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 Rv0826/-:

update plot	correlation	link to info on gene
Rv0654/-	(cc=0.4795)	info on Rv0654/-
Rv0364/-	(cc=0.4478)	info on Rv0364/-
Rv3575c/-	(cc=0.4461)	info on Rv3575c/-
Rv0402c/mmpL1	(cc=0.4363)	info on Rv0402c/mmpL1
Rv1546/-	(cc=0.4303)	info on Rv1546/-
Rv3837c/-	(cc=0.4262)	info on Rv3837c/-
Rv2187/fadD15	(cc=0.4131)	info on Rv2187/fadD15
Rv0825c/-	(cc=0.4126)	info on Rv0825c/-
Rv0645c/mmaA1	(cc=0.4096)	info on Rv0645c/mmaA1
Rv0134/ephF	(cc=0.4074)	info on Rv0134/ephF

Correlation of Rv0826/- with Rv0654/-

Normalized LFCs for Rv0826/-:
(description and provenance of datasets)

	Rv0826/-	Rv0654/-
Fe_supp_jason_reseq	-0.48	-1.487
low_pH_jason_reseq	-1.4	-2.16
NO_jason_reseq	0.845	0.706
B6_jason_reseq	0.127	-0.841
MHCII_jason_reseq	0.272	-0.807
Isoniazid02	0.013	0.458
Rifampicin4	-0.168	-0.263
Ethambutol3	-0.011	1.187
Meropenem3	0.061	0.234
Vancomycin16	-0.154	-0.308
Rv2680_day32	1.381	0.07
H37Rv_KO_MarP	0.161	0.114
hypoxia_3wks	0.0	-0.144
hypoxia_6wks	0.038	0.169
glycerol	-0.696	-0.361
cholesterol	-0.232	-0.111
AJ	0.35	0.435
Bibs02	0.339	0.122
Bibs02c	-0.118	0.426
BL6	0.35	0.212
BL6a	-0.267	-0.095
BXD01	0.556	0.139
BXD010	0.217	-0.658
BXD011	-0.054	0.296
BXD03	-0.116	-0.278
BXD04	0.293	0.053
BXD05	0.171	-0.428
BXD06	0.29	-0.155
BXD07	-0.027	-0.152
BXD08	0.383	0.054
BXD09	-0.039	-0.216
CAST	0.075	0.309
CCcont	-0.029	-0.22
DS01	0.222	0.327
DS02	0.348	0.249
DS04	0.631	0.627
DS0c	-0.104	0.547
GP01	0.061	0.208
GP02	0.156	0.613
GP0c	-0.147	0.129
NOD	-0.037	0.693
NZO	0.538	0.081
PWK	0.585	0.08
H37Rv_KO_CtpC	0.112	-0.213
H37Rv_KO_CtpD	-0.155	0.051
H37Rv_KO_Rv1272	0.09	0.049
H37Rv_KO_SugABC	0.121	0.384
H37Rv_KO_MbtN	0.803	0.231
Trans05	0.704	-0.465
macrophage_unactivated	0.388	0.391
IL1	-0.071	0.297
Rapamycin	-0.316	0.319
Tcell	0.3	-0.456
GMCSF	0.335	0.684
IFNab	-0.532	-0.027
IFNg	0.126	0.425
IFNg_GMCSF1	0.902	0.277
Rv1432_day32	1.446	0.489
Rv1565c_day32	0.074	-0.024
secA2_input	0.404	0.352
delta_Rv3594	0.119	-0.148
delta_Rv3717	0.554	-0.277
delta_Rv3811	0.306	-0.058
delta_Rv0954	0.328	0.318
PonA1	-0.304	-0.373
EccD1_KO	-0.257	0.151
EspI_KO	0.536	-0.183
PE35_KO	-0.615	-0.694
PPE68_KO	-0.656	-0.761
glycerol2	-0.015	0.773
lignocerate	0.179	0.561
oleate	0.213	0.851
phosphatidylcholine	0.262	0.664
acetate	-0.025	-0.351
glucAc	-0.139	-0.288
Rv0950ko	0.51	0.627
Rv1096ko	0.73	0.715
Rv3684ko	1.035	0.413
delta_otsA_trehalose	-0.544	-0.301