)


title: DNase-seq from psoas muscle (ENCSR388DHS)


title: TF ChIP-seq from HepG2 (ENCSR950FIL)


title: TF ChIP-seq from HepG2 (ENCSR395MHA)


title: TF ChIP-seq from OCI-LY7 (ENCSR565XSL)


title: DNase-seq from CD4-positive naive resting alpha-beta T cell (ENCSR387EYA)


title: TF ChIP-seq from K562 (ENCSR947PJZ)

summary:
eGFP-HIVEP1 ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR949OEV)


title: DNase-seq from spleen (ENCSR946OIO)


title: TF ChIP-seq from HepG2 (ENCSR946RZN)


title: TF ChIP-seq from HepG2 (ENCSR946PKH)


title: TF ChIP-seq from K562 (ENCSR387BVC)

summary:
eGFP-DDIT3 ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR386UBO)


title: DNase-seq from heart left ventricle (ENCSR946DXB)


title: TF ChIP-seq from K562 (ENCSR199HGP)

summary:
eGFP-ZKSCAN3 ChIP-seq on human K562

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: DNase-seq from dorsolateral prefrontal cortex (ENCSR570BWW)


title: DNase-seq from T-cell (ENCSR385XHV)


title: TF ChIP-seq from K562 (ENCSR946BXO)

summary:
ChIP-Seq on K562

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: TF ChIP-seq from HepG2 (ENCSR198RHC)


title: TF ChIP-seq from HepG2 (ENCSR198BHH)


title: DNase-seq from prostate gland (ENCSR564FZH)


title: DNase-seq from CD8-positive, alpha-beta T cell (ENCSR946BPA)


title: TF ChIP-seq from HepG2 (ENCSR387TUH)


title: TF ChIP-seq from K562 (ENCSR388ZRV)

summary:
eGFP-ZNF311 ChIP-seq on human K562

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: DNase-seq from T-helper 2 cell (ENCSR197ZNW)


title: DNase-seq from mesenteric fat pad (ENCSR197BFD)


title: TF ChIP-seq from HepG2 (ENCSR563SHQ)


title: TF ChIP-seq from HepG2 (ENCSR384SQB)


title: DNase-seq from posterior cingulate gyrus (ENCSR943MRO)


title: DNase-seq from T-helper 22 cell (ENCSR944GPH)


title: DNase-seq from lung (ENCSR945JJB)


title: DNase-seq from T-helper 2 cell (ENCSR943KMD)


title: TF ChIP-seq from HepG2 (ENCSR196NVU)


title: TF ChIP-seq from HepG2 (ENCSR565BVI)


title: DNase-seq from T-cell (ENCSR198UKY)


title: TF ChIP-seq from K562 (ENCSR385IUC)

summary:
eGFP-TBX18 ChIP-seq on human K562

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: DNase-seq from CD8-positive, alpha-beta T cell (ENCSR937NLH)


title: TF ChIP-seq from HepG2 (ENCSR938VRO)


title: DNase-seq from head of caudate nucleus (ENCSR563HBG)


title: DNase-seq from posterior cingulate gyrus (ENCSR563CZB)


title: TF ChIP-seq from K562 (ENCSR376XAV)

summary:
eGFP-SMAD3 ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR196FSX)


title: TF ChIP-seq from K562 (ENCSR376UMR)

summary:
eGFP-ZNF84 ChIP-seq on human K562

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: TF ChIP-seq from K562 (ENCSR935PEA)

summary:
eGFP-CREB5 ChIP-seq on human K562

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: DNase-seq from liver (ENCSR562FNN)


title: TF ChIP-seq from HepG2 (ENCSR945QEW)


title: TF ChIP-seq from HepG2 (ENCSR935GZV)


title: TF ChIP-seq from HepG2 (ENCSR561BQM)


title: TF ChIP-seq from HepG2 (ENCSR940EZR)


title: TF ChIP-seq from HepG2 (ENCSR194NVP)


title: DNase-seq from right lobe of liver (ENCSR933GMM)


title: DNase-seq from T-cell (ENCSR934IKS)


title: TF ChIP-seq from K562 (ENCSR376RCX)

summary:
eGFP-GMEB1 ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR931ZOM)


title: DNase-seq from CD8-positive, alpha-beta T cell (ENCSR559QCM)


