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 Rv0077c/-:

update plot	correlation	link to info on gene
Rv0347/-	(cc=0.5037)	info on Rv0347/-
Rv3337/-	(cc=0.493)	info on Rv3337/-
Rv0372c/-	(cc=0.4813)	info on Rv0372c/-
Rv1262c/-	(cc=0.4677)	info on Rv1262c/-
Rv1761c/-	(cc=0.4593)	info on Rv1761c/-
Rv0276/-	(cc=0.4468)	info on Rv0276/-
Rv2994/-	(cc=0.4383)	info on Rv2994/-
Rv0633c/-	(cc=0.4357)	info on Rv0633c/-
Rv3714c/-	(cc=0.4247)	info on Rv3714c/-
Rv0858c/dapC	(cc=0.4236)	info on Rv0858c/dapC

Correlation of Rv0077c/- with Rv3714c/-

Normalized LFCs for Rv0077c/-:
(description and provenance of datasets)

	Rv0077c/-	Rv3714c/-
Fe_supp_jason_reseq	-0.221	-0.398
low_pH_jason_reseq	-0.381	-0.363
NO_jason_reseq	0.029	0.011
B6_jason_reseq	0.538	0.719
MHCII_jason_reseq	0.238	1.035
Isoniazid02	0.444	0.778
Rifampicin4	0.165	-0.011
Ethambutol3	0.555	0.55
Meropenem3	0.528	-0.108
Vancomycin16	0.239	1.387
Rv2680_day32	-1.331	0.488
H37Rv_KO_MarP	0.349	0.169
hypoxia_3wks	0.546	0.49
hypoxia_6wks	0.37	1.184
glycerol	0.098	-1.508
cholesterol	-0.208	-0.909
AJ	0.555	0.202
Bibs02	1.245	-0.147
Bibs02c	-0.045	0.108
BL6	-0.449	-0.168
BL6a	0.274	-0.013
BXD01	-0.404	0.43
BXD010	0.349	0.139
BXD011	0.035	0.21
BXD03	0.338	0.323
BXD04	0.068	0.597
BXD05	0.639	-0.14
BXD06	0.225	0.267
BXD07	0.315	0.08
BXD08	-0.058	0.297
BXD09	0.805	0.279
CAST	0.375	0.607
CCcont	-0.551	-0.643
DS01	0.681	0.433
DS02	0.148	0.651
DS04	0.804	1.023
DS0c	0.03	0.638
GP01	1.734	-0.144
GP02	0.194	0.641
GP0c	0.235	-0.46
NOD	-0.216	1.111
NZO	0.373	0.526
PWK	0.26	0.367
H37Rv_KO_CtpC	-1.045	-0.288
H37Rv_KO_CtpD	-0.704	0.055
H37Rv_KO_Rv1272	-0.411	-1.053
H37Rv_KO_SugABC	-0.952	-0.819
H37Rv_KO_MbtN	-0.973	-0.526
Trans05	-0.057	-0.625
macrophage_unactivated	-0.12	0.095
IL1	0.303	0.0
Rapamycin	0.046	-0.19
Tcell	0.049	0.935
GMCSF	0.573	0.079
IFNab	0.308	-0.333
IFNg	0.596	-0.029
IFNg_GMCSF1	0.0	-0.072
Rv1432_day32	-0.478	1.288
Rv1565c_day32	-0.066	0.158
secA2_input	1.403	0.769
delta_Rv3594	-1.007	-0.971
delta_Rv3717	-0.868	-0.799
delta_Rv3811	-1.152	-1.387
delta_Rv0954	0.523	-1.0
PonA1	0.347	-0.336
EccD1_KO	0.059	-0.697
EspI_KO	-0.813	-0.371
PE35_KO	-0.426	-0.446
PPE68_KO	-0.499	-0.403
glycerol2	-0.289	-0.661
lignocerate	-0.399	-0.621
oleate	-0.425	-0.793
phosphatidylcholine	-0.459	-0.793
acetate	-0.195	-1.614
glucAc	-0.777	-0.741
Rv0950ko	0.633	0.724
Rv1096ko	1.327	0.552
Rv3684ko	1.225	0.196
delta_otsA_trehalose	1.344	0.411