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 Rv2205c/-:

update plot	correlation	link to info on gene
Rv1468c/PE_PGRS29	(cc=0.5487)	info on Rv1468c/PE_PGRS29
Rv1992c/ctpG	(cc=0.5479)	info on Rv1992c/ctpG
Rv1735c/-	(cc=0.5399)	info on Rv1735c/-
Rv3607c/folB	(cc=0.5271)	info on Rv3607c/folB
Rv3344c/PE_PGRS49	(cc=0.5265)	info on Rv3344c/PE_PGRS49
Rv0578c/PE_PGRS7	(cc=0.5229)	info on Rv0578c/PE_PGRS7
Rv3367/PE_PGRS51	(cc=0.5211)	info on Rv3367/PE_PGRS51
Rv2741/PE_PGRS47	(cc=0.5117)	info on Rv2741/PE_PGRS47
Rv2030c/-	(cc=0.5101)	info on Rv2030c/-
Rv0332/-	(cc=0.5095)	info on Rv0332/-

Correlation of Rv2205c/- with Rv0332/-

Normalized LFCs for Rv2205c/-:
(description and provenance of datasets)

	Rv2205c/-	Rv0332/-
Fe_supp_jason_reseq	0.469	0.627
low_pH_jason_reseq	0.0	-0.512
NO_jason_reseq	-0.368	-0.727
B6_jason_reseq	-0.02	0.454
MHCII_jason_reseq	0.0	1.256
Isoniazid02	0.646	0.049
Rifampicin4	0.455	0.019
Ethambutol3	0.845	-0.236
Meropenem3	1.636	2.033
Vancomycin16	-0.329	0.056
Rv2680_day32	-0.144	-0.932
H37Rv_KO_MarP	0.704	0.066
hypoxia_3wks	-0.367	-0.183
hypoxia_6wks	-1.161	0.094
glycerol	0.13	0.878
cholesterol	-0.108	0.069
AJ	0.602	-0.089
Bibs02	0.07	0.605
Bibs02c	0.294	0.611
BL6	-0.654	-0.299
BL6a	0.108	0.151
BXD01	-0.014	-0.155
BXD010	-0.483	-0.236
BXD011	-0.854	-0.568
BXD03	-0.151	-0.975
BXD04	0.179	-0.307
BXD05	-0.192	-1.152
BXD06	-0.422	-0.758
BXD07	-0.468	-0.61
BXD08	-0.342	0.115
BXD09	-0.402	-0.911
CAST	0.324	0.215
CCcont	-0.767	-0.968
DS01	0.388	0.228
DS02	0.621	0.476
DS04	0.822	0.365
DS0c	0.047	0.597
GP01	0.763	1.178
GP02	0.318	0.119
GP0c	0.332	0.92
NOD	0.464	0.887
NZO	0.535	-0.179
PWK	-0.112	-0.023
H37Rv_KO_CtpC	-0.112	-0.427
H37Rv_KO_CtpD	-0.628	-0.447
H37Rv_KO_Rv1272	0.245	0.0
H37Rv_KO_SugABC	-0.574	0.075
H37Rv_KO_MbtN	1.578	-0.823
Trans05	0.078	-0.194
macrophage_unactivated	-0.735	-0.565
IL1	-0.86	-0.611
Rapamycin	-0.994	-0.988
Tcell	-0.583	-0.16
GMCSF	0.024	-0.544
IFNab	-0.774	-0.568
IFNg	-0.898	-1.376
IFNg_GMCSF1	0.421	-0.449
Rv1432_day32	-0.541	0.051
Rv1565c_day32	0.117	-0.27
secA2_input	-0.645	-0.783
delta_Rv3594	0.489	-0.401
delta_Rv3717	0.228	-0.058
delta_Rv3811	1.023	-0.149
delta_Rv0954	0.213	0.049
PonA1	0.309	0.052
EccD1_KO	0.506	0.543
EspI_KO	0.499	0.488
PE35_KO	0.07	-0.545
PPE68_KO	-0.106	-0.23
glycerol2	-0.957	-0.2
lignocerate	-0.578	-0.284
oleate	-0.242	0.074
phosphatidylcholine	-0.422	-0.098
acetate	-0.678	-0.825
glucAc	-0.955	-0.807
Rv0950ko	0.694	0.268
Rv1096ko	-0.259	0.229
Rv3684ko	0.265	0.291
delta_otsA_trehalose	0.673	-0.602