title: TF ChIP-seq from HepG2 (ENCSR563JME)


title: DNase-seq from head of caudate nucleus (ENCSR558SUT)


title: TF ChIP-seq from HepG2 (ENCSR931SYA)


title: DNase-seq from posterior cingulate gyrus (ENCSR195GUK)


title: DNase-seq from central memory CD4-positive, alpha-beta T cell (ENCSR556ARS)


title: DNase-seq from T-cell (ENCSR561ZLY)


title: DNase-seq from thyroid gland (ENCSR195ONB)


title: DNase-seq from ovary (ENCSR930PDT)


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR930USX)


title: TF ChIP-seq from HepG2 (ENCSR188EMJ)


title: TF ChIP-seq from HepG2 (ENCSR929IMB)


title: DNase-seq from heart right ventricle (ENCSR928WMU)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR928PKL)


title: TF ChIP-seq from K562 (ENCSR187RGF)

summary:
eGFP-ZNF695 ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR925TWM)


title: TF ChIP-seq from HepG2 (ENCSR193ADW)


title: DNase-seq from T-cell (ENCSR926SNI)


title: TF ChIP-seq from HepG2 (ENCSR559ZKI)


title: TF ChIP-seq from A549 (ENCSR190GIW)

summary:
eGFP-NR5A2 ChIP-seq on human A549

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: DNase-seq from posterior cingulate gyrus (ENCSR555DLG)

summary: 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: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR376DAE)


title: DNase-seq from T-cell (ENCSR186NTL)


title: TF ChIP-seq from GM23338 (ENCSR555KFE)

summary:
eGFP-ZNF114 ChIP-seq on human GM23338

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: TF ChIP-seq from HepG2 (ENCSR376FMN)


title: TF ChIP-seq from HepG2 (ENCSR554YEH)

summary:
ChIP-Seq on HepG2

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: TF ChIP-seq from HepG2 (ENCSR185AYQ)


title: DNase-seq from suppressor macrophage (ENCSR371CCL)


title: DNase-seq from right cardiac atrium (ENCSR374VQC)


title: TF ChIP-seq from HepG2 (ENCSR924LSO)


title: TF ChIP-seq from HepG2 (ENCSR374MAS)


title: TF ChIP-seq from K562 (ENCSR553NTC)

summary:
eGFP-ZNF134 ChIP-seq on human K562

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: DNase-seq from posterior cingulate gyrus (ENCSR924IHU)


title: DNase-seq from transverse colon (ENCSR923JYH)


title: TF ChIP-seq from HepG2 (ENCSR369TCR)


title: DNase-seq from placenta (ENCSR922YEW)


title: TF ChIP-seq from HepG2 (ENCSR923MOO)


title: TF ChIP-seq from HepG2 (ENCSR181ABP)


title: TF ChIP-seq from HepG2 (ENCSR922MQU)


title: TF ChIP-seq from HepG2 (ENCSR180MUU)


title: TF ChIP-seq from HepG2 (ENCSR367KYL)


title: DNase-seq from stomach (ENCSR177NIJ)


title: DNase-seq from placenta (ENCSR552XJI)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR921PPJ)


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR366KPR)


title: TF ChIP-seq from HepG2 (ENCSR552YWL)


title: TF ChIP-seq from HepG2 (ENCSR918OKK)


title: DNase-seq from placenta (ENCSR552RKI)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR173YSO)


title: TF ChIP-seq from HepG2 (ENCSR365YCX)


title: TF ChIP-seq from HepG2 (ENCSR173USN)


title: TF ChIP-seq from GM23338 (ENCSR918LRB)

summary:
eGFP-ZNF331 ChIP-seq on human GM23338

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: DNase-seq from ovary (ENCSR365NDK)


title: DNase-seq from posterior cingulate gyrus (ENCSR365FVU)


title: DNase-seq from head of caudate nucleus (ENCSR176BPJ)


title: TF ChIP-seq from A549 (ENCSR918GHT)

summary:
eGFP-FOSB ChIP-seq on human A549

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: DNase-seq from head of caudate nucleus (ENCSR173NHL)


title: TF ChIP-seq from HepG2 (ENCSR363ASY)


