TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv2933/ppsC:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2931/ppsA	(cc=0.9817)	info on Rv2931/ppsA
Rv2932/ppsB	(cc=0.9814)	info on Rv2932/ppsB
Rv2940c/mas	(cc=0.9794)	info on Rv2940c/mas
Rv2941/fadD28	(cc=0.9697)	info on Rv2941/fadD28
Rv2939/papA5	(cc=0.9628)	info on Rv2939/papA5
Rv2930/fadD26	(cc=0.9605)	info on Rv2930/fadD26
Rv2934/ppsD	(cc=0.9589)	info on Rv2934/ppsD
Rv2935/ppsE	(cc=0.9575)	info on Rv2935/ppsE
Rv2928/tesA	(cc=0.7185)	info on Rv2928/tesA
Rv3274c/fadE25	(cc=0.5707)	info on Rv3274c/fadE25

Correlation of Rv2933/ppsC with Rv2931/ppsA

Normalized LFCs for Rv2933/ppsC:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv2933/ppsC	Rv2931/ppsA
Fe_supp_jason_reseq	2.246	2.073
low_pH_jason_reseq	2.269	2.476
NO_jason_reseq	-0.496	-0.441
B6_jason_reseq	1.564	1.807
MHCII_jason_reseq	-2.687	-2.823
Isoniazid02	-0.31	0.295
Rifampicin4	0.785	0.888
Ethambutol3	0.522	0.116
Meropenem3	1.497	0.49
Vancomycin16	-0.077	-0.122
Rv2680_day32	-1.858	-2.214
H37Rv_KO_MarP	-0.576	-0.559
hypoxia_3wks	0.953	0.985
hypoxia_6wks	-0.132	-0.171
glycerol	3.053	3.229
cholesterol	2.143	2.197
AJ	0.472	0.304
Bibs02	-3.486	-3.444
Bibs02c	-3.36	-3.146
BL6	0.554	0.604
BL6a	-1.05	-0.994
BXD01	1.539	1.763
BXD010	-0.105	0.318
BXD011	-0.651	-0.042
BXD03	-0.062	-0.044
BXD04	1.268	1.017
BXD05	-0.845	-0.96
BXD06	0.169	0.213
BXD07	0.161	0.367
BXD08	1.158	1.493
BXD09	-0.221	-0.321
CAST	2.661	2.346
CCcont	1.139	1.122
DS01	0.275	0.287
DS02	1.588	0.833
DS04	-0.256	0.142
DS0c	-0.341	-0.553
GP01	-2.301	-2.345
GP02	-1.856	-1.976
GP0c	-3.03	-3.087
NOD	2.053	1.687
NZO	2.26	2.15
PWK	0.189	-0.131
H37Rv_KO_CtpC	-0.987	-1.304
H37Rv_KO_CtpD	-1.117	-0.851
H37Rv_KO_Rv1272	-1.208	-0.977
H37Rv_KO_SugABC	1.24	0.64
H37Rv_KO_MbtN	0.099	-0.235
Trans05	-0.962	-1.079
macrophage_unactivated	3.365	4.056
IL1	-2.462	-2.462
Rapamycin	-1.866	-2.308
Tcell	3.542	4.005
GMCSF	-2.411	-2.886
IFNab	-2.273	-2.273
IFNg	-3.474	-3.782
IFNg_GMCSF1	-1.7	-1.304
Rv1432_day32	-0.164	0.763
Rv1565c_day32	-0.381	-0.199
secA2_input	-0.499	-0.639
delta_Rv3594	-2.769	-2.489
delta_Rv3717	-2.23	-2.245
delta_Rv3811	-2.72	-2.211
delta_Rv0954	-1.494	-1.053
PonA1	-1.422	-1.29
EccD1_KO	-2.983	-3.595
EspI_KO	-2.336	-1.934
PE35_KO	2.395	1.96
PPE68_KO	0.969	0.141
glycerol2	0.975	0.954
lignocerate	0.761	0.655
oleate	1.233	1.185
phosphatidylcholine	1.137	1.076
acetate	-0.05	-0.421
glucAc	-0.271	-0.462
Rv0950ko	-3.199	-3.757
Rv1096ko	-5.422	-5.398
Rv3684ko	-3.209	-3.449
delta_otsA_trehalose	-0.47	0.356