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 Rv0259c/-:

update plot	correlation	link to info on gene
Rv0060/-	(cc=0.4823)	info on Rv0060/-
Rv1805c/-	(cc=0.4463)	info on Rv1805c/-
Rv0445c/sigK	(cc=0.4419)	info on Rv0445c/sigK
Rv0314c/-	(cc=0.437)	info on Rv0314c/-
Rv3843c/-	(cc=0.4333)	info on Rv3843c/-
Rv2675c/-	(cc=0.4189)	info on Rv2675c/-
Rv3774/echA21	(cc=0.4108)	info on Rv3774/echA21
Rv2322c/rocD1	(cc=0.4069)	info on Rv2322c/rocD1
Rv0604/lpqO	(cc=0.3989)	info on Rv0604/lpqO
Rv3282/-	(cc=0.3959)	info on Rv3282/-

Correlation of Rv0259c/- with Rv2675c/-

Normalized LFCs for Rv0259c/-:
(description and provenance of datasets)

	Rv0259c/-	Rv2675c/-
Fe_supp_jason_reseq	0.702	-0.175
low_pH_jason_reseq	-2.28	-1.365
NO_jason_reseq	0.205	-0.328
B6_jason_reseq	1.744	0.019
MHCII_jason_reseq	1.323	0.626
Isoniazid02	-0.541	-1.043
Rifampicin4	-2.366	-0.225
Ethambutol3	-0.731	-0.699
Meropenem3	-1.047	-1.433
Vancomycin16	-1.34	-1.082
Rv2680_day32	0.136	0.135
H37Rv_KO_MarP	0.087	0.024
hypoxia_3wks	0.586	0.171
hypoxia_6wks	1.023	1.038
glycerol	0.832	0.443
cholesterol	-0.387	-0.016
AJ	-0.039	-0.361
Bibs02	0.415	-0.029
Bibs02c	0.741	0.023
BL6	0.502	0.213
BL6a	0.702	0.278
BXD01	0.624	0.092
BXD010	-1.112	-0.175
BXD011	-0.286	0.054
BXD03	-0.071	-0.113
BXD04	-0.414	0.284
BXD05	-0.33	0.426
BXD06	-0.758	0.275
BXD07	0.237	0.27
BXD08	-0.609	0.052
BXD09	-0.316	0.177
CAST	1.291	0.207
CCcont	1.018	0.067
DS01	-0.08	0.241
DS02	-0.232	0.269
DS04	0.187	0.015
DS0c	-1.43	0.168
GP01	-0.897	-0.24
GP02	-1.075	0.066
GP0c	-0.187	-0.004
NOD	-0.037	0.397
NZO	1.037	-0.237
PWK	0.897	-0.053
H37Rv_KO_CtpC	0.08	-0.32
H37Rv_KO_CtpD	0.0	-0.578
H37Rv_KO_Rv1272	-1.667	0.284
H37Rv_KO_SugABC	-0.309	0.62
H37Rv_KO_MbtN	-0.345	-0.47
Trans05	-0.164	0.202
macrophage_unactivated	1.111	-0.104
IL1	-0.092	-0.098
Rapamycin	-0.193	-0.11
Tcell	1.45	-0.117
GMCSF	-0.338	0.597
IFNab	-1.164	-0.091
IFNg	-0.342	0.35
IFNg_GMCSF1	-0.299	0.277
Rv1432_day32	0.575	0.108
Rv1565c_day32	-1.339	-0.032
secA2_input	0.554	-0.177
delta_Rv3594	-0.965	0.251
delta_Rv3717	0.618	-0.103
delta_Rv3811	-0.17	-0.406
delta_Rv0954	-1.008	-0.337
PonA1	-1.984	0.121
EccD1_KO	-0.194	0.266
EspI_KO	-0.667	0.528
PE35_KO	-1.21	0.163
PPE68_KO	-0.486	0.032
glycerol2	0.943	0.657
lignocerate	1.206	0.979
oleate	0.054	0.464
phosphatidylcholine	1.154	0.819
acetate	0.906	0.233
glucAc	1.902	0.485
Rv0950ko	0.908	0.887
Rv1096ko	-0.127	0.124
Rv3684ko	0.517	0.737
delta_otsA_trehalose	0.578	0.353