title: TF ChIP-seq from HepG2 (ENCSR173NAL)


title: TF ChIP-seq from HepG2 (ENCSR551QJT)


title: DNase-seq from T-cell (ENCSR552TPH)


title: DNase-seq from head of caudate nucleus (ENCSR916MHX)


title: DNase-seq from CD8-positive, alpha-beta T cell (ENCSR363BTB)


title: TF ChIP-seq from A549 (ENCSR171TDM)

summary:
eGFP-EHF ChIP-seq on human A549

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: TF ChIP-seq from HepG2 (ENCSR915APT)


title: ATAC-seq from mesenteric fat pad (ENCSR551CSY)

summary:
ATAC-seq on human mesenteric fat pad

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: TF ChIP-seq from HepG2 (ENCSR171KUL)


title: TF ChIP-seq from K562 (ENCSR918EFA)

summary:
eGFP-ZNF57 ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR171BKT)


title: TF ChIP-seq from HepG2 (ENCSR914HPP)


title: DNase-seq from lower leg skin (ENCSR361DND)


title: TF ChIP-seq from K562 (ENCSR549PVK)

summary:
eGFP-PATZ1 ChIP-seq on human K562

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: DNase-seq from gastrocnemius medialis (ENCSR171ADO)


title: TF ChIP-seq from HepG2 (ENCSR913ODG)


title: TF ChIP-seq from HepG2 (ENCSR169JRW)


title: TF ChIP-seq from HepG2 (ENCSR362CPB)


title: TF ChIP-seq from HepG2 (ENCSR911MML)


title: DNase-seq from ecto neural progenitor cell (ENCSR360XIS)


title: TF ChIP-seq from HepG2 (ENCSR168DYA)


title: TF ChIP-seq from HepG2 (ENCSR910MUD)


title: DNase-seq from right lobe of liver (ENCSR909HFI)


title: TF ChIP-seq from HepG2 (ENCSR549PAU)


title: TF ChIP-seq from HepG2 (ENCSR168AUX)


title: DNase-seq from posterior cingulate gyrus (ENCSR908MUU)


title: DNase-seq from thyroid gland (ENCSR549NRK)


title: TF ChIP-seq from HepG2 (ENCSR167MTG)


title: TF ChIP-seq from K562 (ENCSR360UHC)

summary:
eGFP-ARID3B ChIP-seq on human K562

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: ATAC-seq from adrenal gland (ENCSR548KIL)

summary:
ATAC-seq on human adrenal gland

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: TF ChIP-seq from HepG2 (ENCSR908HWZ)


title: DNase-seq from upper lobe of left lung (ENCSR909YET)


title: TF ChIP-seq from HepG2 (ENCSR359TWG)


title: DNase-seq from endodermal cell (ENCSR166KPV)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR904LMG)


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR546FUC)


title: DNase-seq from uterus (ENCSR545ADK)


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR904GDU)


title: DNase-seq from DND-41 (ENCSR903SKE)


title: DNase-seq from heart right ventricle (ENCSR356RNZ)


title: DNase-seq from upper lobe of right lung (ENCSR357AWH)


title: DNase-seq from left ventricle myocardium superior (ENCSR355WAJ)


title: TF ChIP-seq from HepG2 (ENCSR357YPP)


title: TF ChIP-seq from HepG2 (ENCSR545ACM)


title: TF ChIP-seq from HepG2 (ENCSR165YVX)


title: TF ChIP-seq from GM12878 (ENCSR903MVU)

summary:
GM12878 immortalized cell line stably expressing C-terminal eGFP-MAZ fusion protein.

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: TF ChIP-seq from HepG2 (ENCSR543SBE)


title: TF ChIP-seq from HepG2 (ENCSR544MTJ)


title: TF ChIP-seq from HepG2 (ENCSR902SBX)


title: TF ChIP-seq from HepG2 (ENCSR164YJZ)


title: DNase-seq from right lobe of liver (ENCSR164TBP)


title: DNase-seq from T-helper 9 cell (ENCSR542GKI)


title: DNase-seq from effector CD4-positive, alpha-beta T cell (ENCSR355ARR)


title: TF ChIP-seq from K562 (ENCSR164RIC)

summary:
eGFP-ZNF444 ChIP-seq on human K562

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: DNase-seq from T-cell (ENCSR540VTN)


title: TF ChIP-seq from HepG2 (ENCSR543BNN)


title: DNase-seq from T-cell (ENCSR541PUY)


title: DNase-seq from adrenal gland (ENCSR541JMK)


title: TF ChIP-seq from gastrocnemius medialis (ENCSR355ALW)


title: DNase-seq from head of caudate nucleus (ENCSR895TUV)


title: DNase-seq from posterior cingulate gyrus (ENCSR896LMT)


title: TF ChIP-seq from HepG2 (ENCSR902AMJ)


