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 Rv1048c/-:

update plot	correlation	link to info on gene
Rv1288/-	(cc=0.4793)	info on Rv1288/-
Rv1615/-	(cc=0.4253)	info on Rv1615/-
Rv2031c/hspX	(cc=0.4232)	info on Rv2031c/hspX
Rv2888c/amiC	(cc=0.4022)	info on Rv2888c/amiC
Rv1739c/-	(cc=0.3972)	info on Rv1739c/-
Rv0141c/-	(cc=0.3857)	info on Rv0141c/-
Rv2478c/-	(cc=0.3854)	info on Rv2478c/-
Rv0894/-	(cc=0.3843)	info on Rv0894/-
Rv1250/-	(cc=0.3827)	info on Rv1250/-
Rv2725c/hflX	(cc=0.3789)	info on Rv2725c/hflX

Correlation of Rv1048c/- with Rv2888c/amiC

Normalized LFCs for Rv1048c/-:
(description and provenance of datasets)

	Rv1048c/-	Rv2888c/amiC
Fe_supp_jason_reseq	-0.44	-0.218
low_pH_jason_reseq	0.032	-0.112
NO_jason_reseq	0.0	0.331
B6_jason_reseq	-0.363	0.444
MHCII_jason_reseq	-0.108	-0.25
Isoniazid02	-0.055	-0.013
Rifampicin4	-0.035	0.582
Ethambutol3	0.347	1.015
Meropenem3	1.105	0.497
Vancomycin16	0.114	0.403
Rv2680_day32	0.794	0.303
H37Rv_KO_MarP	0.349	0.137
hypoxia_3wks	-0.255	-0.251
hypoxia_6wks	-0.238	-0.033
glycerol	0.274	0.285
cholesterol	0.369	0.045
AJ	0.592	-0.242
Bibs02	-0.098	0.356
Bibs02c	-0.294	0.188
BL6	-0.264	0.142
BL6a	-0.106	0.386
BXD01	0.123	0.027
BXD010	0.266	0.151
BXD011	0.23	0.281
BXD03	-0.507	0.24
BXD04	-0.231	-0.151
BXD05	0.095	0.115
BXD06	-0.081	0.207
BXD07	0.097	0.445
BXD08	-0.036	0.271
BXD09	-0.047	0.179
CAST	0.442	0.622
CCcont	0.397	-0.217
DS01	0.279	0.356
DS02	0.124	0.517
DS04	0.394	0.725
DS0c	0.083	0.297
GP01	-0.646	-0.325
GP02	-1.245	-0.298
GP0c	-0.758	-0.099
NOD	0.431	0.034
NZO	0.59	0.432
PWK	0.685	0.081
H37Rv_KO_CtpC	-0.58	0.154
H37Rv_KO_CtpD	-0.267	0.214
H37Rv_KO_Rv1272	0.438	-0.139
H37Rv_KO_SugABC	0.326	0.689
H37Rv_KO_MbtN	0.457	0.205
Trans05	0.347	-0.42
macrophage_unactivated	0.773	-0.117
IL1	-0.575	0.142
Rapamycin	-0.377	-0.018
Tcell	-0.104	-0.205
GMCSF	0.298	-0.288
IFNab	0.602	0.393
IFNg	-0.029	0.083
IFNg_GMCSF1	1.254	0.782
Rv1432_day32	0.644	0.527
Rv1565c_day32	1.99	0.551
secA2_input	-0.67	-0.988
delta_Rv3594	0.43	0.48
delta_Rv3717	0.065	0.493
delta_Rv3811	0.503	-0.03
delta_Rv0954	0.277	-0.066
PonA1	0.09	0.409
EccD1_KO	0.52	0.141
EspI_KO	0.473	0.302
PE35_KO	0.312	0.309
PPE68_KO	0.397	0.307
glycerol2	0.245	-0.128
lignocerate	-0.192	-0.241
oleate	0.428	0.085
phosphatidylcholine	0.106	0.097
acetate	0.15	-0.575
glucAc	-0.06	-0.163
Rv0950ko	-0.121	-0.32
Rv1096ko	-0.498	-0.32
Rv3684ko	-0.052	-0.593
delta_otsA_trehalose	-0.215	0.688