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 Rv2641/cadI:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv3737/-	(cc=0.5131)	info on Rv3737/-
Rv3395A/-	(cc=0.4934)	info on Rv3395A/-
Rv2473/-	(cc=0.4589)	info on Rv2473/-
Rv3483c/-	(cc=0.4317)	info on Rv3483c/-
Rv0281/-	(cc=0.4306)	info on Rv0281/-
Rv0267/narU	(cc=0.4214)	info on Rv0267/narU
Rv3288c/usfY	(cc=0.4206)	info on Rv3288c/usfY
Rv3321c/vapB44	(cc=0.4145)	info on Rv3321c/vapB44
Rv0329c/-	(cc=0.4112)	info on Rv0329c/-
Rv3064c/-	(cc=0.4111)	info on Rv3064c/-

Correlation of Rv2641/cadI with Rv3737/-

Normalized LFCs for Rv2641/cadI:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv2641/cadI	Rv3737/-
Fe_supp_jason_reseq	0.081	0.935
low_pH_jason_reseq	1.027	0.0
NO_jason_reseq	0.299	-0.058
B6_jason_reseq	0.081	0.593
MHCII_jason_reseq	0.111	0.998
Isoniazid02	0.281	0.441
Rifampicin4	-0.428	-0.317
Ethambutol3	0.567	0.045
Meropenem3	3.128	3.291
Vancomycin16	0.066	0.512
Rv2680_day32	-0.412	-0.289
H37Rv_KO_MarP	-0.106	-0.336
hypoxia_3wks	0.044	-1.483
hypoxia_6wks	0.106	-2.326
glycerol	0.506	-0.157
cholesterol	0.314	0.068
AJ	-0.318	-1.336
Bibs02	-0.266	0.584
Bibs02c	-0.305	-0.527
BL6	0.291	-0.767
BL6a	-0.159	-0.834
BXD01	0.445	-1.421
BXD010	0.612	-0.713
BXD011	0.176	-1.021
BXD03	-0.054	-1.517
BXD04	0.409	-1.368
BXD05	0.158	-1.351
BXD06	-0.107	-1.652
BXD07	0.011	-1.226
BXD08	0.749	-0.647
BXD09	0.428	-1.018
CAST	1.323	-0.726
CCcont	0.388	-0.594
DS01	-0.084	0.52
DS02	0.285	0.572
DS04	0.469	0.55
DS0c	0.225	0.057
GP01	0.84	-0.715
GP02	0.007	-0.434
GP0c	0.166	-1.399
NOD	0.208	-0.226
NZO	-0.363	-0.889
PWK	-0.125	-1.485
H37Rv_KO_CtpC	-0.75	-0.997
H37Rv_KO_CtpD	0.593	0.117
H37Rv_KO_Rv1272	-0.034	-0.723
H37Rv_KO_SugABC	0.72	-0.718
H37Rv_KO_MbtN	0.055	-0.239
Trans05	0.595	-0.593
macrophage_unactivated	-0.107	-1.026
IL1	-0.323	-0.454
Rapamycin	-0.12	-0.724
Tcell	0.124	-1.642
GMCSF	-0.544	-0.623
IFNab	-0.393	-0.063
IFNg	-0.404	-0.973
IFNg_GMCSF1	-0.031	-0.201
Rv1432_day32	-0.038	-0.618
Rv1565c_day32	1.332	-0.232
secA2_input	-0.385	-0.388
delta_Rv3594	-0.704	-0.028
delta_Rv3717	-0.126	-0.164
delta_Rv3811	-0.4	0.696
delta_Rv0954	0.698	1.315
PonA1	1.33	1.571
EccD1_KO	-0.296	-0.286
EspI_KO	-1.58	-1.323
PE35_KO	-0.543	-1.744
PPE68_KO	-1.353	-1.673
glycerol2	0.793	0.551
lignocerate	1.277	0.455
oleate	0.509	0.637
phosphatidylcholine	1.196	0.468
acetate	0.818	0.161
glucAc	0.41	0.0
Rv0950ko	0.507	0.365
Rv1096ko	0.618	-0.353
Rv3684ko	-0.688	-0.586
delta_otsA_trehalose	2.781	0.439