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR163QXS)


title: TF ChIP-seq from K562 (ENCSR163IUV)

summary:
ChIP-Seq on K562

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: DNase-seq from HAP-1 (ENCSR895KTN)


title: TF ChIP-seq from HepG2 (ENCSR542PZA)


title: TF ChIP-seq from HepG2 (ENCSR897LDT)


title: TF ChIP-seq from K562 (ENCSR898IDK)

summary:
eGFP-ZNF23 ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR540LPD)


title: DNase-seq from Right ventricle myocardium superior (ENCSR895GSY)


title: DNase-seq from head of caudate nucleus (ENCSR163GMC)


title: DNase-seq from body of pancreas (ENCSR539WBA)


title: DNase-seq from lower lobe of left lung (ENCSR537BGX)


title: TF ChIP-seq from HepG2 (ENCSR892RCP)


title: DNase-seq from CD8-positive, alpha-beta T cell (ENCSR162JNV)


title: TF ChIP-seq from A549 (ENCSR161CZA)

summary:
eGFP-ATOH8 ChIP-seq on human A549

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: TF ChIP-seq from HepG2 (ENCSR895KNN)


title: DNase-seq from head of caudate nucleus (ENCSR163BSC)

summary: 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: TF ChIP-seq from HepG2 (ENCSR891KNP)


title: TF ChIP-seq from K562 (ENCSR536CBU)

summary:
eGFP-ZBTB9 ChIP-seq on human K562

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: DNase-seq from T-cell (ENCSR354SDH)


title: TF ChIP-seq from HepG2 (ENCSR890DSP)

summary:
ChIP-Seq on HepG2

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: TF ChIP-seq from HepG2 (ENCSR532WFC)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR532DBH)


title: TF ChIP-seq from HepG2 (ENCSR159BTO)


title: DNase-seq from head of caudate nucleus (ENCSR888ZIZ)


title: DNase-seq from HL-60 (ENCSR889WKL)


title: DNase-seq from posterior cingulate gyrus (ENCSR887VUC)


title: TF ChIP-seq from HepG2 (ENCSR354FPG)


title: TF ChIP-seq from K562 (ENCSR153HNT)


title: TF ChIP-seq from HepG2 (ENCSR887TWV)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR351FWN)


title: TF ChIP-seq from K562 (ENCSR350GZC)

summary:
eGFP-ZNF561 ChIP-seq on human K562

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: DNase-seq from posterior cingulate gyrus (ENCSR885ZBV)


title: TF ChIP-seq from HepG2 (ENCSR145QNL)


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR155NBS)


title: TF ChIP-seq from K562 (ENCSR883UGG)

summary:
eGFP-ZNF445 ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR530ARJ)


title: TF ChIP-seq from HepG2 (ENCSR524RLU)


title: TF ChIP-seq from HepG2 (ENCSR144NTH)


title: TF ChIP-seq from K562 (ENCSR150QDE)


title: TF ChIP-seq from HepG2 (ENCSR346BOD)


title: TF ChIP-seq from HepG2 (ENCSR886YJI)


title: DNase-seq from effector CD4-positive, alpha-beta T cell (ENCSR525VCH)


title: DNase-seq from CD4-positive naive resting alpha-beta T cell (ENCSR531AYV)


title: TF ChIP-seq from HepG2 (ENCSR886VSY)


title: TF ChIP-seq from HepG2 (ENCSR347PUQ)


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR346GIP)


title: DNase-seq from lung (ENCSR141IUS)


title: TF ChIP-seq from K562 (ENCSR526HRN)


title: DNase-seq from head of caudate nucleus (ENCSR881FBS)


title: DNase-seq from head of caudate nucleus (ENCSR524QPZ)


title: DNase-seq from cardiac septum (ENCSR524QBS)


title: TF ChIP-seq from HepG2 (ENCSR880PMU)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR880CUB)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR879XUH)


title: TF ChIP-seq from HepG2 (ENCSR141ELR)


title: DNase-seq from T-cell (ENCSR342OGI)


title: DNase-seq from SJSA1 (ENCSR520WTV)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR340XQX)


title: TF ChIP-seq from HepG2 (ENCSR343RJR)


title: DNase-seq from T-cell (ENCSR140KPO)


title: DNase-seq from transverse colon (ENCSR340MRJ)


title: TF ChIP-seq from K562 (ENCSR879KXD)

summary:
eGFP-RAD21 ChIP-seq on human K562

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: DNase-seq from head of caudate nucleus (ENCSR137FWW)


title: DNase-seq from ovary (ENCSR138UGH)


title: DNase-seq from head of caudate nucleus (ENCSR879EVD)


title: TF ChIP-seq from HepG2 (ENCSR520MCD)


title: TF ChIP-seq from HepG2 (ENCSR136OFY)

summary:
HepG2 immortalized cell line stably expressing C-terminal eGFP-NR2F1 fusion protein.

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: DNase-seq from gastrocnemius medialis (ENCSR520BAD)


title: DNase-seq from head of caudate nucleus (ENCSR339TVH)


title: TF ChIP-seq from tibial nerve (ENCSR875NEW)


title: DNase-seq from T-cell (ENCSR878ITC)


title: TF ChIP-seq from HepG2 (ENCSR338DUC)

summary:
HepG2 immortalized cell line stably expressing C-terminal eGFP-RAD21 fusion protein.

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: TF ChIP-seq from HepG2 (ENCSR873OVI)


title: DNase-seq from pancreas (ENCSR338NEI)


title: DNase-seq from head of caudate nucleus (ENCSR134IUJ)


title: ATAC-seq from stomach (ENCSR337UIU)

summary:
ATAC-seq on human stomach

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: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR134BSY)


title: TF ChIP-seq from HepG2 (ENCSR519QYU)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR518WRP)


title: DNase-seq from head of caudate nucleus (ENCSR516RTV)


title: DNase-seq from CD8-positive, alpha-beta T cell (ENCSR133QZB)


title: TF ChIP-seq from K562 (ENCSR873LYH)

summary:
eGFP-MLX ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR518KLO)


title: DNase-seq from placenta (ENCSR336RGT)


title: TF ChIP-seq from HepG2 (ENCSR516DDO)


title: DNase-seq from CD8-positive, alpha-beta T cell (ENCSR129HDK)


title: DNase-seq from uterus (ENCSR129BZE)


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR515DVK)


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR129GCL)


title: TF ChIP-seq from GM23338 (ENCSR334UWP)

summary:
eGFP-ZNF462 ChIP-seq on human GM23338

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: TF ChIP-seq from HepG2 (ENCSR514RAH)


title: TF ChIP-seq from HepG2 (ENCSR872ZHM)


title: TF ChIP-seq from HepG2 (ENCSR130ZAR)


title: TF ChIP-seq from K562 (ENCSR335SUD)

summary:
eGFP-ZNF436 ChIP-seq on human K562

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: DNase-seq from spleen (ENCSR128GBN)


title: TF ChIP-seq from HepG2 (ENCSR513NBU)


title: DNase-seq from head of caudate nucleus (ENCSR334MDJ)


title: TF ChIP-seq from K562 (ENCSR128KLX)

summary:
eGFP-NR2F6 ChIP-seq on human K562

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: DNase-seq from head of caudate nucleus (ENCSR333BUP)


title: DNase-seq from CD8-positive naive resting alpha-beta T cell (ENCSR332HAD)


title: TF ChIP-seq from HepG2 (ENCSR512ECF)


title: DNase-seq from activated CD4-positive, alpha-beta T cell (ENCSR516JCM)


title: DNase-seq from posterior cingulate gyrus (ENCSR510GRY)


title: TF ChIP-seq from HepG2 (ENCSR332EKO)


title: DNase-seq from kidney (ENCSR873ANE)


title: TF ChIP-seq from HepG2 (ENCSR510GKB)


title: ATAC-seq from HCT116 (ENCSR872WGW)


title: DNase-seq from ovary (ENCSR872DUY)


title: DNase-seq from T-helper 2 cell (ENCSR872IXQ)


title: DNase-seq from tibial nerve (ENCSR508FVM)


title: TF ChIP-seq from HepG2 (ENCSR331HWO)


title: TF ChIP-seq from K562 (ENCSR508EEX)

summary:
eGFP-ZNF397 ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR127XTZ)


title: DNase-seq from ovary (ENCSR330ZBO)


title: TF ChIP-seq from K562 (ENCSR126YJQ)

summary:
eGFP-HMG20A ChIP-seq on human K562

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: DNase-seq from dorsolateral prefrontal cortex (ENCSR329FHR)


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR126EVX)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR329FAP)


title: TF ChIP-seq from A549 (ENCSR326AQV)

summary:
eGFP-FOXS1 ChIP-seq on human A549

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: TF ChIP-seq from HepG2 (ENCSR127IHN)


title: TF ChIP-seq from HepG2 (ENCSR869RSW)


title: TF ChIP-seq from HepG2 (ENCSR869JZW)


title: DNase-seq from brain (ENCSR507GFJ)


title: DNase-seq from T-helper 2 cell (ENCSR869JYO)


title: DNase-seq from SJCRH30 (ENCSR506QJJ)


title: DNase-seq from mucosa of descending colon (ENCSR507DQC)


title: TF ChIP-seq from HepG2 (ENCSR325VYA)


title: TF ChIP-seq from HepG2 (ENCSR505UNL)


title: TF ChIP-seq from HepG2 (ENCSR871VNN)


title: DNase-seq from adrenal gland (ENCSR325FWM)


title: DNase-seq from T-cell (ENCSR507XBY)


title: ATAC-seq from K562 (ENCSR868FGK)

summary:
ATAC-seq on human cell line K562

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: TF ChIP-seq from HepG2 (ENCSR505LJT)


title: TF ChIP-seq from HepG2 (ENCSR123GPC)


title: DNase-seq from upper lobe of left lung (ENCSR323UTX)

summary: 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: DNase-seq from placenta (ENCSR126EVK)


title: TF ChIP-seq from K562 (ENCSR870YEN)

summary:
eGFP-ZSCAN32 ChIP-seq on human K562

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: TF ChIP-seq from HepG2 (ENCSR505DVB)

summary:
ChIP-Seq on HepG2

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: TF ChIP-seq from HepG2 (ENCSR322ULL)


title: DNase-seq from posterior cingulate gyrus (ENCSR330LFP)


title: TF ChIP-seq from K562 (ENCSR125RFR)

summary:
ChIP-Seq on K562

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: DNase-seq from left colon (ENCSR867XFA)


title: DNase-seq from testis (ENCSR866ODX)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR124IMM)


title: TF ChIP-seq from K562 (ENCSR121SPB)

summary:
eGFP-KLF10 ChIP-seq on human K562

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: DNase-seq from nephron progenitor cell (ENCSR503UNA)


title: TF ChIP-seq from HepG2 (ENCSR124APT)


title: DNase-seq from posterior vena cava (ENCSR324NVG)


title: TF ChIP-seq from HepG2 (ENCSR865RXA)


title: DNase-seq from cerebellar cortex (ENCSR503HIB)


title: DNase-seq from placenta (ENCSR503RWO)


title: TF ChIP-seq from HepG2 (ENCSR321VGW)


title: DNase-seq from head of caudate nucleus (ENCSR122NRV)


title: TF ChIP-seq from K562 (ENCSR119FAD)

summary:
K562 immortalized cell line stably expressing C-terminal eGFP-DEAF1 fusion protein.

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: DNase-seq from posterior cingulate gyrus (ENCSR859HEW)


title: TF ChIP-seq from HepG2 (ENCSR862LJQ)


title: TF ChIP-seq from HepG2 (ENCSR862VDD)


title: DNase-seq from head of caudate nucleus (ENCSR860UTH)


title: DNase-seq from breast epithelium (ENCSR859LTL)


title: DNase-seq from posterior cingulate gyrus (ENCSR502FPR)


title: TF ChIP-seq from HepG2 (ENCSR321OAA)


title: DNase-seq from gastrocnemius medialis (ENCSR856XLJ)


title: ATAC-seq from PC-3 (ENCSR499ASS)


title: DNase-seq from CD8-positive, alpha-beta T cell (ENCSR321KUC)


title: TF ChIP-seq from HepG2 (ENCSR118LGS)


title: DNase-seq from posterior cingulate gyrus (ENCSR503UFM)


title: DNase-seq from head of caudate nucleus (ENCSR856XGY)


title: TF ChIP-seq from HepG2 (ENCSR855XFL)


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCSR498FCF)


title: DNase-seq from T-cell (ENCSR497NLU)


title: TF ChIP-seq from K562 (ENCSR116NDV)


title: TF ChIP-seq from HepG2 (ENCSR856QJP)


title: DNase-seq from T-cell (ENCSR863LZT)


title: TF ChIP-seq from HepG2 (ENCSR498TWD)


title: TF ChIP-seq from HepG2 (ENCSR502YME)


title: DNase-seq from head of caudate nucleus (ENCSR496UJY)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR498RLX)


title: DNase-seq from dorsolateral prefrontal cortex (ENCSR849WGE)


title: TF ChIP-seq from HepG2 (ENCSR313MMD)


title: ATAC-seq from gastrocnemius medialis (ENCSR308HPZ)

summary:
ATAC-seq on human gastrocnemius medialis

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: TF ChIP-seq from SK-N-MC (ENCSR113GDB)

summary:
ChIP-seq against EZH2 using SK-N-MC cell line which was previously described as a neuroepithelioma (ATCC HTB-10). However recent evidence reveals it is Ewing's Sarcoma (www.ncbi.nlm.nih.gov/pubmed/15548687, www.ncbi.nlm.nih.gov/pubmed/25453903, www.ncbi.nlm.nih.gov/biosample/3151999).

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: DNase-seq from head of caudate nucleus (ENCSR116UQH)


title: DNase-seq from T-cell (ENCSR310ZGQ)


title: DNase-seq from head of caudate nucleus (ENCSR849CYU)


title: TF ChIP-seq from HepG2 (ENCSR495RMN)


title: DNase-seq from head of caudate nucleus (ENCSR113DHB)


title: TF ChIP-seq from HepG2 (ENCSR849TMV)


title: TF ChIP-seq from HepG2 (ENCSR310OZS)


title: ATAC-seq from sigmoid colon (ENCSR846VLJ)

summary:
ATAC-seq on human sigmoid colon

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: TF ChIP-seq from HepG2 (ENCSR849FVL)


title: DNase-seq from posterior cingulate gyrus (ENCSR112AKE)


title: DNase-seq from posterior cingulate gyrus (ENCSR846VGZ)


title: TF ChIP-seq from HepG2 (ENCSR306HAG)


title: DNase-seq from T-cell (ENCSR496UER)


title: ATAC-seq from adrenal gland (ENCSR113MBR)

summary:
ATAC-seq on human adrenal gland

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: DNase-seq from RWPE2 (ENCSR306BHE)


title: DNase-seq from T-cell (ENCSR305WLF)


title: TF ChIP-seq from HepG2 (ENCSR110BYN)


title: TF ChIP-seq from HepG2 (ENCSR492IHH)


title: TF ChIP-seq from HepG2 (ENCSR493VBX)


title: DNase-seq from head of caudate nucleus (ENCSR496PSH)


title: TF ChIP-seq from K562 (ENCSR492FKD)

summary:
eGFP-ZNF257 ChIP-seq on human K562

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: DNase-seq from T-cell (ENCSR111LTT)


title: TF ChIP-seq from K562 (ENCSR844JVU)

summary:
eGFP-TCFL5 ChIP-seq on human K562

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: TF ChIP-seq from K562 (ENCSR844MAB)

summary:
eGFP-ZNF77 ChIP-seq on human K562

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: TF ChIP-seq from K562 (ENCSR110JLQ)

summary:
eGFP-ZNF778 ChIP-seq on human K562

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: DNase-seq from psoas muscle (ENCSR108SYM)


title: TF ChIP-seq from HepG2 (ENCSR304NTV)


title: DNase-seq from thoracic aorta (ENCSR298SDT)